BLASTP 2.4.0+ Reference: Stephen F. Altschul, Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for composition-based statistics: Alejandro A. Schaffer, L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005. Database: proteomes.fasta 26,057 sequences; 8,167,803 total letters Query= Length=205 ***** No hits found ***** Lambda K H a alpha 0.330 0.139 0.499 0.792 4.96 Gapped Lambda K H a alpha sigma 0.267 0.0410 0.140 1.90 42.6 43.6 Effective search space used: 660814224 Query= sp|P0A6H1|CLPX_ECOLI ATP-dependent Clp protease ATP-binding subunit ClpX OS=Escherichia coli (strain K12) OX=83333 GN=clpX PE=1 SV=2\ Length=424 Score E Sequences producing significant alignments: (Bits) Value sp|P0A6H1|CLPX_ECOLI ATP-dependent Clp protease ATP-binding sub... 860 0.0 sp|Q3SI99|CLPX_THIDA ATP-dependent Clp protease ATP-binding sub... 642 0.0 sp|Q92QQ2|CLPX_RHIME ATP-dependent Clp protease ATP-binding sub... 596 0.0 sp|A5FX05|CLPX_ACICJ ATP-dependent Clp protease ATP-binding sub... 583 0.0 sp|Q165G0|CLPX_ROSDO ATP-dependent Clp protease ATP-binding sub... 582 0.0 sp|A1B1H7|CLPX_PARDP ATP-dependent Clp protease ATP-binding sub... 580 0.0 sp|A1B5T0|HSLU_PARDP ATP-dependent protease ATPase subunit HslU... 103 3e-24 sp|P0A6H5|HSLU_ECOLI ATP-dependent protease ATPase subunit HslU... 93.6 6e-21 sp|Q16CY2|HSLU_ROSDO ATP-dependent protease ATPase subunit HslU... 93.6 8e-21 sp|Q92TA7|HSLU_RHIME ATP-dependent protease ATPase subunit HslU... 92.8 1e-20 tr|A5FYD7|A5FYD7_ACICJ ATP-dependent protease ATPase subunit Hs... 92.0 2e-20 tr|Q3SFW1|Q3SFW1_THIDA ATP-dependent protease ATPase subunit Hs... 86.7 1e-18 tr|A1B8N4|A1B8N4_PARDP ATP-dependent Clp protease, ATP-binding ... 50.1 1e-06 sp|P0AAI3|FTSH_ECOLI ATP-dependent zinc metalloprotease FtsH OS... 46.2 2e-05 sp|Q168A2|RUVB_ROSDO Holliday junction branch migration complex... 45.4 3e-05 tr|Q92M98|Q92M98_RHIME ATP-dependent zinc metalloprotease FtsH ... 45.4 3e-05 tr|A5FVF9|A5FVF9_ACICJ ATP-dependent zinc metalloprotease FtsH ... 44.7 6e-05 tr|A1AZV8|A1AZV8_PARDP ATP-dependent zinc metalloprotease FtsH ... 44.3 7e-05 tr|Q3SJR4|Q3SJR4_THIDA ATP-dependent zinc metalloprotease FtsH ... 43.5 1e-04 sp|A1AZW1|RUVB_PARDP Holliday junction branch migration complex... 43.1 1e-04 sp|P0ABH9|CLPA_ECOLI ATP-dependent Clp protease ATP-binding sub... 43.1 2e-04 tr|Q3SJH1|Q3SJH1_THIDA ATP-dependent Clp protease, ATP-binding ... 42.7 3e-04 tr|A1BBJ2|A1BBJ2_PARDP ATP-dependent zinc metalloprotease FtsH ... 41.6 5e-04 tr|A1AY35|A1AY35_PARDP Chaperone protein ClpB OS=Paracoccus den... 41.6 6e-04 tr|Q16C81|Q16C81_ROSDO Chaperone protein ClpB OS=Roseobacter de... 41.2 7e-04 tr|Q167Z2|Q167Z2_ROSDO ATP-dependent zinc metalloprotease FtsH ... 41.2 7e-04 > sp|P0A6H1|CLPX_ECOLI ATP-dependent Clp protease ATP-binding subunit ClpX OS=Escherichia coli (strain K12) OX=83333 GN=clpX PE=1 SV=2 Length=424 Score = 860 bits (2223), Expect = 0.0, Method: Compositional matrix adjust. Identities = 424/424 (100%), Positives = 424/424 (100%), Gaps = 0/424 (0%) Query 1 MTDKRKDGSGKLLYCSFCGKSQHEVRKLIAGPSVYICDECVDLCNDIIREEIKEVAPHRE 60 MTDKRKDGSGKLLYCSFCGKSQHEVRKLIAGPSVYICDECVDLCNDIIREEIKEVAPHRE Sbjct 1 MTDKRKDGSGKLLYCSFCGKSQHEVRKLIAGPSVYICDECVDLCNDIIREEIKEVAPHRE 60 Query 61 RSALPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGP 120 RSALPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGP Sbjct 61 RSALPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGP 120 Query 121 TGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGI 180 TGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGI Sbjct 121 TGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGI 180 Query 181 VYIDEIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQVDT 240 VYIDEIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQVDT Sbjct 181 VYIDEIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQVDT 240 Query 241 SKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGL 300 SKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGL Sbjct 241 SKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGL 300 Query 301 IPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAK 360 IPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAK Sbjct 301 IPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAK 360 Query 361 KAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSKPLLIYGKPEAQQ 420 KAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSKPLLIYGKPEAQQ Sbjct 361 KAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSKPLLIYGKPEAQQ 420 Query 421 ASGE 424 ASGE Sbjct 421 ASGE 424 > sp|Q3SI99|CLPX_THIDA ATP-dependent Clp protease ATP-binding subunit ClpX OS=Thiobacillus denitrificans (strain ATCC 25259) OX=292415 GN=clpX PE=3 SV=1 Length=423 Score = 642 bits (1657), Expect = 0.0, Method: Compositional matrix adjust. Identities = 321/415 (77%), Positives = 359/415 (87%), Gaps = 6/415 (1%) Query 1 MTDKRKDGSG-KLLYCSFCGKSQHEVRKLIAGPSVYICDECVDLCNDIIREEIKEVAPHR 59 M DK GSG KLLYCSFCGKSQHEVRKLIAGPSV+ICDECV+LCNDIIREEI++ + Sbjct 1 MADK---GSGDKLLYCSFCGKSQHEVRKLIAGPSVFICDECVELCNDIIREEIQQADSQK 57 Query 60 ERSA-LPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLI 118 S+ LPTPHEI LD YVIGQ QAKK LAVAVYNHYKRLR+ S VEL KSNILLI Sbjct 58 GASSDLPTPHEISGILDQYVIGQGQAKKALAVAVYNHYKRLRSSSGSGDVELAKSNILLI 117 Query 119 GPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQR 178 GPTGSGKTLLA+TLARLL+VPF +ADATTLTEAGYVGEDVENIIQKLLQKCDYDV KA++ Sbjct 118 GPTGSGKTLLAQTLARLLNVPFVIADATTLTEAGYVGEDVENIIQKLLQKCDYDVDKAKQ 177 Query 179 GIVYIDEIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQV 238 GIVYIDEIDKISRK+DNPSITRDVSGEGVQQALLKLIEGT A+VPPQGGRKHP QEF+QV Sbjct 178 GIVYIDEIDKISRKADNPSITRDVSGEGVQQALLKLIEGTTASVPPQGGRKHPNQEFVQV 237 Query 239 DTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKF 298 DTS ILFICGGAF+GL+KVI R E G GIGFGA VK + + ELL QVEPEDLIK+ Sbjct 238 DTSNILFICGGAFSGLEKVIRGRTEKG-GIGFGAQVKNVDENKRDAELLHQVEPEDLIKY 296 Query 299 GLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAI 358 GLIPEF+GRLPVVATL+EL E AL+QIL EPKNALTKQ+ LF +EGVDLEFRD+AL+AI Sbjct 297 GLIPEFVGRLPVVATLDELDEAALVQILTEPKNALTKQFAKLFKMEGVDLEFRDDALNAI 356 Query 359 AKKAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSKPLLIY 413 AK+A+ R+TGARGLRSI+E ALLDTMYDLPS++ V KVV+D ++I G+ +PLLIY Sbjct 357 AKRALLRRTGARGLRSIIEHALLDTMYDLPSLKGVSKVVVDNALISGEGQPLLIY 411 > sp|Q92QQ2|CLPX_RHIME ATP-dependent Clp protease ATP-binding subunit ClpX OS=Rhizobium meliloti (strain 1021) OX=266834 GN=clpX PE=3 SV=1 Length=425 Score = 596 bits (1537), Expect = 0.0, Method: Compositional matrix adjust. Identities = 291/407 (71%), Positives = 346/407 (85%), Gaps = 3/407 (1%) Query 9 SGKLLYCSFCGKSQHEVRKLIAGPSVYICDECVDLCNDIIREEIKEVAPHRERSALPTPH 68 S LYCSFCGKSQHEVRKLIAGP+V+ICDECV+LC DIIREE K + + R +PTP Sbjct 12 SKNTLYCSFCGKSQHEVRKLIAGPTVFICDECVELCMDIIREENK-TSMVKSRDGVPTPQ 70 Query 69 EIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLL 128 EI LD+YVIGQ+QAK++L+VAV+NHYKRL + S+ VEL KSNI+L+GPTG GKT L Sbjct 71 EIIKVLDEYVIGQQQAKRILSVAVHNHYKRLAHAAKSSDVELAKSNIMLVGPTGCGKTYL 130 Query 129 AETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDK 188 A+TLAR++DVPFTMADATTLTEAGYVGEDVENII KLLQ DY+V++AQRGIVYIDE+DK Sbjct 131 AQTLARIIDVPFTMADATTLTEAGYVGEDVENIILKLLQAADYNVERAQRGIVYIDEVDK 190 Query 189 ISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQVDTSKILFICG 248 ISRKSDNPSITRDVSGEGVQQALLK++EGTVA+VPPQGGRKHPQQEFLQVDT+ ILFICG Sbjct 191 ISRKSDNPSITRDVSGEGVQQALLKIMEGTVASVPPQGGRKHPQQEFLQVDTTNILFICG 250 Query 249 GAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIGRL 308 GAFAGLDK+IS R E S IGFGATV+A D+ GE+L ++EPEDL+KFGLIPEFIGRL Sbjct 251 GAFAGLDKIISARGEKTS-IGFGATVRAPEDRRV-GEVLRELEPEDLVKFGLIPEFIGRL 308 Query 309 PVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTG 368 PV+ATL +L E+ALIQIL EPKNAL KQYQ LF +E V+L F ++AL IA++A+ RKTG Sbjct 309 PVLATLEDLDEDALIQILSEPKNALVKQYQRLFEMEDVELNFHEDALREIARRAIVRKTG 368 Query 369 ARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSKPLLIYGK 415 ARGLRSI+E LLDTM++LP++E V +VVI + V+ G ++PL IY + Sbjct 369 ARGLRSIMEKILLDTMFELPTLEGVREVVISDEVVKGTARPLYIYSE 415 > sp|A5FX05|CLPX_ACICJ ATP-dependent Clp protease ATP-binding subunit ClpX OS=Acidiphilium cryptum (strain JF-5) OX=349163 GN=clpX PE=3 SV=1 Length=418 Score = 583 bits (1504), Expect = 0.0, Method: Compositional matrix adjust. Identities = 287/422 (68%), Positives = 350/422 (83%), Gaps = 4/422 (1%) Query 1 MTDKRKDGSGKLLYCSFCGKSQHEVRKLIAGPSVYICDECVDLCNDIIREEIKEVAPHRE 60 M+ K D S LYCSFCGKSQHEV KLIAGP+V+IC+ECV+LC DIIRE+ + Sbjct 1 MSTKSGD-SKNTLYCSFCGKSQHEVVKLIAGPTVFICNECVELCMDIIRED-NRTHLVKT 58 Query 61 RSALPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGP 120 R +PTP EI LDDYVIGQ+ AK++L+VAV+NHYKRL + +N +E+ KSNI+L+GP Sbjct 59 RDGVPTPREICKVLDDYVIGQDHAKRILSVAVHNHYKRLAHAQKNNDIEIAKSNIMLVGP 118 Query 121 TGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGI 180 TGSGKTLLA+TLAR+LDVPFTMADATTLTEAGYVGEDVENII KLLQ DY+V++AQRGI Sbjct 119 TGSGKTLLAQTLARILDVPFTMADATTLTEAGYVGEDVENIILKLLQAADYNVERAQRGI 178 Query 181 VYIDEIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQVDT 240 VYIDE+DKISRKSDNPSITRDVSGEGVQQALLK++EGTVA+VPPQGGRKHPQQEFLQVDT Sbjct 179 VYIDEVDKISRKSDNPSITRDVSGEGVQQALLKIMEGTVASVPPQGGRKHPQQEFLQVDT 238 Query 241 SKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGL 300 + ILFICGGAFAGL+K+I+ R + GSGIGFGA V+ +++ + G +L +VEPEDL+KFGL Sbjct 239 TNILFICGGAFAGLEKIIAQRGK-GSGIGFGADVRDPTEQRT-GAILREVEPEDLLKFGL 296 Query 301 IPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAK 360 IPEFIGRLPVVATL +L E ALI+IL +PKNAL KQY LF +EGV L F ++AL +A Sbjct 297 IPEFIGRLPVVATLEDLDEAALIEILTKPKNALVKQYGRLFEMEGVKLNFTEDALKVVAA 356 Query 361 KAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSKPLLIYGKPEAQQ 420 +A+ RKTGARGLRSI+E LL+TM+DLP ++ VE+VVI+ V +G++ PL ++GK A+ Sbjct 357 RAIQRKTGARGLRSIMENILLETMFDLPGLDSVEEVVINGEVAEGRANPLFLHGKERAET 416 Query 421 AS 422 S Sbjct 417 GS 418 > sp|Q165G0|CLPX_ROSDO ATP-dependent Clp protease ATP-binding subunit ClpX OS=Roseobacter denitrificans (strain ATCC 33942 / OCh 114) OX=375451 GN=clpX PE=3 SV=1 Length=421 Score = 582 bits (1499), Expect = 0.0, Method: Compositional matrix adjust. Identities = 286/416 (69%), Positives = 341/416 (82%), Gaps = 4/416 (1%) Query 8 GSGK-LLYCSFCGKSQHEVRKLIAGPSVYICDECVDLCNDIIREEIKEVAPHRERSALPT 66 G GK LYCSFCGKSQHEVRKLIAGP+V+ICDECV+LC DIIREE K + + +PT Sbjct 7 GDGKNTLYCSFCGKSQHEVRKLIAGPTVFICDECVELCMDIIREETK-ASGLKATDGVPT 65 Query 67 PHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKT 126 P +I LDDYVIGQ AK+VL+VAV+NHYKRL + +EL KSNILLIGPTG GKT Sbjct 66 PKDICAVLDDYVIGQAMAKRVLSVAVHNHYKRLNHAQKGGDIELAKSNILLIGPTGCGKT 125 Query 127 LLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEI 186 LLA+TLAR+LDVPFTMADATTLTEAGYVGEDVENII KLLQ +Y+V++AQRGIVYIDE+ Sbjct 126 LLAQTLARILDVPFTMADATTLTEAGYVGEDVENIILKLLQSSEYNVERAQRGIVYIDEV 185 Query 187 DKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQVDTSKILFI 246 DKI+RKS+NPSITRDVSGEGVQQALLKL+EGTVA+VPPQGGRKHPQQEFLQVDT+ ILFI Sbjct 186 DKITRKSENPSITRDVSGEGVQQALLKLMEGTVASVPPQGGRKHPQQEFLQVDTTNILFI 245 Query 247 CGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIG 306 CGGAFAGLDK+I+ R + GS +GFGA V+ D+ GE+ +EPEDL+KFGLIPEF+G Sbjct 246 CGGAFAGLDKIIAARGK-GSAMGFGADVRGNDDRGV-GEIFTDLEPEDLLKFGLIPEFVG 303 Query 307 RLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARK 366 RLPV+ATL +L E+AL+ IL +PKNAL KQYQ LF LE +L F D+AL AIAK+A+ RK Sbjct 304 RLPVLATLEDLDEDALVTILTQPKNALVKQYQRLFELEDTELTFTDDALSAIAKRAIERK 363 Query 367 TGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSKPLLIYGKPEAQQAS 422 TGARGLRSI+E LLDTM+DLP +E V +VV++E ++ + PL+I+ + AS Sbjct 364 TGARGLRSILEDILLDTMFDLPGLESVTEVVVNEEAVNSDAAPLMIHADASKEPAS 419 > sp|A1B1H7|CLPX_PARDP ATP-dependent Clp protease ATP-binding subunit ClpX OS=Paracoccus denitrificans (strain Pd 1222) OX=318586 GN=clpX PE=3 SV=1 Length=421 Score = 580 bits (1495), Expect = 0.0, Method: Compositional matrix adjust. Identities = 296/416 (71%), Positives = 346/416 (83%), Gaps = 5/416 (1%) Query 9 SGKLLYCSFCGKSQHEVRKLIAGPSVYICDECVDLCNDIIREEIKEVAPHRERSALPTPH 68 S LYCSFCGKSQHEVRKLIAGP+V+ICDECV+LC DIIREE K A + +PTP Sbjct 9 SKNTLYCSFCGKSQHEVRKLIAGPTVFICDECVELCMDIIREETKSSA-LKSGDGVPTPR 67 Query 69 EIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLL 128 EI N LDDYVIGQE AK+VL+VAV+NHYKRL N + +EL KSNILLIGPTG GKTLL Sbjct 68 EICNVLDDYVIGQEHAKRVLSVAVHNHYKRL-NHSSKTDIELAKSNILLIGPTGCGKTLL 126 Query 129 AETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDK 188 A+TLAR+LDVPFTMADATTLTEAGYVGEDVENII KLLQ +Y+V++AQRGIVYIDE+DK Sbjct 127 AQTLARILDVPFTMADATTLTEAGYVGEDVENIILKLLQASEYNVERAQRGIVYIDEVDK 186 Query 189 ISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQVDTSKILFICG 248 I+RKSDNPSITRDVSGEGVQQALLK++EGTVA+VPPQGGRKHPQQEFLQVDT+ ILFICG Sbjct 187 ITRKSDNPSITRDVSGEGVQQALLKIMEGTVASVPPQGGRKHPQQEFLQVDTTNILFICG 246 Query 249 GAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIGRL 308 GAFAGLD++I+ R G+ +GFGA VK DK GEL Q+EPEDL+KFGLIPEF+GRL Sbjct 247 GAFAGLDRIIAQR-NKGTAMGFGAAVKEDDDKGV-GELFKQLEPEDLLKFGLIPEFVGRL 304 Query 309 PVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTG 368 PV+ATL +L E+ALI IL +PKNAL KQYQ LF+LE V L F ++AL AIAK+A+ RKTG Sbjct 305 PVIATLGDLDEQALITILTQPKNALVKQYQRLFDLESVKLTFTEDALTAIAKRAIKRKTG 364 Query 369 ARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDG-QSKPLLIYGKPEAQQASG 423 ARGLRSI+E LLDTM+DLP M+ VE+VV++E +D +KPLLI+ + + AS Sbjct 365 ARGLRSIMEDILLDTMFDLPGMDSVEEVVVNEEAVDNPTAKPLLIHTDSKKETASA 420 > sp|A1B5T0|HSLU_PARDP ATP-dependent protease ATPase subunit HslU OS=Paracoccus denitrificans (strain Pd 1222) OX=318586 GN=hslU PE=3 SV=1 Length=435 Score = 103 bits (257), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 58/144 (40%), Positives = 83/144 (58%), Gaps = 6/144 (4%) Query 66 TPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGK 125 TP EI + LD ++IGQ AK+ +AVA+ N ++R + GD E+ NIL+IGPTG GK Sbjct 5 TPREIVSELDRFIIGQRDAKRAVAVALRNRWRRRQLGDDLRD-EVYPKNILMIGPTGVGK 63 Query 126 TLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDE 185 T ++ LARL PF +AT TE GYVG DVE II+ L + ++ R DE Sbjct 64 TEISRRLARLARAPFLKVEATKFTEVGYVGRDVEQIIRDLADAAVIETRERMR-----DE 118 Query 186 IDKISRKSDNPSITRDVSGEGVQQ 209 + + KS + ++GEG ++ Sbjct 119 VKARAHKSAEDRVVAALAGEGARE 142 Score = 94.4 bits (233), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 76/233 (33%), Positives = 107/233 (46%), Gaps = 60/233 (26%) Query 177 QRGIVYIDEIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFL 236 + GIV+IDEIDK++ ++D DVS EGVQ+ LL LIEGT + ++ Sbjct 241 ENGIVFIDEIDKVAARTDARG--GDVSREGVQRDLLPLIEGTTVST-----------KYG 287 Query 237 QVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLI 296 V T ILFI GAF H +P DL+ Sbjct 288 PVRTDHILFIASGAF--------H----------------------------IAKPSDLL 311 Query 297 KFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALD 356 PE GRLP+ L L+EE I+IL E NALT+QY AL EGV ++F + + Sbjct 312 -----PELQGRLPIRVELRALTEEDFIRILTETDNALTRQYTALMATEGVTVQFIQDGIR 366 Query 357 AIAKKAM-----ARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVID 404 A+A+ A GAR L +++E + + P E VV+D + ++ Sbjct 367 ALARIAAEVNGSVENIGARRLYTVIERVFEELSFSAPDRSG-ETVVVDAAFVE 418 > sp|P0A6H5|HSLU_ECOLI ATP-dependent protease ATPase subunit HslU OS=Escherichia coli (strain K12) OX=83333 GN=hslU PE=1 SV=1 Length=443 Score = 93.6 bits (231), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 45/100 (45%), Positives = 69/100 (69%), Gaps = 1/100 (1%) Query 66 TPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGK 125 TP EI + LD ++IGQ+ AK+ +A+A+ N ++R++ + E+ NIL+IGPTG GK Sbjct 5 TPREIVSELDKHIIGQDNAKRSVAIALRNRWRRMQLNEELRH-EVTPKNILMIGPTGVGK 63 Query 126 TLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKL 165 T +A LA+L + PF +AT TE GYVG++V++II+ L Sbjct 64 TEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDL 103 Score = 89.7 bits (221), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 72/215 (33%), Positives = 95/215 (44%), Gaps = 59/215 (27%) Query 177 QRGIVYIDEIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFL 236 Q GIV+IDEIDKI ++ + S DVS EGVQ+ LL L+EG + KH Sbjct 249 QHGIVFIDEIDKICKRGE--SSGPDVSREGVQRDLLPLVEGCTVST------KHGM---- 296 Query 237 QVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLI 296 V T ILFI GAF + SD Sbjct 297 -VKTDHILFIASGAF---------------------QIAKPSD----------------- 317 Query 297 KFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALD 356 LIPE GRLP+ L L+ +IL EP ++T QY+AL EGV++EF D + Sbjct 318 ---LIPELQGRLPIRVELQALTTSDFERILTEPNASITVQYKALMATEGVNIEFTDSGIK 374 Query 357 AIAKKAM-----ARKTGARGLRSIVEAALLDTMYD 386 IA+ A GAR L +++E + + YD Sbjct 375 RIAEAAWQVNESTENIGARRLHTVLERLMEEISYD 409 > sp|Q16CY2|HSLU_ROSDO ATP-dependent protease ATPase subunit HslU OS=Roseobacter denitrificans (strain ATCC 33942 / OCh 114) OX=375451 GN=hslU PE=3 SV=1 Length=435 Score = 93.6 bits (231), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 78/235 (33%), Positives = 106/235 (45%), Gaps = 64/235 (27%) Query 177 QRGIVYIDEIDKISRKSDNPSITR--DVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQE 234 Q GIV++DEIDK+ KSD TR DVS EGVQ+ LL LIEGT + KH Sbjct 241 QNGIVFLDEIDKVCAKSD----TRGGDVSREGVQRDLLPLIEGTTVST------KHGP-- 288 Query 235 FLQVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPED 294 + T ILFI GAF +P D Sbjct 289 ---IKTDHILFIASGAFH------------------------------------IAKPSD 309 Query 295 LIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEA 354 L+ PE GRLP+ L L+EE ++IL E NALT QY AL E V + F ++ Sbjct 310 LL-----PELQGRLPIRVELRALTEEDFVRILTETDNALTLQYTALMGTEEVTVSFTEDG 364 Query 355 LDAIAKKAM-----ARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVID 404 + A+AK A GAR L +++E + + P E++++D + +D Sbjct 365 IAALAKIAAEVNQSVENIGARRLYTVMERVFEELSFSAPDRAG-EEIIVDAAFVD 418 Score = 93.2 bits (230), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 48/104 (46%), Positives = 65/104 (63%), Gaps = 1/104 (1%) Query 66 TPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGK 125 TP EI + LD ++IGQ AK+ +AVA+ N ++R + D E+ NIL+IGPTG GK Sbjct 5 TPREIVSELDRFIIGQNDAKRAVAVALRNRWRRKQLADDLRD-EVYPKNILMIGPTGVGK 63 Query 126 TLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKC 169 T ++ LA+L PF +AT TE GYVG DVE II+ L+ Sbjct 64 TEISRRLAKLARAPFLKVEATKFTEVGYVGRDVEQIIRDLVDNA 107 > sp|Q92TA7|HSLU_RHIME ATP-dependent protease ATPase subunit HslU OS=Rhizobium meliloti (strain 1021) OX=266834 GN=hslU PE=3 SV=1 Length=435 Score = 92.8 bits (229), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 46/102 (45%), Positives = 67/102 (66%), Gaps = 1/102 (1%) Query 66 TPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGK 125 +P EI + LD Y+IGQ+ AK+ +A+A+ N ++R + D E+ NIL+IGPTG GK Sbjct 5 SPREIVSELDRYIIGQKDAKRAVAIALRNRWRRQQLDDELRD-EVMPKNILMIGPTGVGK 63 Query 126 TLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQ 167 T ++ LA+L PF +AT TE GYVG DVE I++ L++ Sbjct 64 TEISRRLAKLAGAPFVKVEATKFTEVGYVGRDVEQIVRDLVE 105 Score = 90.5 bits (223), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 71/215 (33%), Positives = 102/215 (47%), Gaps = 59/215 (27%) Query 179 GIVYIDEIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQV 238 GIV++DEIDKI+ + I VS EGVQ+ LL L+EGT A ++ V Sbjct 243 GIVFLDEIDKIATREG--GIGAGVSREGVQRDLLPLVEGTTVAT-----------KYGPV 289 Query 239 DTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKF 298 T ILFI GAF H +P DL+ Sbjct 290 KTDHILFIASGAF--------H----------------------------VAKPSDLL-- 311 Query 299 GLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAI 358 PE GRLP+ L L++E +IL E + +L +QY+AL EGV L+F ++A+DA+ Sbjct 312 ---PELQGRLPIRVELRALTKEDFRRILTETEASLIRQYKALLETEGVALDFTEDAIDAL 368 Query 359 AKKAM-----ARKTGARGLRSIVEAALLDTMYDLP 388 A+ A+ GAR L++++E L D ++ P Sbjct 369 AEVAVQLNANVENIGARRLQTVMERVLDDVSFNAP 403 > tr|A5FYD7|A5FYD7_ACICJ ATP-dependent protease ATPase subunit HslU OS=Acidiphilium cryptum (strain JF-5) OX=349163 GN=hslU PE=3 SV=1 Length=439 Score = 92.0 bits (227), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 46/104 (44%), Positives = 69/104 (66%), Gaps = 5/104 (5%) Query 66 TPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGV--ELGKSNILLIGPTGS 123 TP EI + LD +++GQ+ AK+ +A+A+ N ++R + G+ E+ NIL+IGPTG Sbjct 8 TPREIVSELDRFIVGQQDAKRAVAIALRNRWRRQQ---LPEGLREEVVPKNILMIGPTGC 64 Query 124 GKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQ 167 GKT +A LA+L PF +AT TE GYVG DVE+I++ L++ Sbjct 65 GKTEIARRLAKLAQAPFIKVEATKFTEVGYVGRDVESIVRDLVE 108 Score = 83.6 bits (205), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 81/251 (32%), Positives = 113/251 (45%), Gaps = 58/251 (23%) Query 169 CDYDVQKAQRGIVYIDEIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGR 228 D + GIV++DEIDKI ++++ DVS EGVQ+ LL LIEGT + Sbjct 235 ADARLHAETHGIVFLDEIDKICARTESGFRGGDVSREGVQRDLLPLIEGTTVST------ 288 Query 229 KHPQQEFLQVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLA 288 ++ V T ILFI GAF V SD Sbjct 289 -----KYGPVKTDHILFIASGAFH---------------------VAKPSD--------- 313 Query 289 QVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDL 348 L+PE GRLP+ L LS E +IL EP+++L KQY AL E VDL Sbjct 314 -----------LLPELQGRLPIRVELASLSREDFRRILTEPEHSLLKQYVALMKTENVDL 362 Query 349 EFRDEALDAIAKKAM-----ARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVI 403 F D+A+DA+A A GAR L +++E LL+ + + E V +D +++ Sbjct 363 HFTDDAVDAVAALAADINDRVENIGARRLATVLE-RLLEEISFAATDRAGETVTVDAALV 421 Query 404 DGQSKPLLIYG 414 + + PL G Sbjct 422 NDKVAPLAARG 432 > tr|Q3SFW1|Q3SFW1_THIDA ATP-dependent protease ATPase subunit HslU OS=Thiobacillus denitrificans (strain ATCC 25259) OX=292415 GN=hslU PE=3 SV=1 Length=438 Score = 86.7 bits (213), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 79/236 (33%), Positives = 102/236 (43%), Gaps = 66/236 (28%) Query 177 QRGIVYIDEIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFL 236 Q GIV++DEIDKI+ +SD DVS +GVQ+ LL LIEGT + ++ Sbjct 245 QNGIVFLDEIDKIATRSDAHG--SDVSRQGVQRDLLPLIEGTTVST-----------KYG 291 Query 237 QVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLI 296 V T ILFI GAF L K P DLI Sbjct 292 MVKTDHILFIASGAF-HLSK-----------------------------------PSDLI 315 Query 297 KFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALD 356 PE GRLP+ L LS + +IL LT+QY+AL EGV L F + + Sbjct 316 -----PELQGRLPIRVELQALSVDDFERILTATDACLTRQYEALLATEGVALRFTEGGIR 370 Query 357 AIAKKAM-----ARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQS 407 IA+ A GAR L +++E L D +D S V E VID ++ Sbjct 371 RIAEIAFEVNERTENIGARRLHTVMEKLLEDISFDAGS-------VTGEHVIDAEA 419 Score = 83.2 bits (204), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 46/104 (44%), Positives = 67/104 (64%), Gaps = 1/104 (1%) Query 66 TPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGK 125 TP EI + LD +++GQ AK+ +AVA+ N ++R + + E+ NIL+IGPTG GK Sbjct 2 TPKEIVHELDKHIVGQAAAKRAVAVALRNRWRRQQVAEPLRQ-EITPKNILMIGPTGVGK 60 Query 126 TLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKC 169 T +A LARL + PF +AT TE GYVG DV+ I++ L++ Sbjct 61 TEIARRLARLANAPFIKIEATKFTEVGYVGRDVDTIVRDLMETA 104 > tr|A1B8N4|A1B8N4_PARDP ATP-dependent Clp protease, ATP-binding subunit clpA OS=Paracoccus denitrificans (strain Pd 1222) OX=318586 GN=Pden_3812 PE=3 SV=1 Length=772 Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 75/315 (24%), Positives = 119/315 (38%), Gaps = 72/315 (23%) Query 74 LDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLA 133 L V GQ+ A + L+ A+ LR + G N L GPTG GKT +A+ LA Sbjct 465 LKRLVFGQDAAIEALSSAIKLARAGLREPEKPIG------NYLFAGPTGVGKTEVAKQLA 518 Query 134 RLLDVPFTMADATTLTE-----------AGYVGEDVENIIQKLLQKCDYDVQKAQRGIVY 182 L V D + E GYVG D ++ V + ++ Sbjct 519 STLGVELLRFDMSEYMEKHAVSRLIGAPPGYVGFDQGGLLTD-------GVDQHPHCVLL 571 Query 183 IDEIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQVDTSK 242 +DEI+K + V LL++++ + GR QVD Sbjct 572 LDEIEK--------------AHPDVYNILLQVMDH--GKLTDHNGR--------QVDFRN 607 Query 243 ILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIP 302 ++ I + + + GFG + D A+ I+ P Sbjct 608 VILI-------MTSNAGAADQAKAAFGFGRERREGEDTAA-------------IERTFTP 647 Query 303 EFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKA 362 EF RL V + LS E ++Q++++ Q +A GV +E EA D +A++ Sbjct 648 EFRNRLDAVISFAPLSREIIVQVVEK----FVLQLEAQLIDRGVHIELTAEAADWLAERG 703 Query 363 MARKTGARGLRSIVE 377 K GAR L +++ Sbjct 704 YDEKMGARPLGRVIQ 718 > sp|P0AAI3|FTSH_ECOLI ATP-dependent zinc metalloprotease FtsH OS=Escherichia coli (strain K12) OX=83333 GN=ftsH PE=1 SV=1 Length=644 Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 27/78 (35%), Positives = 41/78 (53%), Gaps = 6/78 (8%) Query 115 ILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQ 174 +L++GP G+GKTLLA+ +A VPF + E +VG + Q + Sbjct 188 VLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEM-FVGVGASRVRDMFEQ-----AK 241 Query 175 KAQRGIVYIDEIDKISRK 192 KA I++IDEID + R+ Sbjct 242 KAAPCIIFIDEIDAVGRQ 259 > sp|Q168A2|RUVB_ROSDO Holliday junction branch migration complex subunit RuvB OS=Roseobacter denitrificans (strain ATCC 33942 / OCh 114) OX=375451 GN=ruvB PE=3 SV=1 Length=340 Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 40/149 (27%), Positives = 68/149 (46%), Gaps = 31/149 (21%) Query 52 IKEVAPHRERSALPTPHE--IRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVE 109 + ++ P LP H+ +R + +GQ +A+ L V + + +R G+ + Sbjct 1 MSDIDPTVRADPLPEDHDRALRPQMLSEFVGQAEARANLKVFIASARQR---GEAMD--- 54 Query 110 LGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKC 169 + L GP G GKT LA+ +AR L V F M L +AG D+ I+ L Sbjct 55 ----HTLFHGPPGLGKTTLAQIMARELGVGFRMTSGPVLAKAG----DLAAILTNL---- 102 Query 170 DYDVQKAQRGIVYIDEIDKISRKSDNPSI 198 +R +++IDEI ++ NP++ Sbjct 103 ------EKRDVLFIDEIHRL-----NPAV 120 > tr|Q92M98|Q92M98_RHIME ATP-dependent zinc metalloprotease FtsH OS=Rhizobium meliloti (strain 1021) OX=266834 GN=ftsH PE=3 SV=1 Length=645 Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 27/77 (35%), Positives = 40/77 (52%), Gaps = 6/77 (8%) Query 115 ILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQ 174 +LL+GP G+GKTLLA ++A +VPF + E +VG + Q + Sbjct 194 VLLVGPPGTGKTLLARSVAGEANVPFFTISGSDFVEM-FVGVGASRVRDMFEQ-----AK 247 Query 175 KAQRGIVYIDEIDKISR 191 K I++IDEID + R Sbjct 248 KNAPCIIFIDEIDAVGR 264 > tr|A5FVF9|A5FVF9_ACICJ ATP-dependent zinc metalloprotease FtsH OS=Acidiphilium cryptum (strain JF-5) OX=349163 GN=ftsH PE=3 SV=1 Length=641 Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust. Identities = 27/77 (35%), Positives = 39/77 (51%), Gaps = 6/77 (8%) Query 115 ILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQ 174 +LL+GP G+GKTLLA +A +VPF + E +VG + Q + Sbjct 193 VLLVGPPGTGKTLLARAIAGEANVPFFTISGSDFVEM-FVGVGASRVRDMFEQG-----K 246 Query 175 KAQRGIVYIDEIDKISR 191 K I++IDEID + R Sbjct 247 KNAPCIIFIDEIDAVGR 263 > tr|A1AZV8|A1AZV8_PARDP ATP-dependent zinc metalloprotease FtsH OS=Paracoccus denitrificans (strain Pd 1222) OX=318586 GN=ftsH PE=3 SV=1 Length=631 Score = 44.3 bits (103), Expect = 7e-05, Method: Compositional matrix adjust. Identities = 28/76 (37%), Positives = 38/76 (50%), Gaps = 6/76 (8%) Query 116 LLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQK 175 LL+GP G+GKTLLA +A VPF + E +VG + Q +K Sbjct 191 LLVGPPGTGKTLLARAIAGEAGVPFFTISGSDFVEM-FVGVGASRVRDMFEQ-----AKK 244 Query 176 AQRGIVYIDEIDKISR 191 + IV+IDEID + R Sbjct 245 SAPCIVFIDEIDAVGR 260 > tr|Q3SJR4|Q3SJR4_THIDA ATP-dependent zinc metalloprotease FtsH OS=Thiobacillus denitrificans (strain ATCC 25259) OX=292415 GN=ftsH PE=3 SV=1 Length=630 Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 6/78 (8%) Query 115 ILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQ 174 +L++GP G+GKTLLA ++A VPF + E +VG + Q + Sbjct 190 VLMVGPPGTGKTLLARSIAGEAKVPFFSISGSDFVEM-FVGVGAARVRDMFEQ-----AK 243 Query 175 KAQRGIVYIDEIDKISRK 192 K I++IDEID + R+ Sbjct 244 KNAPCIIFIDEIDAVGRQ 261 > sp|A1AZW1|RUVB_PARDP Holliday junction branch migration complex subunit RuvB OS=Paracoccus denitrificans (strain Pd 1222) OX=318586 GN=ruvB PE=3 SV=1 Length=341 Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust. Identities = 38/127 (30%), Positives = 57/127 (45%), Gaps = 30/127 (24%) Query 72 NHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAET 131 L+D+V GQ +A+ L V + + R + D + L GP G GKT LA+ Sbjct 25 QRLEDFV-GQAEARANLRVFIESARMRGKAMD----------HTLFHGPPGLGKTTLAQI 73 Query 132 LARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDKISR 191 +AR L V F M L AG D+ I+ L R +++IDEI ++ Sbjct 74 MARELGVNFKMTSGPVLARAG----DLAAILTNL----------EARDVLFIDEIHRM-- 117 Query 192 KSDNPSI 198 NP++ Sbjct 118 ---NPAV 121 > sp|P0ABH9|CLPA_ECOLI ATP-dependent Clp protease ATP-binding subunit ClpA OS=Escherichia coli (strain K12) OX=83333 GN=clpA PE=1 SV=1 Length=758 Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 34/89 (38%), Positives = 45/89 (51%), Gaps = 16/89 (18%) Query 112 KSNILLIGPTGSGKTLLAETLARLL---DVPFTMADATT--------LTEAGYVGEDVEN 160 K+N LL+G +G GKT +AE LA + DVP MAD T L Y G D E Sbjct 207 KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRG-DFEK 265 Query 161 IIQKLLQKCDYDVQKAQRGIVYIDEIDKI 189 + LL++ + D I++IDEI I Sbjct 266 RFKALLKQLEQDTN----SILFIDEIHTI 290 > tr|Q3SJH1|Q3SJH1_THIDA ATP-dependent Clp protease, ATP-binding subunit OS=Thiobacillus denitrificans (strain ATCC 25259) OX=292415 GN=Tbd_1237 PE=3 SV=1 Length=750 Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 78/325 (24%), Positives = 123/325 (38%), Gaps = 74/325 (23%) Query 74 LDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLA 133 L V GQ+ A L+ A+ L N G N L GPTG GKT +A LA Sbjct 455 LKAVVYGQDAAIDALSTAIKMSRSGLGNPQKPIG------NFLFSGPTGVGKTEVARQLA 508 Query 134 RLLDVPFTMADATTLTE-----------AGYVGEDVENIIQKLLQKCDYDVQKAQRGIVY 182 +L V D + E GYVG D ++ + + K Y +V Sbjct 509 YVLGVELIRFDMSEYMERHAVSRLIGAPPGYVGFDQGGLLTEAVTKHPY-------AVVL 561 Query 183 IDEIDKISRKSDNPSITRDVSGEGVQQALLKLIE-GTVAAVPPQGGRKHPQQEFLQVDTS 241 +DE++K +P I LL++++ GT+ GRK +F V Sbjct 562 LDEVEKA-----HPDIF---------NVLLQVMDHGTLTDT---NGRK---ADFRNV--- 598 Query 242 KILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLI 301 +L + A A + + IGF A + D+ E IK Sbjct 599 -VLIMTTNAGA--------EMLNKATIGF-AGARESGDEMGE------------IKRMFT 636 Query 302 PEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKK 361 PEF RL + LSE ++Q++++ Q + + + V+ F D +AK Sbjct 637 PEFRNRLDAIIPFAPLSEPVILQVVEK----FLMQLEEQLHEKKVEAVFTDALKAYLAKH 692 Query 362 AMARKTGARGLRSIVEAALLDTMYD 386 GAR + +++ + + D Sbjct 693 GFDPSMGARPMARLIQDTIRKALAD 717 > tr|A1BBJ2|A1BBJ2_PARDP ATP-dependent zinc metalloprotease FtsH OS=Paracoccus denitrificans (strain Pd 1222) OX=318586 GN=ftsH PE=3 SV=1 Length=610 Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 26/85 (31%), Positives = 44/85 (52%), Gaps = 6/85 (7%) Query 115 ILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQ 174 +LL+GP G+GKTLLA +A V F + E +VG ++ L ++ + Sbjct 192 VLLVGPPGTGKTLLARAVAGEAGVTFLSISGSEFVEL-FVGVGAAR-VRDLFEQA----R 245 Query 175 KAQRGIVYIDEIDKISRKSDNPSIT 199 K+ I++IDE+D + R ++ T Sbjct 246 KSAPAIIFIDELDALGRARNSGQFT 270 > tr|A1AY35|A1AY35_PARDP Chaperone protein ClpB OS=Paracoccus denitrificans (strain Pd 1222) OX=318586 GN=clpB PE=3 SV=1 Length=875 Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust. Identities = 79/348 (23%), Positives = 135/348 (39%), Gaps = 84/348 (24%) Query 74 LDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLA 133 L VIGQ +A A+ N +R R G LG + L +GPTG GKT L + +A Sbjct 564 LSKRVIGQSEA----VTAISNAVRRARAGLNDPKRPLG--SFLFLGPTGVGKTELTKAIA 617 Query 134 RLL---DVPFTMADATTLTEA-----------GYVGEDVENIIQKLLQKCDYDVQKAQRG 179 L D D + E GYVG D ++ + +++ Y V Sbjct 618 EYLFDDDSAMVRIDMSEFMEKHSVARLIGAPPGYVGYDEGGVLTEAVRRRPYQV------ 671 Query 180 IVYIDEIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQVD 239 + DE++K D ++ V +G +L +G GR VD Sbjct 672 -ILFDEVEKA--HPDVFNVLLQVLDDG------QLTDGQ--------GRT--------VD 706 Query 240 TSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFG 299 + L + S +G A + A + A G+ AQV D ++ Sbjct 707 FKQTLIVL-----------------TSNLGAQA-LSALPEGADSGQARAQV--MDAVRAH 746 Query 300 LIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIA 359 PEF+ RL + + L+ E + I++ Q + + L+ + AL +A Sbjct 747 FRPEFLNRLDEIIIFHRLTRENMDGIVR----IQLWQLETRLAQHKIGLDLDEAALKWLA 802 Query 360 KKAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQS 407 + GAR L+ +++ +L + + ++ ++ V+DGQ+ Sbjct 803 DEGYDPVFGARPLKRVMQRSLQNPLAEM---------ILAGEVLDGQT 841 > tr|Q16C81|Q16C81_ROSDO Chaperone protein ClpB OS=Roseobacter denitrificans (strain ATCC 33942 / OCh 114) OX=375451 GN=clpB PE=3 SV=1 Length=872 Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 38/133 (29%), Positives = 56/133 (42%), Gaps = 27/133 (20%) Query 70 IRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLA 129 + + L VIGQ A + A+ N +R R G LG + L +GPTG GKT L Sbjct 561 MEDQLHGRVIGQNSAVR----AISNAVRRARAGLNDENRPLG--SFLFLGPTGVGKTELT 614 Query 130 ETLARLL---DVPFTMADATTLTEA-----------GYVGEDVENIIQKLLQKCDYDVQK 175 + +A L D D + E GYVG D ++ + +++ Y V Sbjct 615 KAVAEFLFDDDNAMVRIDMSEFMEKHAVARLIGAPPGYVGYDEGGVLTEAVRRRPYQV-- 672 Query 176 AQRGIVYIDEIDK 188 V DE++K Sbjct 673 -----VLFDEVEK 680 > tr|Q167Z2|Q167Z2_ROSDO ATP-dependent zinc metalloprotease FtsH OS=Roseobacter denitrificans (strain ATCC 33942 / OCh 114) OX=375451 GN=ftsH PE=3 SV=1 Length=641 Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 28/76 (37%), Positives = 36/76 (47%), Gaps = 6/76 (8%) Query 116 LLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQK 175 LL GP G+GKTLLA +A VPF + E +VG + Q +K Sbjct 191 LLEGPPGTGKTLLARAIAGEAGVPFFTISGSDFVEM-FVGVGASRVRDMFEQ-----AKK 244 Query 176 AQRGIVYIDEIDKISR 191 IV+IDEID + R Sbjct 245 NAPCIVFIDEIDAVGR 260 Lambda K H a alpha 0.316 0.135 0.378 0.792 4.96 Gapped Lambda K H a alpha sigma 0.267 0.0410 0.140 1.90 42.6 43.6 Effective search space used: 1830234742 Database: proteomes.fasta Posted date: Apr 7, 2024 2:11 PM Number of letters in database: 8,167,803 Number of sequences in database: 26,057 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Neighboring words threshold: 11 Window for multiple hits: 40