RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6460
(198 letters)
>gnl|CDD|236447 PRK09280, PRK09280, F0F1 ATP synthase subunit beta; Validated.
Length = 463
Score = 381 bits (982), Expect = e-133
Identities = 137/167 (82%), Positives = 149/167 (89%)
Query: 30 QAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEH 89
QA+YVPADDLTDPAPATTFAHLDATTVLSR IAELGIYPAVDPLDSTSRI+DP I+G EH
Sbjct: 297 QAVYVPADDLTDPAPATTFAHLDATTVLSRQIAELGIYPAVDPLDSTSRILDPLIVGEEH 356
Query: 90 YNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKIQRFLSQPFQVAEVFTGH 149
Y++AR VQ+ILQ YK LQDIIAILGMDELSEEDKLTVARARKIQRFLSQPF VAE FTG
Sbjct: 357 YDVAREVQQILQRYKELQDIIAILGMDELSEEDKLTVARARKIQRFLSQPFFVAEQFTGS 416
Query: 150 AGKLVPLEETIKGFSEILAGKYDHLPEVAFYMVGPIEEVVAKAETLA 196
GK VPL++TI+GF EIL G+YDHLPE AFYMVG IEE + KA+ LA
Sbjct: 417 PGKYVPLKDTIRGFKEILEGEYDHLPEQAFYMVGTIEEAIEKAKKLA 463
>gnl|CDD|223133 COG0055, AtpD, F0F1-type ATP synthase, beta subunit [Energy
production and conversion].
Length = 468
Score = 347 bits (892), Expect = e-120
Identities = 137/169 (81%), Positives = 145/169 (85%)
Query: 30 QAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEH 89
QA+YVPADDLTDPAPATTFAHLDATTVLSR IA LGIYPAVDPLDSTSR +DP I+G EH
Sbjct: 300 QAVYVPADDLTDPAPATTFAHLDATTVLSRQIAALGIYPAVDPLDSTSRALDPKIVGEEH 359
Query: 90 YNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKIQRFLSQPFQVAEVFTGH 149
Y +AR VQ ILQ YK LQDIIAILGMDELSEEDKLTVARARKIQRFLSQPF VAEVFTG
Sbjct: 360 YEVAREVQSILQRYKELQDIIAILGMDELSEEDKLTVARARKIQRFLSQPFFVAEVFTGS 419
Query: 150 AGKLVPLEETIKGFSEILAGKYDHLPEVAFYMVGPIEEVVAKAETLAKS 198
GK VPL++TI+GF IL GKYDHLPE AFYMVG IEE V KA+ L K
Sbjct: 420 PGKYVPLKDTIRGFKRILEGKYDHLPEQAFYMVGSIEEAVEKAKKLGKE 468
>gnl|CDD|211621 TIGR01039, atpD, ATP synthase, F1 beta subunit. The sequences of
ATP synthase F1 alpha and beta subunits are related and
both contain a nucleotide-binding site for ATP and ADP.
They have a common amino terminal domain but vary at the
C-terminus. The beta chain has catalytic activity, while
the alpha chain is a regulatory subunit. Proton
translocating ATP synthase, F1 beta subunit is
homologous to proton translocating ATP synthase
archaeal/vacuolar(V1), A subunit [Energy metabolism,
ATP-proton motive force interconversion].
Length = 461
Score = 328 bits (843), Expect = e-112
Identities = 137/166 (82%), Positives = 151/166 (90%)
Query: 30 QAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEH 89
QA+YVPADDLTDPAPATTFAHLDATTVLSR IAELGIYPAVDPLDSTSR++DP+++G EH
Sbjct: 296 QAVYVPADDLTDPAPATTFAHLDATTVLSRKIAELGIYPAVDPLDSTSRLLDPSVVGEEH 355
Query: 90 YNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKIQRFLSQPFQVAEVFTGH 149
Y++ARGVQ+ILQ YK LQDIIAILGMDELSEEDKLTV RAR+IQRFLSQPF VAEVFTG
Sbjct: 356 YDVARGVQQILQRYKELQDIIAILGMDELSEEDKLTVERARRIQRFLSQPFFVAEVFTGQ 415
Query: 150 AGKLVPLEETIKGFSEILAGKYDHLPEVAFYMVGPIEEVVAKAETL 195
GK VPL++TI+GF EIL GKYDHLPE AFYMVG IEEVV KA+ L
Sbjct: 416 PGKYVPLKDTIRGFKEILEGKYDHLPEQAFYMVGTIEEVVEKAKKL 461
>gnl|CDD|214349 CHL00060, atpB, ATP synthase CF1 beta subunit.
Length = 494
Score = 314 bits (806), Expect = e-106
Identities = 121/166 (72%), Positives = 137/166 (82%)
Query: 30 QAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEH 89
QA+YVPADDLTDPAPATTFAHLDATTVLSR +A GIYPAVDPLDSTS ++ P I+G EH
Sbjct: 321 QAVYVPADDLTDPAPATTFAHLDATTVLSRGLAAKGIYPAVDPLDSTSTMLQPRIVGEEH 380
Query: 90 YNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKIQRFLSQPFQVAEVFTGH 149
Y A+ V++ LQ YK LQDIIAILG+DELSEED+LTVARARKI+RFLSQPF VAEVFTG
Sbjct: 381 YETAQRVKQTLQRYKELQDIIAILGLDELSEEDRLTVARARKIERFLSQPFFVAEVFTGS 440
Query: 150 AGKLVPLEETIKGFSEILAGKYDHLPEVAFYMVGPIEEVVAKAETL 195
GK V L ETI+GF IL+G+ D LPE AFY+VG I+E AKA L
Sbjct: 441 PGKYVGLAETIRGFQLILSGELDGLPEQAFYLVGNIDEATAKAANL 486
>gnl|CDD|183615 PRK12597, PRK12597, F0F1 ATP synthase subunit beta; Provisional.
Length = 461
Score = 282 bits (723), Expect = 2e-94
Identities = 95/166 (57%), Positives = 122/166 (73%)
Query: 30 QAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEH 89
QA+YVPADDLTDPA F+HLD+T VLSRA A GIYPA+DPL S+S ++DP ++G H
Sbjct: 296 QAVYVPADDLTDPAAVAIFSHLDSTVVLSRAQAAKGIYPAIDPLASSSNLLDPLVVGERH 355
Query: 90 YNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKIQRFLSQPFQVAEVFTGH 149
Y+ A V++ILQ YK L+D+IAILG+DELS EDK+ V RAR++QRFL+QPF V E FTG
Sbjct: 356 YDAAIEVKRILQRYKELEDVIAILGIDELSAEDKIIVKRARQLQRFLTQPFFVTEAFTGE 415
Query: 150 AGKLVPLEETIKGFSEILAGKYDHLPEVAFYMVGPIEEVVAKAETL 195
G VPLEET+ IL G+YD E +FYM+G ++++ K E
Sbjct: 416 PGVSVPLEETLDSCERILNGEYDDWSEESFYMIGSLDDLRTKEEAG 461
>gnl|CDD|132348 TIGR03305, alt_F1F0_F1_bet, alternate F1F0 ATPase, F1 subunit beta.
A small number of taxonomically diverse prokaryotic
species have what appears to be a second ATP synthase,
in addition to the normal F1F0 ATPase in bacteria and
A1A0 ATPase in archaea. These enzymes use ion gradients
to synthesize ATP, and in principle may run in either
direction. This model represents the F1 beta subunit of
this apparent second ATP synthase.
Length = 449
Score = 208 bits (530), Expect = 1e-65
Identities = 82/158 (51%), Positives = 111/158 (70%)
Query: 30 QAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEH 89
QA+YVPADD TDPA TF+HL A+ VLSR A G+YPA+DPL STS++ P I+G H
Sbjct: 291 QAVYVPADDFTDPAAVHTFSHLSASLVLSRKRASEGLYPAIDPLQSTSKMATPGIVGERH 350
Query: 90 YNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKIQRFLSQPFQVAEVFTGH 149
Y++AR V++ L Y+ L+DIIA+LG+++LS ED+ V RAR+++RFL+QPF E FTG
Sbjct: 351 YDLAREVRQTLAQYEELKDIIAMLGLEQLSREDRRVVNRARRLERFLTQPFFTTEQFTGM 410
Query: 150 AGKLVPLEETIKGFSEILAGKYDHLPEVAFYMVGPIEE 187
GK V LE+ + G IL ++ PE YM+G I+E
Sbjct: 411 KGKTVSLEDALDGCERILNDEFQDYPERDLYMIGKIDE 448
>gnl|CDD|238553 cd01133, F1-ATPase_beta, F1 ATP synthase beta subunit,
nucleotide-binding domain. The F-ATPase is found in
bacterial plasma membranes, mitochondrial inner
membranes and in chloroplast thylakoid membranes. It has
also been found in the archaea Methanosarcina barkeri.
It uses a proton gradient to drive ATP synthesis and
hydrolyzes ATP to build the proton gradient. The
extrinisic membrane domain, F1, is composed of alpha,
beta, gamma, delta and epsilon subunits with a
stoichiometry of 3:3:1:1:1. The beta subunit of ATP
synthase is catalytic.
Length = 274
Score = 129 bits (326), Expect = 5e-37
Identities = 51/53 (96%), Positives = 53/53 (100%)
Query: 30 QAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDP 82
QA+YVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRI+DP
Sbjct: 222 QAVYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRILDP 274
>gnl|CDD|215848 pfam00306, ATP-synt_ab_C, ATP synthase alpha/beta chain, C terminal
domain.
Length = 110
Score = 120 bits (302), Expect = 2e-35
Identities = 45/113 (39%), Positives = 62/113 (54%), Gaps = 8/113 (7%)
Query: 90 YNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKIQRFLSQPFQVAEVFTGH 149
+A ++ L Y+ LQ I+ ++G D LSEEDKLT+ RAR+I+ FL Q E
Sbjct: 1 KQVAGQLKLELAQYRELQAIVQLVGEDALSEEDKLTLERARRIEEFLKQNQYSPE---PV 57
Query: 150 AGKLVPLEETIKGFSEILAGKYDHLPEVAFYMVGPIEEV-----VAKAETLAK 197
+ VP+EETI F +L GK+D LPE A Y +G I+ K + L K
Sbjct: 58 EKQYVPVEETIDLFYALLRGKFDDLPEDALYRIGTIDLAKYKDLEEKFKKLKK 110
>gnl|CDD|224079 COG1157, FliI, Flagellar biosynthesis/type III secretory pathway
ATPase [Cell motility and secretion / Intracellular
trafficking and secretion].
Length = 441
Score = 86.5 bits (215), Expect = 5e-20
Identities = 53/146 (36%), Positives = 73/146 (50%), Gaps = 21/146 (14%)
Query: 31 AIY---VPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGA 87
A Y V DD+ DP + LD VLSRA+AE G YPA+D L S SR+M P I+
Sbjct: 310 AFYTVLVEGDDMNDPIADEVRSILDGHIVLSRALAEAGHYPAIDVLASISRVM-PQIVSE 368
Query: 88 EHYNIARGVQKILQDYKSLQDIIAI----LGMDELSEEDKLTVARARKIQRFLSQPFQVA 143
EH AR ++++L Y+ +D+I I G D E DK + KI++FL Q +
Sbjct: 369 EHRKAARRLRQLLSRYEENEDLIRIGAYQKGSDP--ELDK-AIKLYPKIEQFLKQG--ID 423
Query: 144 EVFTGHAGKLVPLEETIKGFSEILAG 169
E EET++ IL+
Sbjct: 424 EK--------SSFEETLEQLEAILSS 441
>gnl|CDD|233237 TIGR01026, fliI_yscN, ATPase FliI/YscN family. This family of
ATPases demonstrates extensive homology with ATP
synthase F1, beta subunit. It is a mixture of members
with two different protein functions. The first group is
exemplified by Salmonella typhimurium FliI protein. It
is needed for flagellar assembly, its ATPase activity is
required for flagellation, and it may be involved in a
specialized protein export pathway that proceeds without
signal peptide cleavage. The second group of proteins
function in the export of virulence proteins;
exemplified by Yersinia sp. YscN protein an ATPase
involved in the type III secretory pathway for the
antihost Yops proteins [Energy metabolism, ATP-proton
motive force interconversion].
Length = 440
Score = 83.2 bits (206), Expect = 7e-19
Identities = 48/144 (33%), Positives = 70/144 (48%), Gaps = 21/144 (14%)
Query: 31 AIY---VPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGA 87
A Y V DD+ +P + LD VLSRA+A+ G YPA+D L S SR+M I+
Sbjct: 310 AFYTVLVEGDDMNEPIADSVRGILDGHIVLSRALAQRGHYPAIDVLASISRLM-TAIVSE 368
Query: 88 EHYNIARGVQKILQDYKSLQDIIAI----LGMDELSEEDKLTVARARKIQRFLSQPFQVA 143
EH AR +++L YK +D+I I G D + +A+ K++RFL Q
Sbjct: 369 EHRRAARKFRELLSKYKDNEDLIRIGAYQRGSDRELDF---AIAKYPKLERFLKQGIN-- 423
Query: 144 EVFTGHAGKLVPLEETIKGFSEIL 167
+ V EE+++ EI
Sbjct: 424 --------EKVNFEESLQQLEEIF 439
>gnl|CDD|213817 TIGR03496, FliI_clade1, flagellar protein export ATPase FliI.
Members of this protein family are the FliI protein of
bacterial flagellum systems. This protein acts to drive
protein export for flagellar biosynthesis. The most
closely related family is the YscN family of bacterial
type III secretion systems. This model represents one
(of three) segment of the FliI family tree. These have
been modeled separately in order to exclude the type III
secretion ATPases more effectively [Cellular processes,
Chemotaxis and motility].
Length = 411
Score = 76.4 bits (189), Expect = 1e-16
Identities = 43/116 (37%), Positives = 61/116 (52%), Gaps = 11/116 (9%)
Query: 31 AIY---VPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGA 87
A Y V DD DP A LD VLSR +AE G YPA+D L S SR+M P+++
Sbjct: 286 AFYTVLVEGDDQQDPIADAARAILDGHIVLSRELAEQGHYPAIDILASISRVM-PDVVSP 344
Query: 88 EHYNIARGVQKILQDYKSLQDIIAI----LGMDELSEEDKLTVARARKIQRFLSQP 139
EH AR +++L Y+ +D+I+I G D ++ +A +I+ FL Q
Sbjct: 345 EHRQAARRFKQLLSRYQENRDLISIGAYQAGSDPELDQ---AIALYPRIEAFLQQG 397
>gnl|CDD|238556 cd01136, ATPase_flagellum-secretory_path_III, Flagellum-specific
ATPase/type III secretory pathway virulence-related
protein. This group of ATPases are responsible for the
export of flagellum and virulence-related proteins. The
bacterial flagellar motor is similar to the F0F1-ATPase,
in that they both are proton driven rotary molecular
devices. However, the main function of the bacterial
flagellar motor is to rotate the flagellar filament for
cell motility. Intracellular pathogens such as
Salmonella and Chlamydia also have proteins which are
similar to the flagellar-specific ATPase, but function
in the secretion of virulence-related proteins via the
type III secretory pathway.
Length = 326
Score = 74.6 bits (184), Expect = 4e-16
Identities = 42/115 (36%), Positives = 60/115 (52%), Gaps = 11/115 (9%)
Query: 31 AIY---VPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGA 87
A Y V DDL +P + LD VLSRA+A G YPA+D L S SR+M ++
Sbjct: 216 AFYTVLVEGDDLNEPIADAVRSILDGHIVLSRALAAAGHYPAIDVLKSISRLM-NAVVTP 274
Query: 88 EHYNIARGVQKILQDYKSLQDIIAI----LGMDELSEEDKLTVARARKIQRFLSQ 138
EH AR ++++L Y+ ++D+I I G D +E + KI+ FL Q
Sbjct: 275 EHKEAARKLRELLSAYQEVEDLIRIGAYKKGSDPEVDE---AIKLLPKIEAFLKQ 326
>gnl|CDD|233918 TIGR02546, III_secr_ATP, type III secretion apparatus
H+-transporting two-sector ATPase. [Protein fate,
Protein and peptide secretion and trafficking, Cellular
processes, Pathogenesis].
Length = 422
Score = 73.5 bits (181), Expect = 1e-15
Identities = 43/145 (29%), Positives = 70/145 (48%), Gaps = 21/145 (14%)
Query: 31 AIY---VPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGA 87
A+Y V DD+ DP + LD VLSRA+AE YPA+D L S SR+M ++
Sbjct: 292 ALYTVLVEGDDMNDPIADEVRSILDGHIVLSRALAERNHYPAIDVLASLSRVM-SQVVST 350
Query: 88 EHYNIARGVQKILQDYKSLQDIIAI----LGMDELSEEDKLTVARARKIQRFLSQPFQVA 143
EH A ++++L YK ++ +I + G D +++ + + I+ FL Q
Sbjct: 351 EHRRAAGKLRRLLATYKEVELLIRLGEYQPGSDPETDD---AIDKIDAIRAFLRQS---- 403
Query: 144 EVFTGHAGKLVPLEETIKGFSEILA 168
+ P EET++ ++A
Sbjct: 404 ------TDEYSPYEETLEQLHALVA 422
>gnl|CDD|211826 TIGR03497, FliI_clade2, flagellar protein export ATPase FliI.
Members of this protein family are the FliI protein of
bacterial flagellum systems. This protein acts to drive
protein export for flagellar biosynthesis. The most
closely related family is the YscN family of bacterial
type III secretion systems. This model represents one
(of three) segment of the FliI family tree. These have
been modeled separately in order to exclude the type III
secretion ATPases more effectively [Cellular processes,
Chemotaxis and motility].
Length = 413
Score = 70.4 bits (173), Expect = 2e-14
Identities = 45/142 (31%), Positives = 64/142 (45%), Gaps = 17/142 (11%)
Query: 31 AIY---VPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGA 87
Y V DD+ +P LD VLSR +A YPA+D L S SR+M I+
Sbjct: 284 GFYTVLVDGDDMNEPIADAVRGILDGHIVLSRELAAKNHYPAIDVLASVSRVM-NEIVSE 342
Query: 88 EHYNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVA--RARKIQRFLSQPFQVAEV 145
EH +A ++++L YK +D+I I G + K+ A KI FL Q + E
Sbjct: 343 EHKELAGKLRELLAVYKEAEDLINI-GAYKRGSNPKIDEAIRYIEKINSFLKQ--GIDEK 399
Query: 146 FTGHAGKLVPLEETIKGFSEIL 167
FT EET++ +
Sbjct: 400 FT--------FEETVQLLKTLF 413
>gnl|CDD|181439 PRK08472, fliI, flagellum-specific ATP synthase; Validated.
Length = 434
Score = 68.6 bits (168), Expect = 8e-14
Identities = 44/140 (31%), Positives = 70/140 (50%), Gaps = 20/140 (14%)
Query: 34 VPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEHYNIA 93
V DD++DP + + LD VLSR + + GIYP ++ L+S SR+M+ +II EH A
Sbjct: 310 VEGDDMSDPIADQSRSILDGHIVLSRELTDFGIYPPINILNSASRVMN-DIISPEHKLAA 368
Query: 94 RGVQKILQDYKSLQDIIAI----LGMD-ELSEEDKLTVARARKIQRFLSQPFQVAEVFTG 148
R +++ K + +I I G D EL E +++ +++FL Q
Sbjct: 369 RKFKRLYSLLKENEVLIRIGAYQKGNDKELDE----AISKKEFMEQFLKQNPN------- 417
Query: 149 HAGKLVPLEETIKGFSEILA 168
+L P E+T + EIL
Sbjct: 418 ---ELFPFEQTFEQLEEILR 434
>gnl|CDD|163293 TIGR03498, FliI_clade3, flagellar protein export ATPase FliI.
Members of this protein family are the FliI protein of
bacterial flagellum systems. This protein acts to drive
protein export for flagellar biosynthesis. The most
closely related family is the YscN family of bacterial
type III secretion systems. This model represents one
(of three) segment of the FliI family tree. These have
been modeled separately in order to exclude the type III
secretion ATPases more effectively.
Length = 418
Score = 66.2 bits (162), Expect = 5e-13
Identities = 34/109 (31%), Positives = 53/109 (48%), Gaps = 2/109 (1%)
Query: 31 AIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEHY 90
+ V DD +P LD VL RAIAE G YPA++ L S SR+ P + E
Sbjct: 292 TVLVDGDDHNEPVADAVRGILDGHIVLDRAIAERGRYPAINVLASVSRLA-PRVWSPEER 350
Query: 91 NIARGVQKILQDYKSLQDIIAILGMDELSEED-KLTVARARKIQRFLSQ 138
+ R ++ +L Y+ +D+I + + S+ + + KI FL+Q
Sbjct: 351 KLVRRLRALLARYEETEDLIRLGAYRKGSDPELDEAIRLVPKIYEFLTQ 399
>gnl|CDD|215651 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family,
nucleotide-binding domain. This family includes the ATP
synthase alpha and beta subunits, the ATP synthase
associated with flagella and the termination factor Rho.
Length = 213
Score = 64.4 bits (158), Expect = 6e-13
Identities = 24/48 (50%), Positives = 29/48 (60%)
Query: 30 QAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTS 77
+ VP D+TDP P T + D VLSR +AE GIYPA+D L S S
Sbjct: 166 PTVLVPGGDITDPIPDNTISITDGQIVLSRELAERGIYPAIDILLSVS 213
>gnl|CDD|180875 PRK07196, fliI, flagellum-specific ATP synthase; Validated.
Length = 434
Score = 66.1 bits (161), Expect = 7e-13
Identities = 39/145 (26%), Positives = 62/145 (42%), Gaps = 21/145 (14%)
Query: 31 AIYV---PADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGA 87
AIY DD DP A LD VLSR +AE G YPA+D S SR M +IG+
Sbjct: 303 AIYTVLAEGDDQQDPIVDCARAVLDGHIVLSRKLAEAGHYPAIDISQSISRCMS-QVIGS 361
Query: 88 EHYNIARGVQKILQDYKSLQDIIA----ILGMDELSEEDKLTVARARKIQRFLSQPFQVA 143
+ A +++ DY +++ +I + G D ++++ V I +FL Q
Sbjct: 362 QQAKAASLLKQCYADYMAIKPLIPLGGYVAGADPMADQ---AVHYYPAITQFLRQ----- 413
Query: 144 EVFTGHAGKLVPLEETIKGFSEILA 168
G +++ + +
Sbjct: 414 -----EVGHPALFSASVEQLTGMFP 433
>gnl|CDD|181599 PRK08972, fliI, flagellum-specific ATP synthase; Validated.
Length = 444
Score = 64.7 bits (158), Expect = 1e-12
Identities = 32/76 (42%), Positives = 45/76 (59%), Gaps = 1/76 (1%)
Query: 37 DDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEHYNIARGV 96
DDL DP + A LD VLSR +A+ G YPA+D S SR+M P +I EH R V
Sbjct: 320 DDLQDPIADASRAILDGHIVLSRELADSGHYPAIDIEASISRVM-PMVISEEHLEAMRRV 378
Query: 97 QKILQDYKSLQDIIAI 112
+++ Y+ +D+I+I
Sbjct: 379 KQVYSLYQQNRDLISI 394
>gnl|CDD|168181 PRK05688, fliI, flagellum-specific ATP synthase; Validated.
Length = 451
Score = 64.4 bits (157), Expect = 2e-12
Identities = 37/106 (34%), Positives = 55/106 (51%), Gaps = 8/106 (7%)
Query: 37 DDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEHYNIARGV 96
DD DP + LD VLSR +AE G YPA+D S SR+M P ++ EH A+
Sbjct: 326 DDQQDPIADSARGVLDGHIVLSRRLAEEGHYPAIDIEASISRVM-PQVVDPEHLRRAQRF 384
Query: 97 QKILQDYKSLQDIIAI----LGMDELSEEDKLTVARARKIQRFLSQ 138
+++ Y+ +D+I++ G D E L +AR + +FL Q
Sbjct: 385 KQLWSRYQQSRDLISVGAYVAGGD---PETDLAIARFPHLVQFLRQ 427
>gnl|CDD|180762 PRK06936, PRK06936, type III secretion system ATPase; Provisional.
Length = 439
Score = 62.5 bits (152), Expect = 1e-11
Identities = 37/115 (32%), Positives = 62/115 (53%), Gaps = 11/115 (9%)
Query: 31 AIY---VPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGA 87
A+Y V DD+T+P T + LD +LSR +A YPA+D L S SR+M+ I+
Sbjct: 309 ALYTVLVEGDDMTEPVADETRSILDGHIILSRKLAAANHYPAIDVLRSASRVMN-QIVSK 367
Query: 88 EHYNIARGVQKILQDYKSLQDIIAI----LGMDELSEEDKLTVARARKIQRFLSQ 138
EH A ++++L Y+ ++ ++ I G D+ +++ + R I+ FL Q
Sbjct: 368 EHKTWAGRLRELLAKYEEVELLLQIGEYQKGQDKEADQ---AIERIGAIRGFLRQ 419
>gnl|CDD|224078 COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase subunit B [Energy
production and conversion].
Length = 463
Score = 62.3 bits (152), Expect = 1e-11
Identities = 43/148 (29%), Positives = 71/148 (47%), Gaps = 21/148 (14%)
Query: 35 PADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIG-----AEH 89
P DD+T P P T + VLSR + GIYP ++ L S SR+M + IG +H
Sbjct: 309 PGDDITHPIPDLTGYITEGQIVLSRDLHRKGIYPPINVLPSLSRLMK-DGIGEGKTREDH 367
Query: 90 YNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKI-QRFLSQPFQVAEVFTG 148
+++ + + + L++++A++G + LSE D+ + A QRF+ Q
Sbjct: 368 GDVSNQLYAAYAEGRDLRELVAVVGEEALSERDRKYLKFADLFEQRFIKQGRYE------ 421
Query: 149 HAGKLVPLEETIKGFSEILAGKYDHLPE 176
+EET+ E+L+ LPE
Sbjct: 422 ----NRSIEETLDLGWELLS----ILPE 441
>gnl|CDD|181092 PRK07721, fliI, flagellum-specific ATP synthase; Validated.
Length = 438
Score = 59.7 bits (145), Expect = 8e-11
Identities = 29/79 (36%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 34 VPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEHYNIA 93
V DD+ +P T LD VL R +A G YPA++ L S SR+M +I+ EH A
Sbjct: 311 VDGDDMNEPIADTVRGILDGHFVLDRQLANKGQYPAINVLKSVSRVM-NHIVSPEHKEAA 369
Query: 94 RGVQKILQDYKSLQDIIAI 112
+++L Y++ +D+I I
Sbjct: 370 NRFRELLSTYQNSEDLINI 388
>gnl|CDD|180712 PRK06820, PRK06820, type III secretion system ATPase; Validated.
Length = 440
Score = 59.4 bits (144), Expect = 1e-10
Identities = 40/144 (27%), Positives = 68/144 (47%), Gaps = 21/144 (14%)
Query: 31 AIY---VPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGA 87
A Y V DD+ +P + LD VLSR +A G YPA+D S SRIM P I+ A
Sbjct: 310 AFYTVLVEGDDMNEPVADEVRSLLDGHIVLSRRLAGAGHYPAIDIAASVSRIM-PQIVSA 368
Query: 88 EHYNIARGVQKILQDYKSLQDIIAI----LGMDELSEEDKLTVARARKIQRFLSQPFQVA 143
+A+ ++++L Y+ ++ ++ + G D ++E + R I FL Q
Sbjct: 369 GQLAMAQKLRRMLACYQEIELLVRVGEYQAGEDLQADE---ALQRYPAICAFLQQ----- 420
Query: 144 EVFTGHAGKLVPLEETIKGFSEIL 167
+ LE T++ ++++
Sbjct: 421 -----DHSETAHLETTLEHLAQVV 439
>gnl|CDD|180696 PRK06793, fliI, flagellum-specific ATP synthase; Validated.
Length = 432
Score = 59.2 bits (143), Expect = 1e-10
Identities = 39/110 (35%), Positives = 53/110 (48%), Gaps = 5/110 (4%)
Query: 32 IYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEHYN 91
+ V DDL P P LD VL R +A L YPA+ LDS SRIM+ I+ H+
Sbjct: 306 VLVDGDDLNGPVPDLARGILDGHIVLKRELATLSHYPAISVLDSVSRIME-EIVSPNHWQ 364
Query: 92 IARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARK---IQRFLSQ 138
+A ++KIL YK ++ LG + + E+ K I FL Q
Sbjct: 365 LANEMRKILSIYKE-NELYFKLGTIQENAENAYIFECKNKVEGINTFLKQ 413
>gnl|CDD|200071 TIGR01041, ATP_syn_B_arch, ATP synthase archaeal, B subunit.
Archaeal ATP synthase shares extensive sequence
similarity with eukaryotic and prokaryotic V-type
(H+)-ATPases [Energy metabolism, ATP-proton motive force
interconversion].
Length = 458
Score = 56.3 bits (136), Expect = 1e-09
Identities = 34/111 (30%), Positives = 57/111 (51%), Gaps = 5/111 (4%)
Query: 35 PADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNI----IGAEHY 90
P DD+T P P T + VLSR + GIYP ++ L S SR+M I +H
Sbjct: 304 PGDDITHPIPDLTGYITEGQIVLSRELHRKGIYPPINVLPSLSRLMKDGIGEGKTREDHK 363
Query: 91 NIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKI-QRFLSQPF 140
+++ + + + L+ ++AI+G + LSE D+ + A ++F+ Q F
Sbjct: 364 DVSDQLYAAYAEGRDLRGLVAIVGEEALSERDRKYLKFADLFERKFVRQGF 414
>gnl|CDD|235251 PRK04196, PRK04196, V-type ATP synthase subunit B; Provisional.
Length = 460
Score = 55.2 bits (134), Expect = 3e-09
Identities = 39/121 (32%), Positives = 58/121 (47%), Gaps = 23/121 (19%)
Query: 35 PADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIG-----AEH 89
P DD+T P P T + VLSR + GIYP +D L S SR+M + IG +H
Sbjct: 306 PDDDITHPIPDLTGYITEGQIVLSRELHRKGIYPPIDVLPSLSRLMK-DGIGEGKTREDH 364
Query: 90 YNI--------ARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKI-QRFLSQPF 140
++ ARG L+++ AI+G + LSE D+ + A + F++Q F
Sbjct: 365 KDVANQLYAAYARGKD--------LRELAAIVGEEALSERDRKYLKFADAFEREFVNQGF 416
Query: 141 Q 141
Sbjct: 417 D 417
>gnl|CDD|136438 PRK07594, PRK07594, type III secretion system ATPase SsaN;
Validated.
Length = 433
Score = 55.3 bits (133), Expect = 3e-09
Identities = 28/81 (34%), Positives = 45/81 (55%), Gaps = 1/81 (1%)
Query: 32 IYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEHYN 91
+ V DD+ +P + LD VLSR +AE G YPA+D L + SR+ P + EH
Sbjct: 306 VLVEGDDMNEPLADEVRSLLDGHIVLSRRLAERGHYPAIDVLATLSRVF-PVVTSHEHRQ 364
Query: 92 IARGVQKILQDYKSLQDIIAI 112
+A +++ L Y+ ++ +I I
Sbjct: 365 LAAILRRCLALYQEVELLIRI 385
>gnl|CDD|169656 PRK09099, PRK09099, type III secretion system ATPase; Provisional.
Length = 441
Score = 54.0 bits (130), Expect = 7e-09
Identities = 37/116 (31%), Positives = 62/116 (53%), Gaps = 11/116 (9%)
Query: 31 AIY-VPADDLT--DPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGA 87
A+Y V A+D + DP LD +LSR IA YPA+D L S SR+M P ++
Sbjct: 310 ALYTVLAEDESGSDPIAEEVRGILDGHMILSREIAARNQYPAIDVLGSLSRVM-PQVVPR 368
Query: 88 EHYNIARGVQKILQDYKSLQDIIAI----LGMDELSEEDKLTVARARKIQRFLSQP 139
EH A ++++L ++ ++ ++ + G D +++E +A+ I+ FLSQ
Sbjct: 369 EHVQAAGRLRQLLAKHREVETLLQVGEYRAGSDPVADE---AIAKIDAIRDFLSQR 421
>gnl|CDD|181182 PRK07960, fliI, flagellum-specific ATP synthase; Validated.
Length = 455
Score = 53.6 bits (129), Expect = 9e-09
Identities = 28/76 (36%), Positives = 43/76 (56%), Gaps = 1/76 (1%)
Query: 37 DDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEHYNIARGV 96
DD DP + A LD VLSR +AE G YPA+D S SR M +I +HY R
Sbjct: 333 DDQQDPIADSARAILDGHIVLSRRLAEAGHYPAIDIEASISRAM-TALIDEQHYARVRQF 391
Query: 97 QKILQDYKSLQDIIAI 112
+++L ++ +D++++
Sbjct: 392 KQLLSSFQRNRDLVSV 407
>gnl|CDD|180526 PRK06315, PRK06315, type III secretion system ATPase; Provisional.
Length = 442
Score = 51.1 bits (122), Expect = 7e-08
Identities = 35/111 (31%), Positives = 53/111 (47%), Gaps = 8/111 (7%)
Query: 32 IYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEHYN 91
+ V DD+ +P + LD VLS A+A+ YPA+D L S SR++ I+ E
Sbjct: 316 VLVAGDDMNEPVADEVKSILDGHIVLSNALAQAYHYPAIDVLASISRLLTA-IVPEEQRR 374
Query: 92 IARGVQKILQDYKSLQDIIAI----LGMDELSEEDKLTVARARKIQRFLSQ 138
I +++L YK+ + +I I G D E + K+ RFL Q
Sbjct: 375 IIGKAREVLAKYKANEMLIRIGEYRRGSD---REVDFAIDHIDKLNRFLKQ 422
>gnl|CDD|235666 PRK06002, fliI, flagellum-specific ATP synthase; Validated.
Length = 450
Score = 50.4 bits (121), Expect = 1e-07
Identities = 25/51 (49%), Positives = 29/51 (56%)
Query: 31 AIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMD 81
++ V DD DP + LD VL RAIAE G YPAVDPL S SR+
Sbjct: 316 SVLVDGDDHNDPVADSIRGTLDGHIVLDRAIAEQGRYPAVDPLASISRLAR 366
>gnl|CDD|236351 PRK08927, fliI, flagellum-specific ATP synthase; Validated.
Length = 442
Score = 47.3 bits (113), Expect = 2e-06
Identities = 26/79 (32%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 34 VPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEHYNIA 93
V DD +P LD V+ RAIAE G YPA++ L S SR M P E +
Sbjct: 313 VDGDDHNEPVADAVRGILDGHIVMERAIAERGRYPAINVLKSVSRTM-PGCNDPEENPLV 371
Query: 94 RGVQKILQDYKSLQDIIAI 112
R ++++ Y ++++I +
Sbjct: 372 RRARQLMATYADMEELIRL 390
>gnl|CDD|224077 COG1155, NtpA, Archaeal/vacuolar-type H+-ATPase subunit A [Energy
production and conversion].
Length = 588
Score = 45.0 bits (107), Expect = 1e-05
Identities = 30/112 (26%), Positives = 51/112 (45%), Gaps = 9/112 (8%)
Query: 35 PADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSR-------IMDPNIIGA 87
P D ++P T + L A+A +P+++ L+S S D N+
Sbjct: 392 PGGDFSEPVTQNTLRVVRVFWALDAALANRRHFPSINWLNSYSLYTEDLRSWYDENVSPE 451
Query: 88 EHYNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKI-QRFLSQ 138
+ ++ ILQ LQ+I+ ++G D L E++K + AR I + FL Q
Sbjct: 452 WGALRDQAME-ILQRESELQEIVQLVGYDALPEKEKSILDVARIIREDFLQQ 502
>gnl|CDD|235248 PRK04192, PRK04192, V-type ATP synthase subunit A; Provisional.
Length = 586
Score = 44.4 bits (106), Expect = 2e-05
Identities = 27/90 (30%), Positives = 43/90 (47%), Gaps = 9/90 (10%)
Query: 57 LSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEHYNIARG-------VQKILQDYKSLQDI 109
L +A+ +PA++ L S S +D + N+ +LQ LQ+I
Sbjct: 415 LDAELADRRHFPAINWLTSYSLYLD-QVAPWWEENVDPDWRELRDEAMDLLQREAELQEI 473
Query: 110 IAILGMDELSEEDKLTVARARKI-QRFLSQ 138
+ ++G D L EED+L + AR I + FL Q
Sbjct: 474 VRLVGPDALPEEDRLILEVARLIREDFLQQ 503
>gnl|CDD|233245 TIGR01042, V-ATPase_V1_A, V-type (H+)-ATPase V1, A subunit. This
models eukaryotic vacuolar (H+)-ATPase that is
responsible for acidifying cellular compartments. This
enzyme shares extensive sequence similarity with
archaeal ATP synthase [Transport and binding proteins,
Cations and iron carrying compounds].
Length = 591
Score = 41.3 bits (97), Expect = 2e-04
Identities = 32/119 (26%), Positives = 58/119 (48%), Gaps = 16/119 (13%)
Query: 31 AIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIM---------- 80
A+ P D +DP + T + L + +A+ +P+V+ L S S+ M
Sbjct: 392 AVSPPGGDFSDPVTSATLGIVQVFWGLDKKLAQRKHFPSVNWLISYSKYMRALEEFYEKF 451
Query: 81 DPNIIGAEHYNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKIQR-FLSQ 138
P + + ++ILQ+ + L +I+ ++G D L+E DK+T+ A+ I+ FL Q
Sbjct: 452 YPEFV-----PLRTKAKEILQEEEDLNEIVQLVGKDALAETDKITLEVAKLIKEDFLQQ 505
>gnl|CDD|236166 PRK08149, PRK08149, ATP synthase SpaL; Validated.
Length = 428
Score = 40.7 bits (96), Expect = 2e-04
Identities = 32/120 (26%), Positives = 51/120 (42%), Gaps = 14/120 (11%)
Query: 51 LDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEHYNIARGVQKILQDYKSLQDII 110
LD LSR +A G YPA+D L S SR+ + +H +A +K+L + LQ I
Sbjct: 321 LDGHIYLSRKLAAKGHYPAIDVLKSVSRVFG-QVTDPKHRQLAAAFRKLLTRLEELQLFI 379
Query: 111 AILGMDELSE--EDKLTVARARKIQRFLSQPFQVAEVFTGHAGKLVPLEETIKGFSEILA 168
LG E ++ + + ++ FL Q F +T++ +E A
Sbjct: 380 D-LGEYRRGENADNDRAMDKRPALEAFLKQDVAEKSSF----------SDTLERLNEFAA 428
>gnl|CDD|233244 TIGR01040, V-ATPase_V1_B, V-type (H+)-ATPase V1, B subunit. This
models eukaryotic vacuolar (H+)-ATPase that is
responsible for acidifying cellular compartments. This
enzyme shares extensive sequence similarity with
archaeal ATP synthase [Transport and binding proteins,
Cations and iron carrying compounds].
Length = 466
Score = 38.9 bits (91), Expect = 9e-04
Identities = 33/120 (27%), Positives = 59/120 (49%), Gaps = 8/120 (6%)
Query: 35 PADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGA-----EH 89
P DD+T P P T + + R + IYP ++ L S SR+M + IG +H
Sbjct: 313 PNDDITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMK-SAIGEGMTRKDH 371
Query: 90 YNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKIQR-FLSQ-PFQVAEVFT 147
+++ + K +Q + A++G + LS ED L + K ++ F++Q P++ +F
Sbjct: 372 SDVSNQLYACYAIGKDVQAMKAVVGEEALSSEDLLYLEFLDKFEKNFIAQGPYENRTIFE 431
>gnl|CDD|238555 cd01135, V_A-ATPase_B, V/A-type ATP synthase (non-catalytic)
subunit B. These ATPases couple ATP hydrolysis to the
build up of a H+ gradient, but V-type ATPases do not
catalyze the reverse reaction. The Vacuolar (V-type)
ATPase is found in the membranes of vacuoles, the golgi
apparatus and in other coated vesicles in eukaryotes.
Archaea have a protein which is similar in sequence to
V-ATPases, but functions like an F-ATPase (called
A-ATPase). A similar protein is also found in a few
bacteria. This subfamily consists of the non-catalytic
beta subunit.
Length = 276
Score = 36.9 bits (86), Expect = 0.003
Identities = 18/45 (40%), Positives = 24/45 (53%)
Query: 35 PADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRI 79
P DD+T P P T + VL R + GIYP ++ L S SR+
Sbjct: 232 PNDDITHPIPDLTGYITEGQIVLDRQLHNRGIYPPINVLPSLSRL 276
>gnl|CDD|130115 TIGR01043, ATP_syn_A_arch, ATP synthase archaeal, A subunit.
Archaeal ATP synthase shares extensive sequence
similarity with eukaryotic and prokaryotic V-type
(H+)-ATPases [Energy metabolism, ATP-proton motive force
interconversion].
Length = 578
Score = 35.9 bits (83), Expect = 0.011
Identities = 35/122 (28%), Positives = 51/122 (41%), Gaps = 21/122 (17%)
Query: 31 AIYVPADDLTDPAPATT------FAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNI 84
A+ P D ++P T F LDA R +PA++ L S S +D +
Sbjct: 386 AVSPPGGDFSEPVTQNTLRIVKVFWALDADLAQRRH------FPAINWLQSYSLYVD-LV 438
Query: 85 IGAEHYNIA-------RGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKIQR-FL 136
H N+ +LQ LQ+I+ ++G D L E KL + AR I+ FL
Sbjct: 439 QDWWHENVDPDWREMRDEAMDLLQKESELQEIVQLVGPDALPERQKLILEVARMIREAFL 498
Query: 137 SQ 138
Q
Sbjct: 499 QQ 500
>gnl|CDD|184795 PRK14698, PRK14698, V-type ATP synthase subunit A; Provisional.
Length = 1017
Score = 32.7 bits (74), Expect = 0.13
Identities = 28/115 (24%), Positives = 50/115 (43%), Gaps = 7/115 (6%)
Query: 31 AIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDP------NI 84
A+ P D ++P T + L +A +PA++ L S S +D
Sbjct: 820 AVSPPGGDFSEPVVQNTLRVVKVFWALDADLARRRHFPAINWLTSYSLYVDAVKDWWHKN 879
Query: 85 IGAEHYNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKIQR-FLSQ 138
+ E + ++LQ LQ+I+ I+G D L E ++ + AR ++ +L Q
Sbjct: 880 VDPEWKAMRDKAMELLQKEAELQEIVRIVGPDALPERERAILLVARMLREDYLQQ 934
>gnl|CDD|236490 PRK09376, rho, transcription termination factor Rho; Provisional.
Length = 416
Score = 31.3 bits (72), Expect = 0.31
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 56 VLSRAIAELGIYPAVDPLDSTSR 78
L R +AE I+PA+D S +R
Sbjct: 342 HLDRKLAEKRIFPAIDINRSGTR 364
>gnl|CDD|152694 pfam12259, DUF3609, Protein of unknown function (DUF3609). This
domain family is found in eukaryotes and viruses, and is
typically between 348 and 360 amino acids in length.
Length = 361
Score = 30.6 bits (69), Expect = 0.52
Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 2/47 (4%)
Query: 129 ARKIQRFLSQPFQVAEVFTGHAGKLVPLEETIKGFSEILAGKYDHLP 175
+++ SQ + V + H GKL PL +IK + HLP
Sbjct: 5 GSRLKS--SQEAILEAVASAHQGKLSPLVLSIKQLEAEILKILGHLP 49
>gnl|CDD|225590 COG3048, DsdA, D-serine dehydratase [Amino acid transport and
metabolism].
Length = 443
Score = 30.5 bits (69), Expect = 0.56
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 9/53 (16%)
Query: 95 GVQKILQDYKSLQDIIAILGMDELSEEDKLTVARA-----RKIQRFLSQPFQV 142
GV L + S+QDI G+D L+ D L V R R ++R L + V
Sbjct: 315 GVYTGLHEQISVQDI----GIDNLTAADGLAVGRPSGFVGRAMERLLDGYYTV 363
>gnl|CDD|224859 COG1948, MUS81, ERCC4-type nuclease [DNA replication,
recombination, and repair].
Length = 254
Score = 29.6 bits (67), Expect = 0.81
Identities = 14/60 (23%), Positives = 31/60 (51%), Gaps = 7/60 (11%)
Query: 85 IGAEHYNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKIQRFLSQPFQVAE 144
IG + +++L+ + S++D+ +EL + + +AR+I RFL +++ E
Sbjct: 190 IGPKLA------ERLLKKFGSVEDV-LTASEEELMKVKGIGEKKAREIYRFLRTEYKLIE 242
>gnl|CDD|237150 PRK12608, PRK12608, transcription termination factor Rho;
Provisional.
Length = 380
Score = 29.3 bits (66), Expect = 1.4
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 56 VLSRAIAELGIYPAVDPLDSTSR 78
VL R +A+ ++PA+D S +R
Sbjct: 306 VLDRELADKRVFPAIDIAKSGTR 328
>gnl|CDD|173133 PRK14670, uvrC, excinuclease ABC subunit C; Provisional.
Length = 574
Score = 29.1 bits (65), Expect = 1.6
Identities = 14/39 (35%), Positives = 28/39 (71%), Gaps = 1/39 (2%)
Query: 97 QKILQDYKSLQDIIAILGMDELSEEDKLTVARARKIQRF 135
+KIL+ + +DI+ +L DE++E+ K+ + A+KI++F
Sbjct: 528 KKILKSLGTYKDIL-LLNEDEIAEKMKINIKMAKKIKKF 565
>gnl|CDD|99984 cd03813, GT1_like_3, This family is most closely related to the GT1
family of glycosyltransferases. Glycosyltransferases
catalyze the transfer of sugar moieties from activated
donor molecules to specific acceptor molecules, forming
glycosidic bonds. The acceptor molecule can be a lipid,
a protein, a heterocyclic compound, or another
carbohydrate residue. This group of glycosyltransferases
is most closely related to the previously defined
glycosyltransferase family 1 (GT1). The members of this
family may transfer UDP, ADP, GDP, or CMP linked sugars.
The diverse enzymatic activities among members of this
family reflect a wide range of biological functions. The
protein structure available for this family has the GTB
topology, one of the two protein topologies observed for
nucleotide-sugar-dependent glycosyltransferases. GTB
proteins have distinct N- and C- terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two domains
includes the catalytic center and permits a high degree
of flexibility. The members of this family are found
mainly in bacteria, while some of them are also found in
Archaea and eukaryotes.
Length = 475
Score = 28.7 bits (65), Expect = 2.0
Identities = 17/65 (26%), Positives = 30/65 (46%), Gaps = 4/65 (6%)
Query: 132 IQRF--LSQPFQVAEVFT-GHAGKLVPLEETIKGFSEILAGKYDHLPEVAFYMVGPIEEV 188
+RF + E G G++VP+++ IK F A +P+ +++GP +E
Sbjct: 278 PERFAPARRARPEKEPPVVGLIGRVVPIKD-IKTFIRAAAIVRKKIPDAEGWVIGPTDED 336
Query: 189 VAKAE 193
AE
Sbjct: 337 PEYAE 341
>gnl|CDD|223134 COG0056, AtpA, F0F1-type ATP synthase, alpha subunit [Energy
production and conversion].
Length = 504
Score = 28.7 bits (65), Expect = 2.1
Identities = 33/128 (25%), Positives = 55/128 (42%), Gaps = 23/128 (17%)
Query: 65 GIYPAVDPLDSTSRIMDPNIIG--AEHYNI---ARGVQKILQDYKSLQDIIAILGMDELS 119
GI PA++ S SR +G A+ + A ++ IL Y+ L+ + G D L
Sbjct: 352 GIRPAINVGLSVSR------VGSAAQIKAMKKVAGSLRLILAQYRELEA-FSQFGSD-LD 403
Query: 120 EEDKLTVARARKIQRFLSQP--------FQVAEVFTGHAGKL--VPLEETIKGFSEILAG 169
+ + + R +++ L QP QV ++ G G L VP+E+ E+LA
Sbjct: 404 KATRKQLERGKRLTELLKQPQYSPLSVEEQVLILYAGTNGYLDDVPVEKVADFEKELLAY 463
Query: 170 KYDHLPEV 177
E+
Sbjct: 464 LRSDHKEL 471
>gnl|CDD|168147 PRK05642, PRK05642, DNA replication initiation factor; Validated.
Length = 234
Score = 28.3 bits (63), Expect = 2.4
Identities = 29/121 (23%), Positives = 49/121 (40%), Gaps = 15/121 (12%)
Query: 31 AIYVPADDLTDPAPATTFAHL---------DATTVLSRAIAELGIYPAVDPLDSTSRIMD 81
A+Y+P +L D P +L D + +A E ++ + L + R +
Sbjct: 76 AVYLPLAELLDRGPEL-LDNLEQYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRL- 133
Query: 82 PNIIGAEHYNIARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVARARKIQRFLSQPFQ 141
++ A R + L D KS + + M LS+EDKL + R +R L +
Sbjct: 134 --LLAASKS--PRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRASRRGLHLTDE 189
Query: 142 V 142
V
Sbjct: 190 V 190
>gnl|CDD|224080 COG1158, Rho, Transcription termination factor [Transcription].
Length = 422
Score = 28.4 bits (64), Expect = 2.8
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 56 VLSRAIAELGIYPAVDPLDSTSR 78
L R +AE I+PA+D S +R
Sbjct: 346 HLDRKLAERRIFPAIDINKSGTR 368
>gnl|CDD|238548 cd01128, rho_factor, Transcription termination factor rho is a
bacterial ATP-dependent RNA/DNA helicase. It is a
homohexamer. Each monomer consists of an N-terminal
domain of the OB fold, which is responsible for binding
to cysteine rich nucleotides. This alignment is of the
C-terminal ATP binding domain.
Length = 249
Score = 27.7 bits (62), Expect = 3.3
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 56 VLSRAIAELGIYPAVDPLDSTSR 78
VL R +AE I+PA+D L S +R
Sbjct: 189 VLDRRLAERRIFPAIDILKSGTR 211
>gnl|CDD|162030 TIGR00767, rho, transcription termination factor Rho. This RNA
helicase, the transcription termination factor Rho,
occurs in nearly all bacteria but is missing from the
Cyanobacteria, the Mollicutes (Mycoplasmas), and various
Lactobacillales including Streptococcus. It is also
missing, of course, from the Archaea, which also lack
Nus factors. Members of this family from Micrococcus
luteus, Mycobacterium tuberculosis, and related species
have a related but highly variable long, highly charged
insert near the amino end. Members of this family differ
in the specificity of RNA binding [Transcription,
Transcription factors].
Length = 415
Score = 28.1 bits (63), Expect = 3.4
Identities = 13/52 (25%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 56 VLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEHYNIARGVQKILQDYKSLQ 107
L R +A+ I+PA+D S +R + ++ E ++KI+ S++
Sbjct: 341 HLDRKLADRRIFPAIDIKKSGTR-KEELLLTPEELQKIWVLRKIISPMDSIE 391
>gnl|CDD|129785 TIGR00702, TIGR00702, uncharacterized domain. This uncharacterized
domain comprises the whole of a protein in Methanococcus
jannaschii and Methanobacterium thermoautotrophicum, all
but the N-terminal 60 residues from a protein of
Mycobacterium tuberculosis, and all but the C-terminal
180 residues from a protein in Haemophilus influenzae
and Escherichia coli, among proteins from published
complete genomes [Hypothetical proteins, Conserved].
Length = 377
Score = 27.9 bits (62), Expect = 3.6
Identities = 15/37 (40%), Positives = 17/37 (45%), Gaps = 4/37 (10%)
Query: 32 IYVPADDLTDPAPATTF----AHLDATTVLSRAIAEL 64
V A L DP T F AHLD L RA+ E+
Sbjct: 229 YPVVAAVLDDPTLGTLFGGFGAHLDPEVALERALTEV 265
>gnl|CDD|182685 PRK10735, tldD, protease TldD; Provisional.
Length = 481
Score = 27.8 bits (62), Expect = 4.2
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 60 AIAELGIYPAVDPLDSTSR 78
A+ +Y ++DPL S SR
Sbjct: 113 AVEHSPLYTSLDPLQSMSR 131
>gnl|CDD|113128 pfam04345, Chor_lyase, Chorismate lyase. Chorismate lyase
catalyzes the first step in ubiquinone synthesis, i.e.
the removal of pyruvate from chorismate, to yield
4-hydroxybenzoate.
Length = 168
Score = 27.2 bits (60), Expect = 5.1
Identities = 13/47 (27%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 27 LPAQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPL 73
A + DD+ PAP L+ + L+R +A + VD L
Sbjct: 1 ALNNATWQQPDDIEFPAPLAQQWLLEQGS-LTRRLATQCEHLTVDLL 46
>gnl|CDD|236067 PRK07598, PRK07598, RNA polymerase sigma factor SigC; Validated.
Length = 415
Score = 27.5 bits (61), Expect = 5.5
Identities = 29/114 (25%), Positives = 45/114 (39%), Gaps = 17/114 (14%)
Query: 44 PATTFAHLDAT-TVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEHYNIA----RGVQK 98
PAT+F A SR + I DP DS + + I A+ R
Sbjct: 2 PATSFYADAAYEPQKSRQALDPDILED-DPDDSLDDVQELEIAAADEAVETAARNRRSTD 60
Query: 99 ILQDYKSLQDI--IAILGMDELSEEDKLTVARARKIQRFLSQPFQVAEVFTGHA 150
+++ Y LQ+I + +LG DE V+ A+K+QR++ G
Sbjct: 61 LVRLY--LQEIGRVRLLGRDE-------EVSEAQKVQRYMKLIVLANAAKEGDE 105
>gnl|CDD|234040 TIGR02867, spore_II_P, stage II sporulation protein P. Stage II
sporulation protein P is a protein of the endospore
formation program in a number of lineages in the
Firmicutes (low-GC Gram-positive bacteria). It is
expressed in the mother cell compartment, under control
of Sigma-E. SpoIIP, along with SpoIIM and SpoIID, is one
of three major proteins involved in engulfment of the
forespore by the mother cell. This protein family is
named for the single member in Bacillus subtilis,
although most sporulating bacteria have two members
[Cellular processes, Sporulation and germination].
Length = 196
Score = 26.9 bits (60), Expect = 5.7
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 16/85 (18%)
Query: 33 YVPAD-DLTDPAPATTFAHLDAT-----TVLSRAIAELGIYPAVDPLDSTSRIMDPNIIG 86
Y+P +TDP AT H + L++ + E GI D + ++
Sbjct: 12 YLPELPGVTDPNAAT---HSEGNITKVGDRLAKELEEKGIGVIHDK--TVHDGLNYE--- 63
Query: 87 AEHYNIAR-GVQKILQDYKSLQDII 110
+ Y+ +R V+K L++ K L+ II
Sbjct: 64 -QSYDRSRETVKKALKENKDLKYII 87
>gnl|CDD|226044 COG3513, COG3513, Predicted CRISPR-associated nuclease, contains
McrA/HNH-nuclease and RuvC-like nuclease domain [Defense
mechanisms].
Length = 1088
Score = 27.2 bits (60), Expect = 6.7
Identities = 13/99 (13%), Positives = 36/99 (36%)
Query: 40 TDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIIGAEHYNIARGVQKI 99
+ A TTF A + +A+ + G+ + + + + + + K
Sbjct: 343 KENAEKTTFMEGKAYKAIIKALFKQGLEDSFNSSNLSYDDLLEIGKDFSLLKNLEDIVKA 402
Query: 100 LQDYKSLQDIIAILGMDELSEEDKLTVARARKIQRFLSQ 138
L ++ + I +L + +++ R++ + Q
Sbjct: 403 LTKFEDNEMIEELLKKLSFDDFVNISLKALRRLSPLMLQ 441
>gnl|CDD|176894 cd08885, RHO_alpha_C_1, C-terminal catalytic domain of the
oxygenase alpha subunit of an uncharacterized subgroup
of Rieske-type non-heme iron aromatic ring-hydroxylating
oxygenases. C-terminal catalytic domain of the
oxygenase alpha subunit of a functionally
uncharacterized subgroup of the Rieske-type non-heme
iron aromatic ring-hydroxylating oxygenase (RHO) family.
RHOs, also known as aromatic ring hydroxylating
dioxygenases, utilize non-heme Fe(II) to catalyze the
addition of hydroxyl groups to the aromatic ring, an
initial step in the oxidative degradation of aromatic
compounds. RHOs are composed of either two or three
protein components, and are comprised of an electron
transport chain (ETC) and an oxygenase. The ETC
transfers reducing equivalents from the electron donor
to the oxygenase component, which in turn transfers
electrons to the oxygen molecules. The oxygenase
components are oligomers, either (alpha)n or
(alpha)n(beta)n. The alpha subunits are the catalytic
components and have an N-terminal domain, which binds a
Rieske-like 2Fe-2S cluster, and a C-terminal domain
which binds the non-heme Fe(II). The Fe(II) is
co-ordinated by conserved His and Asp residues. This
group contains two putative Parvibaculum lavamentivorans
(T) DS-1 oxygenases; this organism catabolizes
commercial linear alkylbenzenesulfonate surfactant (LAS)
and other surfactants, by a pathway involving an
undefined 'omega-oxygenation' and beta-oxidation of the
LAS side chain. The nature of the LAS-oxygenase is
unknown but is likely a multicomponent system. This
subfamily belongs to the SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket.
Length = 190
Score = 26.6 bits (59), Expect = 7.3
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 10/57 (17%)
Query: 115 MDELSEEDKLTVARARKIQRFLSQPFQVAEVFTGHAGKLVPLEETIKGFSEILAGKY 171
+D +++ED+L V +QR L F V G+L LE I F LA +
Sbjct: 143 LDAINDEDRLVV---EGVQRGLGSRFAVP-------GRLSHLERPIWQFQRYLASRL 189
>gnl|CDD|237171 PRK12678, PRK12678, transcription termination factor Rho;
Provisional.
Length = 672
Score = 27.2 bits (61), Expect = 7.6
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 57 LSRAIAELGIYPAVD 71
L R +A+ I+PAVD
Sbjct: 590 LDRKLADKRIFPAVD 604
>gnl|CDD|240011 cd04640, CBS_pair_27, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 126
Score = 25.7 bits (57), Expect = 9.6
Identities = 11/49 (22%), Positives = 21/49 (42%), Gaps = 3/49 (6%)
Query: 87 AEHYNIARGVQ-KILQDYKSLQDIIAILGMDELSEEDKLTVARARKIQR 134
A I GV+ ++ D S + I ++ +L E+ + + I R
Sbjct: 15 ALELMIKHGVRLLLVVD--SDDNFIGVITAVDLLGEEPIKRIQEGGISR 61
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.321 0.137 0.396
Gapped
Lambda K H
0.267 0.0627 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,535,426
Number of extensions: 1023764
Number of successful extensions: 942
Number of sequences better than 10.0: 1
Number of HSP's gapped: 918
Number of HSP's successfully gapped: 81
Length of query: 198
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 106
Effective length of database: 6,857,034
Effective search space: 726845604
Effective search space used: 726845604
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (25.6 bits)