RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5596
(154 letters)
>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 = 333 bits (855), Expect = e-115
Identities = 133/148 (89%), Positives = 139/148 (93%)
Query: 1 ITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSN 60
ITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGE MTRKDHSDVSN
Sbjct: 317 ITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEGMTRKDHSDVSN 376
Query: 61 QLYACYAIGKDVQAMKAVVGEEALTPDDLLYLEFLTKFEKNFVSQGNYENRTVYESLDIG 120
QLYACYAIGKDVQAMKAVVGEEAL+ +DLLYLEFL KFEKNF++QG YENRT++ESLDI
Sbjct: 377 QLYACYAIGKDVQAMKAVVGEEALSSEDLLYLEFLDKFEKNFIAQGPYENRTIFESLDIA 436
Query: 121 WQLLRIFPKEMLKRIPASTLAEFYPRDS 148
WQLLRIFPKEMLKRIPA L EFYPR S
Sbjct: 437 WQLLRIFPKEMLKRIPAKILEEFYPRKS 464
>gnl|CDD|235251 PRK04196, PRK04196, V-type ATP synthase subunit B; Provisional.
Length = 460
Score = 253 bits (648), Expect = 8e-84
Identities = 88/147 (59%), Positives = 113/147 (76%)
Query: 1 ITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSN 60
ITHPIPDLTGYITEGQI + R+LH + IYPPI+VLPSLSRLMK IGE TR+DH DV+N
Sbjct: 310 ITHPIPDLTGYITEGQIVLSRELHRKGIYPPIDVLPSLSRLMKDGIGEGKTREDHKDVAN 369
Query: 61 QLYACYAIGKDVQAMKAVVGEEALTPDDLLYLEFLTKFEKNFVSQGNYENRTVYESLDIG 120
QLYA YA GKD++ + A+VGEEAL+ D YL+F FE+ FV+QG ENR++ E+LD+G
Sbjct: 370 QLYAAYARGKDLRELAAIVGEEALSERDRKYLKFADAFEREFVNQGFDENRSIEETLDLG 429
Query: 121 WQLLRIFPKEMLKRIPASTLAEFYPRD 147
W+LL I P+ LKRI + +++P+
Sbjct: 430 WELLSILPESELKRIKDEYIEKYHPKY 456
>gnl|CDD|224078 COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase subunit B [Energy
production and conversion].
Length = 463
Score = 245 bits (628), Expect = 6e-81
Identities = 89/146 (60%), Positives = 111/146 (76%)
Query: 1 ITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSN 60
ITHPIPDLTGYITEGQI + R LH + IYPPINVLPSLSRLMK IGE TR+DH DVSN
Sbjct: 313 ITHPIPDLTGYITEGQIVLSRDLHRKGIYPPINVLPSLSRLMKDGIGEGKTREDHGDVSN 372
Query: 61 QLYACYAIGKDVQAMKAVVGEEALTPDDLLYLEFLTKFEKNFVSQGNYENRTVYESLDIG 120
QLYA YA G+D++ + AVVGEEAL+ D YL+F FE+ F+ QG YENR++ E+LD+G
Sbjct: 373 QLYAAYAEGRDLRELVAVVGEEALSERDRKYLKFADLFEQRFIKQGRYENRSIEETLDLG 432
Query: 121 WQLLRIFPKEMLKRIPASTLAEFYPR 146
W+LL I P+ L RI + +++P+
Sbjct: 433 WELLSILPESELTRIKPDLIDKYHPK 458
>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 = 220 bits (562), Expect = 5e-71
Identities = 89/147 (60%), Positives = 112/147 (76%)
Query: 1 ITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSN 60
ITHPIPDLTGYITEGQI + R+LH + IYPPINVLPSLSRLMK IGE TR+DH DVS+
Sbjct: 308 ITHPIPDLTGYITEGQIVLSRELHRKGIYPPINVLPSLSRLMKDGIGEGKTREDHKDVSD 367
Query: 61 QLYACYAIGKDVQAMKAVVGEEALTPDDLLYLEFLTKFEKNFVSQGNYENRTVYESLDIG 120
QLYA YA G+D++ + A+VGEEAL+ D YL+F FE+ FV QG ENR++ E+LDIG
Sbjct: 368 QLYAAYAEGRDLRGLVAIVGEEALSERDRKYLKFADLFERKFVRQGFNENRSIEETLDIG 427
Query: 121 WQLLRIFPKEMLKRIPASTLAEFYPRD 147
W+LL I P+ LKRI + +++P+
Sbjct: 428 WELLSILPESELKRIDEEYIEKYHPKY 454
>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 = 102 bits (256), Expect = 2e-27
Identities = 38/41 (92%), Positives = 39/41 (95%)
Query: 1 ITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRL 41
ITHPIPDLTGYITEGQI +DRQLHNR IYPPINVLPSLSRL
Sbjct: 236 ITHPIPDLTGYITEGQIVLDRQLHNRGIYPPINVLPSLSRL 276
>gnl|CDD|179373 PRK02118, PRK02118, V-type ATP synthase subunit B; Provisional.
Length = 436
Score = 85.5 bits (212), Expect = 2e-20
Identities = 55/155 (35%), Positives = 81/155 (52%), Gaps = 23/155 (14%)
Query: 1 ITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSN 60
+THP+PD TGYITEGQ Y L +I P SLSRL + IG+ TR+DH D+ N
Sbjct: 300 VTHPVPDNTGYITEGQFY----LRRGRIDP----FGSLSRLKQLVIGK-KTREDHGDLMN 350
Query: 61 ---QLYACYAIGKDVQAMKAVVGEEALTPDDLLYLEFLTKFEKNFVSQGNYENRTVYESL 117
+LYA K+ AM L+ D L+F FE + N + E+L
Sbjct: 351 AMIRLYADSREAKEKMAMGF-----KLSNWDEKLLKFSELFESRLMDLE--VNIPLEEAL 403
Query: 118 DIGWQLL-RIF-PKEMLKRIPASTLAEFYPRDSRH 150
D+GW++L + F P+E+ I + +++P++ H
Sbjct: 404 DLGWKILAQCFHPEEVG--IKEQLIDKYWPKNCLH 436
>gnl|CDD|215848 pfam00306, ATP-synt_ab_C, ATP synthase alpha/beta chain, C terminal
domain.
Length = 110
Score = 76.9 bits (190), Expect = 4e-19
Identities = 31/99 (31%), Positives = 51/99 (51%), Gaps = 12/99 (12%)
Query: 57 DVSNQLYACYAIGKDVQAMKAVVGEEALTPDDLLYLEFLTKFEKNFVSQGNYENR----- 111
V+ QL A +++QA+ +VGE+AL+ +D L LE + E+ F+ Q Y
Sbjct: 2 QVAGQLKLELAQYRELQAIVQLVGEDALSEEDKLTLERARRIEE-FLKQNQYSPEPVEKQ 60
Query: 112 --TVYESLDIGWQLLR----IFPKEMLKRIPASTLAEFY 144
V E++D+ + LLR P++ L RI LA++
Sbjct: 61 YVPVEETIDLFYALLRGKFDDLPEDALYRIGTIDLAKYK 99
>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 = 65.9 bits (162), Expect = 5e-14
Identities = 22/39 (56%), Positives = 28/39 (71%)
Query: 1 ITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLS 39
IT PIPD T IT+GQI + R+L R IYP I++L S+S
Sbjct: 175 ITDPIPDNTISITDGQIVLSRELAERGIYPAIDILLSVS 213
>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 = 57.4 bits (139), Expect = 2e-10
Identities = 41/130 (31%), Positives = 56/130 (43%), Gaps = 12/130 (9%)
Query: 1 ITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSN 60
+ PI D I +G I + R L R YP I+VL S+SRLM + + E+ R +
Sbjct: 321 MNEPIADSVRGILDGHIVLSRALAQRGHYPAIDVLASISRLMTAIVSEEHRRA--ARKFR 378
Query: 61 QLYACYAIGKDVQAMKAVVGEEALTPDDLL--YLEFLTKFEKNFVSQGNYENRTVYESLD 118
+L + Y KD + +G D L + K E F+ QG E ESL
Sbjct: 379 ELLSKY---KDNE-DLIRIGAYQRGSDRELDFAIAKYPKLE-RFLKQGINEKVNFEESLQ 433
Query: 119 IGWQLLRIFP 128
QL IF
Sbjct: 434 ---QLEEIFR 440
>gnl|CDD|224079 COG1157, FliI, Flagellar biosynthesis/type III secretory pathway
ATPase [Cell motility and secretion / Intracellular
trafficking and secretion].
Length = 441
Score = 54.9 bits (133), Expect = 1e-09
Identities = 20/70 (28%), Positives = 33/70 (47%), Gaps = 5/70 (7%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSNQLY 63
PI D I +G I + R L YP I+VL S+SR+M + E +H + +L
Sbjct: 324 PIADEVRSILDGHIVLSRALAEAGHYPAIDVLASISRVMPQIVSE-----EHRKAARRLR 378
Query: 64 ACYAIGKDVQ 73
+ ++ +
Sbjct: 379 QLLSRYEENE 388
>gnl|CDD|181092 PRK07721, fliI, flagellum-specific ATP synthase; Validated.
Length = 438
Score = 52.0 bits (125), Expect = 1e-08
Identities = 25/71 (35%), Positives = 37/71 (52%), Gaps = 8/71 (11%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSN--- 60
PI D I +G +DRQL N+ YP INVL S+SR+M + +H + +N
Sbjct: 319 PIADTVRGILDGHFVLDRQLANKGQYPAINVLKSVSRVMN-----HIVSPEHKEAANRFR 373
Query: 61 QLYACYAIGKD 71
+L + Y +D
Sbjct: 374 ELLSTYQNSED 384
>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 = 50.4 bits (121), Expect = 5e-08
Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 5/59 (8%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSNQL 62
PI D I +G I + R+L + YP I+VL S+SR+M ++ ++H +++ +L
Sbjct: 298 PIADAVRGILDGHIVLSRELAAKNHYPAIDVLASVSRVM-----NEIVSEEHKELAGKL 351
>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 = 47.7 bits (114), Expect = 4e-07
Identities = 18/50 (36%), Positives = 25/50 (50%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRK 53
PI D I +G I + R L YP I+VL S+SRLM + + +
Sbjct: 230 PIADAVRSILDGHIVLSRALAAAGHYPAIDVLKSISRLMNAVVTPEHKEA 279
>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 = 47.3 bits (113), Expect = 7e-07
Identities = 18/47 (38%), Positives = 24/47 (51%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDM 50
P+ D I +G I +DR + R YP INVL S+SRL +
Sbjct: 303 PVADAVRGILDGHIVLDRAIAERGRYPAINVLASVSRLAPRVWSPEE 349
>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 = 46.3 bits (111), Expect = 1e-06
Identities = 17/64 (26%), Positives = 30/64 (46%), Gaps = 5/64 (7%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSNQLY 63
PI D I +G I + R+L + YP I++L S+SR+M + +H + +
Sbjct: 300 PIADAARAILDGHIVLSRELAEQGHYPAIDILASISRVMPDVVSP-----EHRQAARRFK 354
Query: 64 ACYA 67
+
Sbjct: 355 QLLS 358
>gnl|CDD|181439 PRK08472, fliI, flagellum-specific ATP synthase; Validated.
Length = 434
Score = 45.8 bits (109), Expect = 2e-06
Identities = 23/68 (33%), Positives = 37/68 (54%), Gaps = 5/68 (7%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSNQLY 63
PI D + I +G I + R+L + IYPPIN+L S SR+M D+ +H + +
Sbjct: 318 PIADQSRSILDGHIVLSRELTDFGIYPPINILNSASRVMN-----DIISPEHKLAARKFK 372
Query: 64 ACYAIGKD 71
Y++ K+
Sbjct: 373 RLYSLLKE 380
>gnl|CDD|180696 PRK06793, fliI, flagellum-specific ATP synthase; Validated.
Length = 432
Score = 44.2 bits (104), Expect = 7e-06
Identities = 23/68 (33%), Positives = 39/68 (57%), Gaps = 5/68 (7%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSNQLY 63
P+PDL I +G I + R+L YP I+VL S+SR+M E++ +H ++N++
Sbjct: 316 PVPDLARGILDGHIVLKRELATLSHYPAISVLDSVSRIM-----EEIVSPNHWQLANEMR 370
Query: 64 ACYAIGKD 71
+I K+
Sbjct: 371 KILSIYKE 378
>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 = 41.5 bits (98), Expect = 5e-05
Identities = 24/70 (34%), Positives = 34/70 (48%), Gaps = 5/70 (7%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSNQLY 63
PI D I +G I + R L R YP I+VL SLSR+M + +H + +L
Sbjct: 306 PIADEVRSILDGHIVLSRALAERNHYPAIDVLASLSRVMSQ-----VVSTEHRRAAGKLR 360
Query: 64 ACYAIGKDVQ 73
A K+V+
Sbjct: 361 RLLATYKEVE 370
>gnl|CDD|180875 PRK07196, fliI, flagellum-specific ATP synthase; Validated.
Length = 434
Score = 40.3 bits (94), Expect = 1e-04
Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 5/64 (7%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSNQLY 63
PI D + +G I + R+L YP I++ S+SR M IG + ++ L
Sbjct: 317 PIVDCARAVLDGHIVLSRKLAEAGHYPAIDISQSISRCMSQVIG-----SQQAKAASLLK 371
Query: 64 ACYA 67
CYA
Sbjct: 372 QCYA 375
>gnl|CDD|236351 PRK08927, fliI, flagellum-specific ATP synthase; Validated.
Length = 442
Score = 40.3 bits (95), Expect = 2e-04
Identities = 17/39 (43%), Positives = 23/39 (58%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLM 42
P+ D I +G I ++R + R YP INVL S+SR M
Sbjct: 321 PVADAVRGILDGHIVMERAIAERGRYPAINVLKSVSRTM 359
>gnl|CDD|181182 PRK07960, fliI, flagellum-specific ATP synthase; Validated.
Length = 455
Score = 39.4 bits (92), Expect = 3e-04
Identities = 38/127 (29%), Positives = 57/127 (44%), Gaps = 12/127 (9%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSNQLY 63
PI D I +G I + R+L YP I++ S+SR M + I E + QL
Sbjct: 338 PIADSARAILDGHIVLSRRLAEAGHYPAIDIEASISRAMTALIDEQHYARVRQ--FKQLL 395
Query: 64 ACYAIGKDVQAMKAVVGEEALTPDDLL--YLEFLTKFEKNFVSQGNYENRTVYESLDIGW 121
+ + +D+ + VG A D +L + + E F+ QG +E R +E D
Sbjct: 396 SSFQRNRDLVS----VGAYAKGSDPMLDKAIALWPQLEA-FLQQGIFE-RADWE--DSLQ 447
Query: 122 QLLRIFP 128
L RIFP
Sbjct: 448 ALERIFP 454
>gnl|CDD|168181 PRK05688, fliI, flagellum-specific ATP synthase; Validated.
Length = 451
Score = 38.9 bits (91), Expect = 4e-04
Identities = 21/76 (27%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSNQLY 63
PI D + +G I + R+L YP I++ S+SR+M + + R+ + QL+
Sbjct: 331 PIADSARGVLDGHIVLSRRLAEEGHYPAIDIEASISRVMPQVVDPEHLRR--AQRFKQLW 388
Query: 64 ACYAIGKDVQAMKAVV 79
+ Y +D+ ++ A V
Sbjct: 389 SRYQQSRDLISVGAYV 404
>gnl|CDD|235666 PRK06002, fliI, flagellum-specific ATP synthase; Validated.
Length = 450
Score = 38.8 bits (91), Expect = 5e-04
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSA 45
P+ D +G I +DR + + YP ++ L S+SRL + A
Sbjct: 327 PVADSIRGTLDGHIVLDRAIAEQGRYPAVDPLASISRLARHA 368
>gnl|CDD|180762 PRK06936, PRK06936, type III secretion system ATPase; Provisional.
Length = 439
Score = 38.6 bits (90), Expect = 6e-04
Identities = 18/49 (36%), Positives = 28/49 (57%)
Query: 1 ITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGED 49
+T P+ D T I +G I + R+L YP I+VL S SR+M + ++
Sbjct: 320 MTEPVADETRSILDGHIILSRKLAAANHYPAIDVLRSASRVMNQIVSKE 368
>gnl|CDD|136438 PRK07594, PRK07594, type III secretion system ATPase SsaN;
Validated.
Length = 433
Score = 38.0 bits (88), Expect = 0.001
Identities = 15/49 (30%), Positives = 25/49 (51%)
Query: 1 ITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGED 49
+ P+ D + +G I + R+L R YP I+VL +LSR+ +
Sbjct: 313 MNEPLADEVRSLLDGHIVLSRRLAERGHYPAIDVLATLSRVFPVVTSHE 361
>gnl|CDD|183987 PRK13343, PRK13343, F0F1 ATP synthase subunit alpha; Provisional.
Length = 502
Score = 37.6 bits (88), Expect = 0.001
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 12 ITEGQIYVDRQLHNRQIYPPINVLPSLSR 40
IT+GQIY+D L P ++V S+SR
Sbjct: 337 ITDGQIYLDSDLFAAGQRPAVDVGLSVSR 365
>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 = 37.4 bits (87), Expect = 0.002
Identities = 30/106 (28%), Positives = 55/106 (51%), Gaps = 7/106 (6%)
Query: 1 ITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMK-SAIGEDMTRKDHSDVS 59
+T P P T + + R++ IYP ++ L S SRL+ S +GE +H DV+
Sbjct: 305 LTDPAPATTFAHLDATTVLSRKIAELGIYPAVDPLDSTSRLLDPSVVGE-----EHYDVA 359
Query: 60 NQLYACYAIGKDVQAMKAVVGEEALTPDDLLYLEFLTKFEKNFVSQ 105
+ K++Q + A++G + L+ +D L +E + ++ F+SQ
Sbjct: 360 RGVQQILQRYKELQDIIAILGMDELSEEDKLTVERARRIQR-FLSQ 404
>gnl|CDD|236166 PRK08149, PRK08149, ATP synthase SpaL; Validated.
Length = 428
Score = 36.5 bits (85), Expect = 0.003
Identities = 17/38 (44%), Positives = 24/38 (63%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRL 41
PI D I +G IY+ R+L + YP I+VL S+SR+
Sbjct: 312 PIGDEIRSILDGHIYLSRKLAAKGHYPAIDVLKSVSRV 349
>gnl|CDD|181599 PRK08972, fliI, flagellum-specific ATP synthase; Validated.
Length = 444
Score = 36.2 bits (84), Expect = 0.003
Identities = 23/77 (29%), Positives = 40/77 (51%), Gaps = 8/77 (10%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGED---MTRKDHSDVSN 60
PI D + I +G I + R+L + YP I++ S+SR+M I E+ R+
Sbjct: 325 PIADASRAILDGHIVLSRELADSGHYPAIDIEASISRVMPMVISEEHLEAMRR-----VK 379
Query: 61 QLYACYAIGKDVQAMKA 77
Q+Y+ Y +D+ ++ A
Sbjct: 380 QVYSLYQQNRDLISIGA 396
>gnl|CDD|238552 cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, central 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
alpha subunit of the F1 ATP synthase can bind
nucleotides, but is non-catalytic.
Length = 274
Score = 34.9 bits (81), Expect = 0.008
Identities = 15/29 (51%), Positives = 21/29 (72%)
Query: 12 ITEGQIYVDRQLHNRQIYPPINVLPSLSR 40
IT+GQI+++ L N+ I P INV S+SR
Sbjct: 244 ITDGQIFLETDLFNKGIRPAINVGLSVSR 272
>gnl|CDD|180526 PRK06315, PRK06315, type III secretion system ATPase; Provisional.
Length = 442
Score = 34.9 bits (80), Expect = 0.012
Identities = 17/52 (32%), Positives = 27/52 (51%)
Query: 1 ITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTR 52
+ P+ D I +G I + L YP I+VL S+SRL+ + + E+ R
Sbjct: 323 MNEPVADEVKSILDGHIVLSNALAQAYHYPAIDVLASISRLLTAIVPEEQRR 374
>gnl|CDD|169656 PRK09099, PRK09099, type III secretion system ATPase; Provisional.
Length = 441
Score = 34.0 bits (78), Expect = 0.021
Identities = 20/72 (27%), Positives = 37/72 (51%), Gaps = 5/72 (6%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSNQLY 63
PI + I +G + + R++ R YP I+VL SLSR+M + ++H + +L
Sbjct: 324 PIAEEVRGILDGHMILSREIAARNQYPAIDVLGSLSRVMPQ-----VVPREHVQAAGRLR 378
Query: 64 ACYAIGKDVQAM 75
A ++V+ +
Sbjct: 379 QLLAKHREVETL 390
>gnl|CDD|176999 CHL00059, atpA, ATP synthase CF1 alpha subunit.
Length = 485
Score = 33.8 bits (78), Expect = 0.028
Identities = 16/34 (47%), Positives = 22/34 (64%)
Query: 12 ITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSA 45
IT+GQI++ L N I P INV S+SR+ +A
Sbjct: 316 ITDGQIFLSADLFNAGIRPAINVGISVSRVGSAA 349
>gnl|CDD|233211 TIGR00962, atpA, proton translocating ATP synthase, F1 alpha
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. The alpha-subunit
contains a highly conserved adenine-specific
noncatalytic nucleotide-binding domain. The conserved
amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton
translocating ATP synthase F1, alpha subunit is
homologous to proton translocating ATP synthase
archaeal/vacuolar(V1), B subunit [Energy metabolism,
ATP-proton motive force interconversion].
Length = 501
Score = 33.1 bits (76), Expect = 0.040
Identities = 16/34 (47%), Positives = 23/34 (67%)
Query: 12 ITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSA 45
IT+GQI+++ L N I P INV S+SR+ +A
Sbjct: 336 ITDGQIFLESDLFNSGIRPAINVGLSVSRVGGAA 369
>gnl|CDD|180712 PRK06820, PRK06820, type III secretion system ATPase; Validated.
Length = 440
Score = 32.9 bits (75), Expect = 0.055
Identities = 27/123 (21%), Positives = 56/123 (45%), Gaps = 9/123 (7%)
Query: 4 PIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSNQLY 63
P+ D + +G I + R+L YP I++ S+SR+M + + + ++
Sbjct: 324 PVADEVRSLLDGHIVLSRRLAGAGHYPAIDIAASVSRIMPQIVSAG--QLAMAQKLRRML 381
Query: 64 ACYAIGKDVQAMKAVVGEEALTPDDLLYLEFLTKFE--KNFVSQGNYENRTVYESLDIGW 121
ACY ++++ + V E +DL E L ++ F+ Q + E + +L+
Sbjct: 382 ACY---QEIELLVRV--GEYQAGEDLQADEALQRYPAICAFLQQDHSETAHLETTLEHLA 436
Query: 122 QLL 124
Q++
Sbjct: 437 QVV 439
>gnl|CDD|223134 COG0056, AtpA, F0F1-type ATP synthase, alpha subunit [Energy
production and conversion].
Length = 504
Score = 32.6 bits (75), Expect = 0.073
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 7/46 (15%)
Query: 7 DLTGY-------ITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSA 45
D++ Y IT+GQI+++ L N I P INV S+SR+ +A
Sbjct: 325 DVSAYIPTNVISITDGQIFLETDLFNAGIRPAINVGLSVSRVGSAA 370
>gnl|CDD|236448 PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated.
Length = 502
Score = 32.0 bits (74), Expect = 0.092
Identities = 15/29 (51%), Positives = 20/29 (68%)
Query: 12 ITEGQIYVDRQLHNRQIYPPINVLPSLSR 40
IT+GQI+++ L N I P INV S+SR
Sbjct: 337 ITDGQIFLESDLFNAGIRPAINVGISVSR 365
>gnl|CDD|224080 COG1158, Rho, Transcription termination factor [Transcription].
Length = 422
Score = 31.9 bits (73), Expect = 0.11
Identities = 9/25 (36%), Positives = 19/25 (76%)
Query: 16 QIYVDRQLHNRQIYPPINVLPSLSR 40
++++DR+L R+I+P I++ S +R
Sbjct: 344 ELHLDRKLAERRIFPAIDINKSGTR 368
>gnl|CDD|223133 COG0055, AtpD, F0F1-type ATP synthase, beta subunit [Energy
production and conversion].
Length = 468
Score = 31.0 bits (71), Expect = 0.19
Identities = 25/87 (28%), Positives = 46/87 (52%), Gaps = 7/87 (8%)
Query: 20 DRQLHNRQIYPPINVLPSLSRLMKSAI-GEDMTRKDHSDVSNQLYACYAIGKDVQAMKAV 78
RQ+ IYP ++ L S SR + I GE +H +V+ ++ + K++Q + A+
Sbjct: 328 SRQIAALGIYPAVDPLDSTSRALDPKIVGE-----EHYEVAREVQSILQRYKELQDIIAI 382
Query: 79 VGEEALTPDDLLYLEFLTKFEKNFVSQ 105
+G + L+ +D L + K + F+SQ
Sbjct: 383 LGMDELSEEDKLTVARARKIQ-RFLSQ 408
>gnl|CDD|140212 PTZ00185, PTZ00185, ATPase alpha subunit; Provisional.
Length = 574
Score = 31.2 bits (70), Expect = 0.20
Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 7/46 (15%)
Query: 7 DLTGYI-------TEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSA 45
D+T YI T+GQIY+D +L P +N+ S+SR+ SA
Sbjct: 360 DVTAYIVTNVISITDGQIYLDTKLFTGGQRPAVNIGLSVSRVGSSA 405
>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 = 30.4 bits (69), Expect = 0.32
Identities = 10/25 (40%), Positives = 19/25 (76%)
Query: 16 QIYVDRQLHNRQIYPPINVLPSLSR 40
++ +DR+L R+I+P I++L S +R
Sbjct: 187 ELVLDRRLAERRIFPAIDILKSGTR 211
>gnl|CDD|236490 PRK09376, rho, transcription termination factor Rho; Provisional.
Length = 416
Score = 30.1 bits (69), Expect = 0.43
Identities = 8/25 (32%), Positives = 19/25 (76%)
Query: 16 QIYVDRQLHNRQIYPPINVLPSLSR 40
++++DR+L ++I+P I++ S +R
Sbjct: 340 ELHLDRKLAEKRIFPAIDINRSGTR 364
>gnl|CDD|224077 COG1155, NtpA, Archaeal/vacuolar-type H+-ATPase subunit A [Energy
production and conversion].
Length = 588
Score = 29.2 bits (66), Expect = 0.96
Identities = 24/111 (21%), Positives = 43/111 (38%), Gaps = 4/111 (3%)
Query: 20 DRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSNQLYACYAI---GKDVQAMK 76
D L NR+ +P IN L S S L + + I ++Q +
Sbjct: 415 DAALANRRHFPSINWLNSYS-LYTEDLRSWYDENVSPEWGALRDQAMEILQRESELQEIV 473
Query: 77 AVVGEEALTPDDLLYLEFLTKFEKNFVSQGNYENRTVYESLDIGWQLLRIF 127
+VG +AL + L+ ++F+ Q ++ Y SL + +L+
Sbjct: 474 QLVGYDALPEKEKSILDVARIIREDFLQQNAFDEIDAYCSLRKQYLMLKAI 524
>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 = 28.5 bits (64), Expect = 1.4
Identities = 9/25 (36%), Positives = 20/25 (80%)
Query: 16 QIYVDRQLHNRQIYPPINVLPSLSR 40
++++DR+L +R+I+P I++ S +R
Sbjct: 339 ELHLDRKLADRRIFPAIDIKKSGTR 363
>gnl|CDD|99995 cd04299, GT1_Glycogen_Phosphorylase_like, This family is most
closely related to the oligosaccharide phosphorylase
domain family and other unidentified sequences.
Oligosaccharide phosphorylase catalyzes the breakdown of
oligosaccharides into glucose-1-phosphate units. They
are important allosteric enzymes in carbohydrate
metabolism. The members of this family are found in
bacteria and Archaea.
Length = 778
Score = 28.7 bits (65), Expect = 1.5
Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 1/37 (2%)
Query: 107 NYENRTVYESLDIG-WQLLRIFPKEMLKRIPASTLAE 142
N E R ++ LD W+ P +L + L E
Sbjct: 13 NPEARELFRRLDPELWEETGHNPVLLLGEVSQERLEE 49
>gnl|CDD|132367 TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase, F1 subunit alpha.
A small number of taxonomically diverse prokaryotic
species, including Methanosarcina barkeri, 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 alpha subunit of this apparent
second ATP synthase.
Length = 497
Score = 28.6 bits (64), Expect = 1.5
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 12 ITEGQIYVDRQLHNRQIYPPINVLPSLSRL 41
IT+GQIY+ L + P ++V S+SR+
Sbjct: 337 ITDGQIYLSPTLFELGVLPAVDVGKSVSRV 366
>gnl|CDD|179052 PRK00513, minC, septum formation inhibitor; Reviewed.
Length = 214
Score = 28.3 bits (64), Expect = 1.5
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 11 YITEGQIYVDRQLHNRQIYP 30
YI +G I V+R ++I P
Sbjct: 195 YIKDGGIVVERLQPLKKIRP 214
>gnl|CDD|226710 COG4259, COG4259, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 121
Score = 26.8 bits (59), Expect = 2.7
Identities = 15/39 (38%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 62 LYACYAIGKDVQAMKAVVGEEALTPDDLLYLEFLTKFEK 100
LY+ GKD QA++ E+AL P+ ++++FL K K
Sbjct: 81 LYS--NSGKDEQAVREFETEKALFPESGVFMDFLMKNGK 117
>gnl|CDD|236826 PRK11031, PRK11031, guanosine pentaphosphate phosphohydrolase;
Provisional.
Length = 496
Score = 27.6 bits (62), Expect = 2.9
Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 107 NYENRTVYESLDIGWQLLRIFPKEMLKRIPAS 138
+ +N E+++ GWQ LR+F E L+ IP S
Sbjct: 47 DSDNALSNEAMERGWQCLRLF-AERLQDIPPS 77
>gnl|CDD|237150 PRK12608, PRK12608, transcription termination factor Rho;
Provisional.
Length = 380
Score = 27.4 bits (61), Expect = 3.0
Identities = 23/83 (27%), Positives = 44/83 (53%), Gaps = 8/83 (9%)
Query: 16 QIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEDMTRKDHSDVSNQLYACYAIGKDVQAM 75
+I +DR+L +++++P I++ S +R + + K+ V +L A K V+AM
Sbjct: 304 EIVLDRELADKRVFPAIDIAKSGTRREELLLDS----KELEKV-RRLRRALASRKPVEAM 358
Query: 76 KAVVGEEALTPDDLLYLEFLTKF 98
+A++ + TPD+ EFL
Sbjct: 359 EALLEKLRETPDN---AEFLNSV 378
>gnl|CDD|221299 pfam11897, DUF3417, Protein of unknown function (DUF3417). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria and archaea. Proteins
in this family are typically between 145 to 860 amino
acids in length. This protein is found associated with
pfam00343. This protein has a conserved AYF sequence
motif.
Length = 119
Score = 26.4 bits (59), Expect = 4.3
Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 1/37 (2%)
Query: 107 NYENRTVYESLD-IGWQLLRIFPKEMLKRIPASTLAE 142
N E R ++ LD W+ P +L + L E
Sbjct: 30 NPEARALFRRLDPELWEETGHNPVRLLGEVSQERLEE 66
>gnl|CDD|235248 PRK04192, PRK04192, V-type ATP synthase subunit A; Provisional.
Length = 586
Score = 26.3 bits (59), Expect = 7.9
Identities = 20/76 (26%), Positives = 36/76 (47%), Gaps = 2/76 (2%)
Query: 20 DRQLHNRQIYPPINVLPSLSRLMKSAIG--EDMTRKDHSDVSNQLYACYAIGKDVQAMKA 77
D +L +R+ +P IN L S S + E+ D ++ ++ ++Q +
Sbjct: 416 DAELADRRHFPAINWLTSYSLYLDQVAPWWEENVDPDWRELRDEAMDLLQREAELQEIVR 475
Query: 78 VVGEEALTPDDLLYLE 93
+VG +AL +D L LE
Sbjct: 476 LVGPDALPEEDRLILE 491
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
0.319 0.137 0.401
Gapped
Lambda K H
0.267 0.0779 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,945,086
Number of extensions: 699558
Number of successful extensions: 610
Number of sequences better than 10.0: 1
Number of HSP's gapped: 605
Number of HSP's successfully gapped: 62
Length of query: 154
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 65
Effective length of database: 6,990,096
Effective search space: 454356240
Effective search space used: 454356240
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 (21.7 bits)
S2: 55 (24.9 bits)