RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy91
(541 letters)
>gnl|CDD|201420 pfam00735, Septin, Septin. Members of this family include CDC3,
CDC10, CDC11 and CDC12/Septin. Members of this family
bind GTP. As regards the septins, these are polypeptides
of 30-65kDa with three characteristic GTPase motifs
(G-1, G-3 and G-4) that are similar to those of the Ras
family. The G-4 motif is strictly conserved with a
unique septin consensus of AKAD. Most septins are
thought to have at least one coiled-coil region, which
in some cases is necessary for intermolecular
interactions that allow septins to polymerise to form
rod-shaped complexes. In turn, these are arranged into
tandem arrays to form filaments. They are
multifunctional proteins, with roles in cytokinesis,
sporulation, germ cell development, exocytosis and
apoptosis.
Length = 280
Score = 214 bits (546), Expect = 2e-65
Identities = 101/272 (37%), Positives = 149/272 (54%), Gaps = 42/272 (15%)
Query: 259 KGFDFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGV 318
KGFDFTLMVVGESGLGK+TL+N+LFL+DL +R +P +++ KT I+ +++IEE GV
Sbjct: 1 KGFDFTLMVVGESGLGKTTLINTLFLTDLIPERGIPGPSEKIKKTVEIKATTVEIEEDGV 60
Query: 319 KLRLTVVDTPGFGDSINSEESWRACCSYIDDQFRQYFNDENRQGKTTTIEK--------- 369
KL LTV+DTPGFGD+I++ W+ YID+QF QY DE+R +T+ ++
Sbjct: 61 KLNLTVIDTPGFGDAIDNSNCWKPIVEYIDEQFEQYLRDESRLNRTSIVDNRVHCCLYFI 120
Query: 370 -------KSMDIE-ERGVKLRLTVVDTPGFGDSINSEESWRACCSYIDDQFRQYFN---- 417
K +D+E + + ++ ++ D++ +E R + RQ
Sbjct: 121 SPTGHGLKPLDVEFMKKLHEKVNIIPVIAKADTLTPDELQRFKKRIRAEIERQNIKIYHF 180
Query: 418 --------DESGLNRK-------------NIVDNRFATNRHRNNAPTPSQVENPKHSDFN 456
+E + ++N R R +VENP H DF
Sbjct: 181 PDEESDEDEEKEQTEQLKSSIPFAIVGSNTEIENDGKKVRGRKYPWGVVEVENPSHCDFL 240
Query: 457 KLRNMLISTHMQDLKDVTEDVHYENFRAQCLS 488
KLRNMLI TH+QDLK+VT ++HYEN+R++ LS
Sbjct: 241 KLRNMLIRTHLQDLKEVTHELHYENYRSEKLS 272
Score = 72.3 bits (178), Expect = 5e-14
Identities = 29/41 (70%), Positives = 36/41 (87%)
Query: 195 KGFDFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNEK 235
KGFDFTLMVVGESGLGK+TL+N+LFL+DL +R +P +EK
Sbjct: 1 KGFDFTLMVVGESGLGKTTLINTLFLTDLIPERGIPGPSEK 41
Score = 71.2 bits (175), Expect = 1e-13
Identities = 27/36 (75%), Positives = 33/36 (91%)
Query: 96 KGFDFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVP 131
KGFDFTLMVVGESGLGK+TL+N+LFL+DL +R +P
Sbjct: 1 KGFDFTLMVVGESGLGKTTLINTLFLTDLIPERGIP 36
Score = 50.0 bits (120), Expect = 1e-06
Identities = 19/24 (79%), Positives = 20/24 (83%)
Query: 135 GSNTVIEVAGTKVRGRQYPWGVVE 158
GSNT IE G KVRGR+YPWGVVE
Sbjct: 207 GSNTEIENDGKKVRGRKYPWGVVE 230
>gnl|CDD|206649 cd01850, CDC_Septin, CDC/Septin GTPase family. Septins are a
conserved family of GTP-binding proteins associated with
diverse processes in dividing and non-dividing cells.
They were first discovered in the budding yeast S.
cerevisiae as a set of genes (CDC3, CDC10, CDC11 and
CDC12) required for normal bud morphology. Septins are
also present in metazoan cells, where they are required
for cytokinesis in some systems, and implicated in a
variety of other processes involving organization of the
cell cortex and exocytosis. In humans, 12 septin genes
generate dozens of polypeptides, many of which comprise
heterooligomeric complexes. Since septin mutants are
commonly defective in cytokinesis and formation of the
neck formation of the neck filaments/septin rings,
septins have been considered to be the primary
constituents of the neck filaments. Septins belong to
the GTPase superfamily for their conserved GTPase motifs
and enzymatic activities.
Length = 275
Score = 154 bits (391), Expect = 5e-43
Identities = 53/110 (48%), Positives = 72/110 (65%)
Query: 259 KGFDFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGV 318
+GF F +MVVGESGLGKST +N+LF + LY + P + KT I+ ++EE GV
Sbjct: 1 RGFQFNIMVVGESGLGKSTFINTLFGTKLYPSKYPPAPGEHITKTVEIKISKAELEENGV 60
Query: 319 KLRLTVVDTPGFGDSINSEESWRACCSYIDDQFRQYFNDENRQGKTTTIE 368
KL+LTV+DTPGFGD+IN+ + W+ YIDDQF Y +E+R + I
Sbjct: 61 KLKLTVIDTPGFGDNINNSDCWKPIVDYIDDQFESYLREESRINRNRRIP 110
Score = 88.8 bits (221), Expect = 1e-19
Identities = 26/46 (56%), Positives = 36/46 (78%)
Query: 446 QVENPKHSDFNKLRNMLISTHMQDLKDVTEDVHYENFRAQCLSQIS 491
+VEN +H DF KLRN+LI TH+QDLK+ T +VHYEN+R++ L +
Sbjct: 230 EVENEEHCDFVKLRNLLIRTHLQDLKETTHNVHYENYRSEKLEALK 275
Score = 67.6 bits (166), Expect = 2e-12
Identities = 20/33 (60%), Positives = 26/33 (78%)
Query: 96 KGFDFTLMVVGESGLGKSTLVNSLFLSDLYGDR 128
+GF F +MVVGESGLGKST +N+LF + LY +
Sbjct: 1 RGFQFNIMVVGESGLGKSTFINTLFGTKLYPSK 33
Score = 67.6 bits (166), Expect = 2e-12
Identities = 20/33 (60%), Positives = 26/33 (78%)
Query: 195 KGFDFTLMVVGESGLGKSTLVNSLFLSDLYGDR 227
+GF F +MVVGESGLGKST +N+LF + LY +
Sbjct: 1 RGFQFNIMVVGESGLGKSTFINTLFGTKLYPSK 33
Score = 48.7 bits (117), Expect = 3e-06
Identities = 18/24 (75%), Positives = 20/24 (83%)
Query: 135 GSNTVIEVAGTKVRGRQYPWGVVE 158
GSN +EV G KVRGR+YPWGVVE
Sbjct: 207 GSNEEVEVNGKKVRGRKYPWGVVE 230
>gnl|CDD|227352 COG5019, CDC3, Septin family protein [Cell division and chromosome
partitioning / Cytoskeleton].
Length = 373
Score = 138 bits (350), Expect = 3e-36
Identities = 55/129 (42%), Positives = 80/129 (62%), Gaps = 1/129 (0%)
Query: 241 SDIGFATLPEQVHRKSVKKGFDFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVN-DR 299
+G + LP Q HRK KKG DFT+MVVGESGLGK+T +N+LF + L + ++ ++ +
Sbjct: 2 GYVGISNLPNQRHRKLSKKGIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEG 61
Query: 300 QGKTTTIEKKSMDIEERGVKLRLTVVDTPGFGDSINSEESWRACCSYIDDQFRQYFNDEN 359
T I+ ++EE G L LTV+DTPGFGD I++ + W YIDDQF QY ++E
Sbjct: 62 TSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSKCWEPIVDYIDDQFDQYLDEEQ 121
Query: 360 RQGKTTTIE 368
+ + +
Sbjct: 122 KIKRNPKFK 130
Score = 75.4 bits (186), Expect = 1e-14
Identities = 28/82 (34%), Positives = 49/82 (59%), Gaps = 3/82 (3%)
Query: 447 VENPKHSDFNKLRNMLISTHMQDLKDVTEDVHYENFRAQCLSQISQRGDRGKLKKDSAPD 506
+++ +HSDF KLRN+LI TH+Q+LK+ TE++ YEN+R ++S + G+ +
Sbjct: 252 IDDEEHSDFKKLRNLLIRTHLQELKETTENLLYENYRT---EKLSGLKNSGEPSLKEIHE 308
Query: 507 GLITETDRLLLEKDEELVKSTI 528
+ E +R L +K E ++
Sbjct: 309 ARLNEEERELKKKFTEKIREKE 330
Score = 74.3 bits (183), Expect = 3e-14
Identities = 40/99 (40%), Positives = 52/99 (52%), Gaps = 10/99 (10%)
Query: 178 YIGFATLPEQVHRKSVKKGFDFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNEKGS 237
Y+G + LP Q HRK KKG DFT+MVVGESGLGK+T +N+LF + L V+E
Sbjct: 3 YVGISNLPNQRHRKLSKKGIDFTIMVVGESGLGKTTFINTLFGTSL--------VDETEI 54
Query: 238 IPYSDIGFATLPEQVHRKSV--KKGFDFTLMVVGESGLG 274
G + E K+ + GF L V+ G G
Sbjct: 55 DDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFG 93
Score = 73.5 bits (181), Expect = 4e-14
Identities = 28/42 (66%), Positives = 34/42 (80%)
Query: 79 YIGFATLPEQVHRKSVKKGFDFTLMVVGESGLGKSTLVNSLF 120
Y+G + LP Q HRK KKG DFT+MVVGESGLGK+T +N+LF
Sbjct: 3 YVGISNLPNQRHRKLSKKGIDFTIMVVGESGLGKTTFINTLF 44
Score = 42.7 bits (101), Expect = 4e-04
Identities = 18/24 (75%), Positives = 20/24 (83%)
Query: 135 GSNTVIEVAGTKVRGRQYPWGVVE 158
GSNT IE G +VRGR+YPWGVVE
Sbjct: 228 GSNTEIENGGEQVRGRKYPWGVVE 251
>gnl|CDD|206648 cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like superfamily of
small guanosine triphosphatases (GTPases). Ras-like
GTPase superfamily. The Ras-like superfamily of small
GTPases consists of several families with an extremely
high degree of structural and functional similarity. The
Ras superfamily is divided into at least four families
in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families.
This superfamily also includes proteins like the GTP
translation factors, Era-like GTPases, and G-alpha chain
of the heterotrimeric G proteins. Members of the Ras
superfamily regulate a wide variety of cellular
functions: the Ras family regulates gene expression, the
Rho family regulates cytoskeletal reorganization and
gene expression, the Rab and Sar1/Arf families regulate
vesicle trafficking, and the Ran family regulates
nucleocytoplasmic transport and microtubule
organization. The GTP translation factor family
regulates initiation, elongation, termination, and
release in translation, and the Era-like GTPase family
regulates cell division, sporulation, and DNA
replication. Members of the Ras superfamily are
identified by the GTP binding site, which is made up of
five characteristic sequence motifs, and the switch I
and switch II regions.
Length = 161
Score = 54.0 bits (130), Expect = 1e-08
Identities = 25/76 (32%), Positives = 37/76 (48%), Gaps = 8/76 (10%)
Query: 267 VVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLTVVD 326
VVG G+GKS+L+N+L +V V+D G T + ++++ VKL L VD
Sbjct: 2 VVGRGGVGKSSLLNALL------GGEVGEVSDVPGTTRDPDVYVKELDKGKVKLVL--VD 53
Query: 327 TPGFGDSINSEESWRA 342
TPG + A
Sbjct: 54 TPGLDEFGGLGREELA 69
Score = 32.0 bits (73), Expect = 0.35
Identities = 12/52 (23%), Positives = 20/52 (38%), Gaps = 2/52 (3%)
Query: 352 RQYFNDENRQGKTTTIEKKSMDIEERGVKLRLTVVDTPGFGDSINSEESWRA 403
+ + G T + ++++ VKL L VDTPG + A
Sbjct: 20 GEVGEVSDVPGTTRDPDVYVKELDKGKVKLVL--VDTPGLDEFGGLGREELA 69
Score = 30.1 bits (68), Expect = 1.7
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 104 VVGESGLGKSTLVNSLF 120
VVG G+GKS+L+N+L
Sbjct: 2 VVGRGGVGKSSLLNALL 18
Score = 30.1 bits (68), Expect = 1.7
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 203 VVGESGLGKSTLVNSLF 219
VVG G+GKS+L+N+L
Sbjct: 2 VVGRGGVGKSSLLNALL 18
>gnl|CDD|206652 cd01853, Toc34_like, Translocon at the Outer-envelope membrane of
Chloroplasts 34-like (Toc34-like). The Toc34-like
(Translocon at the Outer-envelope membrane of
Chloroplasts) family contains several Toc proteins,
including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125,
and Toc90. The Toc complex at the outer envelope
membrane of chloroplasts is a molecular machine of ~500
kDa that contains a single Toc159 protein, four Toc75
molecules, and four or five copies of Toc34. Toc64 and
Toc12 are associated with the translocon, but do not
appear to be part of the core complex. The Toc
translocon initiates the import of nuclear-encoded
preproteins from the cytosol into the organelle. Toc34
and Toc159 are both GTPases, while Toc75 is a
beta-barrel integral membrane protein. Toc159 is equally
distributed between a soluble cytoplasmic form and a
membrane-inserted form, suggesting that assembly of the
Toc complex is dynamic. Toc34 and Toc75 act sequentially
to mediate docking and insertion of Toc159 resulting in
assembly of the functional translocon.
Length = 248
Score = 47.7 bits (114), Expect = 4e-06
Identities = 34/99 (34%), Positives = 56/99 (56%), Gaps = 18/99 (18%)
Query: 243 IGFATLPEQVHRK------SVKKGFDFTL--MVVGESGLGKSTLVNSLFLSDLYGDRKVP 294
+GF P+ K +KK DF+L +V+G++G+GKS+ +NS+F G+RKV
Sbjct: 4 VGFQFFPDATQTKLHELEAKLKKELDFSLTILVLGKTGVGKSSTINSIF-----GERKV- 57
Query: 295 NVNDRQGKTTTIEKKSMDIEERGVKLRLTVVDTPGFGDS 333
+V+ Q +T + S ++ G K L ++DTPG +S
Sbjct: 58 SVSAFQSETLRPREVSRTVD--GFK--LNIIDTPGLLES 92
Score = 38.1 bits (89), Expect = 0.007
Identities = 23/62 (37%), Positives = 38/62 (61%), Gaps = 13/62 (20%)
Query: 77 RDYIGFATLPEQVHRK------SVKKGFDFTL--MVVGESGLGKSTLVNSLFLSDLYGDR 128
R+++GF P+ K +KK DF+L +V+G++G+GKS+ +NS+F G+R
Sbjct: 1 REWVGFQFFPDATQTKLHELEAKLKKELDFSLTILVLGKTGVGKSSTINSIF-----GER 55
Query: 129 KV 130
KV
Sbjct: 56 KV 57
Score = 38.1 bits (89), Expect = 0.007
Identities = 23/62 (37%), Positives = 38/62 (61%), Gaps = 13/62 (20%)
Query: 176 RDYIGFATLPEQVHRK------SVKKGFDFTL--MVVGESGLGKSTLVNSLFLSDLYGDR 227
R+++GF P+ K +KK DF+L +V+G++G+GKS+ +NS+F G+R
Sbjct: 1 REWVGFQFFPDATQTKLHELEAKLKKELDFSLTILVLGKTGVGKSSTINSIF-----GER 55
Query: 228 KV 229
KV
Sbjct: 56 KV 57
>gnl|CDD|206743 cd11383, YfjP, YfjP GTPase. The Era (E. coli Ras-like
protein)-like YfjP subfamily includes several
uncharacterized bacterial GTPases that are similar to
Era. They generally show sequence conservation in the
region between the Walker A and B motifs (G1 and G3 box
motifs), to the exclusion of other GTPases. Era is
characterized by a distinct derivative of the KH domain
(the pseudo-KH domain) which is located C-terminal to
the GTPase domain.
Length = 140
Score = 43.1 bits (102), Expect = 5e-05
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 10/66 (15%)
Query: 268 VGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLTVVDT 327
+G++G GKS+L N+LF ++ V V DR+ T + G L ++D
Sbjct: 3 MGKTGAGKSSLCNALFGTE------VAAVGDRRPTTRAAQAYVWQTGGDG----LVLLDL 52
Query: 328 PGFGDS 333
PG G+
Sbjct: 53 PGVGER 58
Score = 30.8 bits (70), Expect = 0.70
Identities = 19/75 (25%), Positives = 32/75 (42%), Gaps = 13/75 (17%)
Query: 105 VGESGLGKSTLVNSLFLSDLYGDRKVPNVNGSNTVIEVAGTKVRGRQYPWGVVEGSTVLT 164
+G++G GKS+L N+LF +++ V + T + Y W VL
Sbjct: 3 MGKTGAGKSSLCNALFGTEV------------AAVGDRRPTTRAAQAYVWQTGGDGLVLL 50
Query: 165 PSL-IGSLFQTDRDY 178
+G + DR+Y
Sbjct: 51 DLPGVGERGRRDREY 65
Score = 28.5 bits (64), Expect = 4.7
Identities = 9/20 (45%), Positives = 17/20 (85%)
Query: 204 VGESGLGKSTLVNSLFLSDL 223
+G++G GKS+L N+LF +++
Sbjct: 3 MGKTGAGKSSLCNALFGTEV 22
>gnl|CDD|224084 COG1162, COG1162, Predicted GTPases [General function prediction
only].
Length = 301
Score = 44.6 bits (106), Expect = 6e-05
Identities = 27/98 (27%), Positives = 48/98 (48%), Gaps = 15/98 (15%)
Query: 240 YSDIGFATL----PEQVHRKSVKKGF-DFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVP 294
Y DIG+ L + + + +++G+SG+GKSTL+N+L L +L ++K
Sbjct: 137 YEDIGYPVLFVSAKNGDGLEELAELLAGKITVLLGQSGVGKSTLINAL-LPEL--NQKTG 193
Query: 295 NV--NDRQGKTTTIEKKSMDIEERGVKLRLTVVDTPGF 330
+ +G+ TT + + G ++DTPGF
Sbjct: 194 EISEKLGRGRHTTTHVELFPLPGGGW-----IIDTPGF 226
Score = 34.2 bits (79), Expect = 0.13
Identities = 15/40 (37%), Positives = 27/40 (67%), Gaps = 3/40 (7%)
Query: 198 DFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNEKGS 237
+++G+SG+GKSTL+N+L L +L ++K ++EK
Sbjct: 164 GKITVLLGQSGVGKSTLINAL-LPEL--NQKTGEISEKLG 200
Score = 32.6 bits (75), Expect = 0.46
Identities = 10/21 (47%), Positives = 17/21 (80%)
Query: 99 DFTLMVVGESGLGKSTLVNSL 119
+++G+SG+GKSTL+N+L
Sbjct: 164 GKITVLLGQSGVGKSTLINAL 184
>gnl|CDD|217416 pfam03193, DUF258, Protein of unknown function, DUF258.
Length = 161
Score = 42.5 bits (101), Expect = 1e-04
Identities = 23/71 (32%), Positives = 42/71 (59%), Gaps = 10/71 (14%)
Query: 262 DFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDR--QGKTTTIEKKSMDIEERGVK 319
T ++ G+SG+GKSTL+N+L L +L D + ++++ +G+ TT + + G+
Sbjct: 35 GKTSVLAGQSGVGKSTLLNAL-LPEL--DLRTGEISEKLGRGRHTTTHVELFPLPGGGL- 90
Query: 320 LRLTVVDTPGF 330
++DTPGF
Sbjct: 91 ----LIDTPGF 97
Score = 32.5 bits (75), Expect = 0.24
Identities = 16/38 (42%), Positives = 26/38 (68%), Gaps = 3/38 (7%)
Query: 198 DFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNEK 235
T ++ G+SG+GKSTL+N+L L +L D + ++EK
Sbjct: 35 GKTSVLAGQSGVGKSTLLNAL-LPEL--DLRTGEISEK 69
Score = 32.5 bits (75), Expect = 0.27
Identities = 11/21 (52%), Positives = 17/21 (80%)
Query: 99 DFTLMVVGESGLGKSTLVNSL 119
T ++ G+SG+GKSTL+N+L
Sbjct: 35 GKTSVLAGQSGVGKSTLLNAL 55
>gnl|CDD|216791 pfam01926, MMR_HSR1, 50S ribosome-binding GTPase. The full-length
GTPase protein is required for the complete activity of
the protein of interacting with the 50S ribosome and
binding of both adenine and guanine nucleotides, with a
preference for guanine nucleotide.
Length = 117
Score = 40.7 bits (96), Expect = 2e-04
Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 11/67 (16%)
Query: 264 TLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLT 323
+ +VG +GKSTL+N+L KV V+D G T + + ++
Sbjct: 1 RVALVGRPNVGKSTLINALT------GAKVAIVSDYPGTTRDPILGVLGL-----GRQII 49
Query: 324 VVDTPGF 330
+VDTPG
Sbjct: 50 LVDTPGL 56
>gnl|CDD|206747 cd01854, YjeQ_EngC, Ribosomal interacting GTPase YjeQ/EngC, a
circularly permuted subfamily of the Ras GTPases. YjeQ
(YloQ in Bacillus subtilis) is a ribosomal small
subunit-dependent GTPase; hence also known as RsgA. YjeQ
is a late-stage ribosomal biogenesis factor involved in
the 30S subunit maturation, and it represents a protein
family whose members are broadly conserved in bacteria
and have been shown to be essential to the growth of E.
coli and B. subtilis. Proteins of the YjeQ family
contain all sequence motifs typical of the vast class of
P-loop-containing GTPases, but show a circular
permutation, with a G4-G1-G3 pattern of motifs as
opposed to the regular G1-G3-G4 pattern seen in most
GTPases. All YjeQ family proteins display a unique
domain architecture, which includes an N-terminal
OB-fold RNA-binding domain, the central permuted GTPase
domain, and a zinc knuckle-like C-terminal cysteine
domain.
Length = 211
Score = 42.4 bits (101), Expect = 2e-04
Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 14/71 (19%)
Query: 264 TLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGK----TTTIEKKSMDIEERGVK 319
T ++VG+SG+GKSTL+N+L L +L ++++ G+ TT E + G+
Sbjct: 87 TSVLVGQSGVGKSTLLNAL-LPEL--VLATGEISEKLGRGRHTTTHRE--LFPLPGGGL- 140
Query: 320 LRLTVVDTPGF 330
++DTPGF
Sbjct: 141 ----IIDTPGF 147
Score = 34.3 bits (80), Expect = 0.10
Identities = 12/19 (63%), Positives = 18/19 (94%)
Query: 101 TLMVVGESGLGKSTLVNSL 119
T ++VG+SG+GKSTL+N+L
Sbjct: 87 TSVLVGQSGVGKSTLLNAL 105
Score = 34.3 bits (80), Expect = 0.10
Identities = 12/19 (63%), Positives = 18/19 (94%)
Query: 200 TLMVVGESGLGKSTLVNSL 218
T ++VG+SG+GKSTL+N+L
Sbjct: 87 TSVLVGQSGVGKSTLLNAL 105
>gnl|CDD|206651 cd01852, AIG1, AvrRpt2-Induced Gene 1 (AIG1). This group
represents Arabidoposis protein AIG1 (avrRpt2-induced
gene 1) that appears to be involved in plant resistance
to bacteria. The Arabidopsis disease resistance gene
RPS2 is involved in recognition of bacterial pathogens
carrying the avirulence gene avrRpt2. AIG1 exhibits
RPS2- and avrRpt1-dependent induction early after
infection with Pseudomonas syringae carrying avrRpt2.
This subfamily also includes IAN-4 protein, which has
GTP-binding activity and shares sequence homology with a
novel family of putative GTP-binding proteins: the
immuno-associated nucleotide (IAN) family. The
evolutionary conservation of the IAN family provides a
unique example of a plant pathogen response gene
conserved in animals. The IAN/IMAP subfamily has been
proposed to regulate apoptosis in vertebrates and
angiosperm plants, particularly in relation to cancer,
diabetes, and infections. The human IAN genes were
renamed GIMAP (GTPase of the immunity associated
proteins).
Length = 201
Score = 41.8 bits (99), Expect = 3e-04
Identities = 26/83 (31%), Positives = 38/83 (45%), Gaps = 19/83 (22%)
Query: 264 TLMVVGESGLGKSTLVNSL-----FLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGV 318
L++VG++G GKS N++ F S L G T T +K+S + R
Sbjct: 2 RLVLVGKTGNGKSATGNTILGRKVFESKLSA----------SGVTKTCQKESAVWDGR-- 49
Query: 319 KLRLTVVDTPGFGDSINSEESWR 341
R+ V+DTPG D+ S E
Sbjct: 50 --RVNVIDTPGLFDTSVSPEQLS 70
Score = 36.0 bits (84), Expect = 0.022
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 5/52 (9%)
Query: 352 RQYFNDENR-QGKTTTIEKKSMDIEERGVKLRLTVVDTPGFGDSINSEESWR 402
R+ F + G T T +K+S + R R+ V+DTPG D+ S E
Sbjct: 23 RKVFESKLSASGVTKTCQKESAVWDGR----RVNVIDTPGLFDTSVSPEQLS 70
>gnl|CDD|206646 cd00880, Era_like, E. coli Ras-like protein (Era)-like GTPase. The
Era (E. coli Ras-like protein)-like family includes
several distinct subfamilies (TrmE/ThdF, FeoB, YihA
(EngB), Era, and EngA/YfgK) that generally show sequence
conservation in the region between the Walker A and B
motifs (G1 and G3 box motifs), to the exclusion of other
GTPases. TrmE is ubiquitous in bacteria and is a
widespread mitochondrial protein in eukaryotes, but is
absent from archaea. The yeast member of TrmE family,
MSS1, is involved in mitochondrial translation;
bacterial members are often present in
translation-related operons. FeoB represents an unusual
adaptation of GTPases for high-affinity iron (II)
transport. YihA (EngB) family of GTPases is typified by
the E. coli YihA, which is an essential protein involved
in cell division control. Era is characterized by a
distinct derivative of the KH domain (the pseudo-KH
domain) which is located C-terminal to the GTPase
domain. EngA and its orthologs are composed of two
GTPase domains and, since the sequences of the two
domains are more similar to each other than to other
GTPases, it is likely that an ancient gene duplication,
rather than a fusion of evolutionarily distinct GTPases,
gave rise to this family.
Length = 161
Score = 41.1 bits (97), Expect = 3e-04
Identities = 17/72 (23%), Positives = 31/72 (43%), Gaps = 9/72 (12%)
Query: 267 VVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLTVVD 326
+ G +GKS+L+N+L + V V+ G T +K ++ G + ++D
Sbjct: 2 IFGRPNVGKSSLLNALL------GQNVGIVSPIPGTTRDPVRKEWELLPLG---PVVLID 52
Query: 327 TPGFGDSINSEE 338
TPG +
Sbjct: 53 TPGLDEEGGLGR 64
>gnl|CDD|234631 PRK00098, PRK00098, GTPase RsgA; Reviewed.
Length = 298
Score = 41.7 bits (99), Expect = 5e-04
Identities = 29/111 (26%), Positives = 45/111 (40%), Gaps = 39/111 (35%)
Query: 239 PYSDIGFATLPEQVHRKSVKKGFDF----------TLMVVGESGLGKSTLVNSLFLSDLY 288
Y IG+ V S K+G ++ G+SG+GKSTL+N+L
Sbjct: 136 LYRAIGY-----DVLELSAKEGEGLDELKPLLAGKVTVLAGQSGVGKSTLLNAL------ 184
Query: 289 GDRKVPNVNDR---------QGKTTTIEKKSMDIEERGVKLRLTVVDTPGF 330
P++ + +GK TT + D+ G ++DTPGF
Sbjct: 185 ----APDLELKTGEISEALGRGKHTTTHVELYDLPGGG-----LLIDTPGF 226
Score = 32.9 bits (76), Expect = 0.40
Identities = 10/17 (58%), Positives = 16/17 (94%)
Query: 103 MVVGESGLGKSTLVNSL 119
++ G+SG+GKSTL+N+L
Sbjct: 168 VLAGQSGVGKSTLLNAL 184
Score = 32.9 bits (76), Expect = 0.40
Identities = 10/17 (58%), Positives = 16/17 (94%)
Query: 202 MVVGESGLGKSTLVNSL 218
++ G+SG+GKSTL+N+L
Sbjct: 168 VLAGQSGVGKSTLLNAL 184
>gnl|CDD|226124 COG3596, COG3596, Predicted GTPase [General function prediction
only].
Length = 296
Score = 39.8 bits (93), Expect = 0.002
Identities = 21/83 (25%), Positives = 36/83 (43%), Gaps = 12/83 (14%)
Query: 266 MVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLTVV 325
+++G +G GKS+L+N+LF ++ KV + + + L +
Sbjct: 43 LLMGATGAGKSSLINALFQGEVKEVSKVG---------VGTDITTRLRLSYDGEN-LVLW 92
Query: 326 DTPGFGDSINSEESWRACCSYID 348
DTPG GD + + R Y D
Sbjct: 93 DTPGLGDGKDKDAEHRQ--LYRD 113
Score = 30.9 bits (70), Expect = 1.4
Identities = 21/112 (18%), Positives = 40/112 (35%), Gaps = 23/112 (20%)
Query: 165 PSLIGSLFQTDRDYIGFATLPEQVHRKSVKKGFDFTLMVVGESGLGKSTLVNSLFLSDLY 224
L+G + + + ++ V ++++G +G GKS+L+N+LF ++
Sbjct: 12 KGLLGLPSLLSERILEQLRMLQLTEKEPVN------VLLMGATGAGKSSLINALFQGEVK 65
Query: 225 GDRKVPNVNEKGSIPYSDIGFATLPEQVHRKSVKKGFDFTLMVVGESGLGKS 276
S +G T R S L++ GLG
Sbjct: 66 --------------EVSKVGVGTDITTRLRLS---YDGENLVLWDTPGLGDG 100
Score = 29.0 bits (65), Expect = 7.1
Identities = 9/22 (40%), Positives = 18/22 (81%)
Query: 103 MVVGESGLGKSTLVNSLFLSDL 124
+++G +G GKS+L+N+LF ++
Sbjct: 43 LLMGATGAGKSSLINALFQGEV 64
>gnl|CDD|232886 TIGR00231, small_GTP, small GTP-binding protein domain. Proteins
with a small GTP-binding domain recognized by this model
include Ras, RhoA, Rab11, translation elongation factor
G, translation initiation factor IF-2, tetratcycline
resistance protein TetM, CDC42, Era, ADP-ribosylation
factors, tdhF, and many others. In some proteins the
domain occurs more than once.This model recognizes a
large number of small GTP-binding proteins and related
domains in larger proteins. Note that the alpha chains
of heterotrimeric G proteins are larger proteins in
which the NKXD motif is separated from the GxxxxGK[ST]
motif (P-loop) by a long insert and are not easily
detected by this model [Unknown function, General].
Length = 162
Score = 37.4 bits (87), Expect = 0.006
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 8/68 (11%)
Query: 262 DFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLR 321
+ +++VG+ +GKSTL+N L TT + IEE G +
Sbjct: 1 EIKIVIVGDPNVGKSTLLNRL--------LGNKISITEYKPGTTRNYVTTVIEEDGKTYK 52
Query: 322 LTVVDTPG 329
++DT G
Sbjct: 53 FNLLDTAG 60
>gnl|CDD|218141 pfam04548, AIG1, AIG1 family. Arabidopsis protein AIG1 appears to
be involved in plant resistance to bacteria.
Length = 211
Score = 37.6 bits (88), Expect = 0.007
Identities = 24/80 (30%), Positives = 35/80 (43%), Gaps = 19/80 (23%)
Query: 264 TLMVVGESGLGKSTLVNSL-----FLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGV 318
+++VG++G GKS NS+ F S L QG T T + S + R +
Sbjct: 2 RIVLVGKTGNGKSATGNSILGRKAFESKLRA----------QGVTKTCQLVSRTWDGRII 51
Query: 319 KLRLTVVDTPGFGDSINSEE 338
V+DTPG D S +
Sbjct: 52 N----VIDTPGLFDLSVSND 67
>gnl|CDD|206739 cd09912, DLP_2, Dynamin-like protein including dynamins,
mitofusins, and guanylate-binding proteins. The dynamin
family of large mechanochemical GTPases includes the
classical dynamins and dynamin-like proteins (DLPs) that
are found throughout the Eukarya. This family also
includes bacterial DLPs. These proteins catalyze
membrane fission during clathrin-mediated endocytosis.
Dynamin consists of five domains; an N-terminal G domain
that binds and hydrolyzes GTP, a middle domain (MD)
involved in self-assembly and oligomerization, a
pleckstrin homology (PH) domain responsible for
interactions with the plasma membrane, GED, which is
also involved in self-assembly, and a proline arginine
rich domain (PRD) that interacts with SH3 domains on
accessory proteins. To date, three vertebrate dynamin
genes have been identified; dynamin 1, which is brain
specific, mediates uptake of synaptic vesicles in
presynaptic terminals; dynamin-2 is expressed
ubiquitously and similarly participates in membrane
fission; mutations in the MD, PH and GED domains of
dynamin 2 have been linked to human diseases such as
Charcot-Marie-Tooth peripheral neuropathy and rare forms
of centronuclear myopathy. Dynamin 3 participates in
megakaryocyte progenitor amplification, and is also
involved in cytoplasmic enlargement and the formation of
the demarcation membrane system. This family also
includes mitofusins (MFN1 and MFN2 in mammals) that are
involved in mitochondrial fusion. Dynamin oligomerizes
into helical structures around the neck of budding
vesicles in a GTP hydrolysis-dependent manner.
Length = 180
Score = 37.1 bits (87), Expect = 0.008
Identities = 22/78 (28%), Positives = 31/78 (39%), Gaps = 12/78 (15%)
Query: 263 FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRL 322
F L VVGE GKSTL+N+L ++ P T + G+ +
Sbjct: 1 FLLAVVGEFSAGKSTLLNALLGEEVLPTGVTPTTA----VITVLR--------YGLLKGV 48
Query: 323 TVVDTPGFGDSINSEESW 340
+VDTPG +I
Sbjct: 49 VLVDTPGLNSTIEHHTEI 66
Score = 29.4 bits (67), Expect = 2.8
Identities = 13/20 (65%), Positives = 15/20 (75%)
Query: 100 FTLMVVGESGLGKSTLVNSL 119
F L VVGE GKSTL+N+L
Sbjct: 1 FLLAVVGEFSAGKSTLLNAL 20
Score = 29.4 bits (67), Expect = 2.8
Identities = 13/20 (65%), Positives = 15/20 (75%)
Query: 199 FTLMVVGESGLGKSTLVNSL 218
F L VVGE GKSTL+N+L
Sbjct: 1 FLLAVVGEFSAGKSTLLNAL 20
>gnl|CDD|130260 TIGR01192, chvA, glucan exporter ATP-binding protein. This model
describes glucan exporter ATP binding protein in
bacteria. It belongs to the larger ABC transporter
superfamily with the characteristic ATP binding motif.
The In general, this protein is in some ways implicated
in osmoregulation and suggested to participate in the
export of glucan from the cytoplasm to periplasm. The
cyclic beta-1,2-glucan in the bactrerial periplasmic
space is suggested to confer the property of high
osmolority. It has also been demonstrated that mutants
in this loci have lost functions of virulence and
motility. It is unclear as to how virulence and
osmoadaptaion are related [Transport and binding
proteins, Carbohydrates, organic alcohols, and acids].
Length = 585
Score = 38.7 bits (90), Expect = 0.008
Identities = 34/109 (31%), Positives = 53/109 (48%), Gaps = 9/109 (8%)
Query: 178 YIGFATLPEQVHRKSVKKGFDFTLMVVGESGLGKS-TLVNSLFLSDLYGD-RKVPNVNEK 235
+IGFA L + R GF T + + L L +S+F + D ++PNV K
Sbjct: 278 FIGFANL--LIGRLDQMSGF-ITQIFEARAKLEDFFDLEDSVFQREEPADAPELPNV--K 332
Query: 236 GSIPYSDI--GFATLPEQVHRKSVKKGFDFTLMVVGESGLGKSTLVNSL 282
G++ + I FA + V S + T+ +VG +G GK+TL+N L
Sbjct: 333 GAVEFRHITFEFANSSQGVFDVSFEAKAGQTVAIVGPTGAGKTTLINLL 381
Score = 31.0 bits (70), Expect = 2.0
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 81 GFATLPEQVHRKSVKKGFDFTLMVVGESGLGKSTLVNSL 119
FA + V S + T+ +VG +G GK+TL+N L
Sbjct: 343 EFANSSQGVFDVSFEAKAGQTVAIVGPTGAGKTTLINLL 381
>gnl|CDD|206665 cd01876, YihA_EngB, YihA (EngB) GTPase family. The YihA (EngB)
subfamily of GTPases is typified by the E. coli YihA, an
essential protein involved in cell division control.
YihA and its orthologs are small proteins that typically
contain less than 200 amino acid residues and consists
of the GTPase domain only (some of the eukaryotic
homologs contain an N-terminal extension of about 120
residues that might be involved in organellar
targeting). Homologs of yihA are found in most
Gram-positive and Gram-negative pathogenic bacteria,
with the exception of Mycobacterium tuberculosis. The
broad-spectrum nature of YihA and its essentiality for
cell viability in bacteria make it an attractive
antibacterial target.
Length = 170
Score = 37.1 bits (87), Expect = 0.008
Identities = 20/64 (31%), Positives = 32/64 (50%), Gaps = 12/64 (18%)
Query: 268 VGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLTVVDT 327
G S +GKS+L+N+L +K+ + G+T I ++ + K RL VD
Sbjct: 5 AGRSNVGKSSLINALT-----NRKKLARTSKTPGRTQLI--NFFNVGD---KFRL--VDL 52
Query: 328 PGFG 331
PG+G
Sbjct: 53 PGYG 56
>gnl|CDD|233224 TIGR00993, 3a0901s04IAP86, chloroplast protein import component
Toc86/159, G and M domains. The long precursor of the
86K protein originally described is proposed to have
three domains. The N-terminal A-domain is acidic,
repetitive, weakly conserved, readily removed by
proteolysis during chloroplast isolation, and not
required for protein translocation. The other domains
are designated G (GTPase) and M (membrane anchor); this
family includes most of the G domain and all of M
[Transport and binding proteins, Amino acids, peptides
and amines].
Length = 763
Score = 37.6 bits (87), Expect = 0.016
Identities = 23/73 (31%), Positives = 40/73 (54%), Gaps = 10/73 (13%)
Query: 261 FDFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKL 320
F ++V+G+SG+GKS +NS+F + + TT++++ ++ GVK+
Sbjct: 117 FSLNILVLGKSGVGKSATINSIF------GEVKFSTDAFGMGTTSVQEIEGLVQ--GVKI 168
Query: 321 RLTVVDTPGFGDS 333
R V+DTPG S
Sbjct: 169 R--VIDTPGLKSS 179
Score = 32.2 bits (73), Expect = 0.87
Identities = 11/23 (47%), Positives = 18/23 (78%)
Query: 98 FDFTLMVVGESGLGKSTLVNSLF 120
F ++V+G+SG+GKS +NS+F
Sbjct: 117 FSLNILVLGKSGVGKSATINSIF 139
Score = 32.2 bits (73), Expect = 0.87
Identities = 11/23 (47%), Positives = 18/23 (78%)
Query: 197 FDFTLMVVGESGLGKSTLVNSLF 219
F ++V+G+SG+GKS +NS+F
Sbjct: 117 FSLNILVLGKSGVGKSATINSIF 139
>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General
function prediction only].
Length = 219
Score = 36.1 bits (83), Expect = 0.023
Identities = 18/68 (26%), Positives = 32/68 (47%), Gaps = 9/68 (13%)
Query: 263 FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRL 322
F ++V+G+ G+GK+TL+N + D + + P T + IE ++L
Sbjct: 6 FKIVVLGDGGVGKTTLLNR-LVGDEFPEGYPP--------TIGNLDPAKTIEPYRRNIKL 56
Query: 323 TVVDTPGF 330
+ DT G
Sbjct: 57 QLWDTAGQ 64
Score = 30.3 bits (68), Expect = 2.0
Identities = 11/32 (34%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 100 FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVP 131
F ++V+G+ G+GK+TL+N + D + + P
Sbjct: 6 FKIVVLGDGGVGKTTLLNR-LVGDEFPEGYPP 36
Score = 30.3 bits (68), Expect = 2.0
Identities = 11/32 (34%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 199 FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVP 230
F ++V+G+ G+GK+TL+N + D + + P
Sbjct: 6 FKIVVLGDGGVGKTTLLNR-LVGDEFPEGYPP 36
>gnl|CDD|236898 PRK11308, dppF, dipeptide transporter ATP-binding subunit;
Provisional.
Length = 327
Score = 35.7 bits (83), Expect = 0.050
Identities = 13/15 (86%), Positives = 13/15 (86%)
Query: 101 TLMVVGESGLGKSTL 115
TL VVGESG GKSTL
Sbjct: 43 TLAVVGESGCGKSTL 57
Score = 35.7 bits (83), Expect = 0.050
Identities = 13/15 (86%), Positives = 13/15 (86%)
Query: 200 TLMVVGESGLGKSTL 214
TL VVGESG GKSTL
Sbjct: 43 TLAVVGESGCGKSTL 57
Score = 35.7 bits (83), Expect = 0.050
Identities = 13/15 (86%), Positives = 13/15 (86%)
Query: 264 TLMVVGESGLGKSTL 278
TL VVGESG GKSTL
Sbjct: 43 TLAVVGESGCGKSTL 57
>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and
permease components [Defense mechanisms].
Length = 567
Score = 35.9 bits (83), Expect = 0.057
Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 10/64 (15%)
Query: 226 DRKVPNVNEKGSIPYSDIGFATLPEQVHRKSVKKGFDF------TLMVVGESGLGKSTLV 279
D P + GSI + ++ F+ ++ V K F + +VG SG GKSTL+
Sbjct: 317 DPPDPLKDTIGSIEFENVSFSYPGKKP----VLKDISFSIEPGEKVAIVGPSGSGKSTLI 372
Query: 280 NSLF 283
L
Sbjct: 373 KLLL 376
Score = 34.3 bits (79), Expect = 0.17
Identities = 21/73 (28%), Positives = 28/73 (38%), Gaps = 20/73 (27%)
Query: 191 KSVKKGFDF------TLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNEKGSI-----P 239
K V K F + +VG SG GKSTL+ L LY G I
Sbjct: 342 KPVLKDISFSIEPGEKVAIVGPSGSGKSTLIKLLL--RLYD-------PTSGEILIDGID 392
Query: 240 YSDIGFATLPEQV 252
DI +L +++
Sbjct: 393 IRDISLDSLRKRI 405
Score = 30.9 bits (70), Expect = 1.9
Identities = 14/35 (40%), Positives = 17/35 (48%), Gaps = 6/35 (17%)
Query: 92 KSVKKGFDF------TLMVVGESGLGKSTLVNSLF 120
K V K F + +VG SG GKSTL+ L
Sbjct: 342 KPVLKDISFSIEPGEKVAIVGPSGSGKSTLIKLLL 376
>gnl|CDD|226592 COG4107, PhnK, ABC-type phosphonate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 258
Score = 35.1 bits (81), Expect = 0.064
Identities = 20/63 (31%), Positives = 26/63 (41%), Gaps = 22/63 (34%)
Query: 220 LSDLYGDRKVPNVNEKGSIPYSDIGFATLPEQVHRKSVKKGFDFTLMVVGESGLGKSTLV 279
LS LYG K D+ F P +V L +VGESG GK+TL+
Sbjct: 12 LSKLYGPGK----------GCRDVSFDLYPGEV------------LGIVGESGSGKTTLL 49
Query: 280 NSL 282
+
Sbjct: 50 KCI 52
Score = 30.5 bits (69), Expect = 2.1
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 102 LMVVGESGLGKSTLVNSL 119
L +VGESG GK+TL+ +
Sbjct: 35 LGIVGESGSGKTTLLKCI 52
Score = 30.5 bits (69), Expect = 2.1
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 201 LMVVGESGLGKSTLVNSL 218
L +VGESG GK+TL+ +
Sbjct: 35 LGIVGESGSGKTTLLKCI 52
>gnl|CDD|183280 PRK11701, phnK, phosphonate C-P lyase system protein PhnK;
Provisional.
Length = 258
Score = 34.9 bits (81), Expect = 0.071
Identities = 22/63 (34%), Positives = 29/63 (46%), Gaps = 22/63 (34%)
Query: 220 LSDLYGDRKVPNVNEKGSIPYSDIGFATLPEQVHRKSVKKGFDFTLMVVGESGLGKSTLV 279
L+ LYG RK D+ F P +V L +VGESG GK+TL+
Sbjct: 12 LTKLYGPRK----------GCRDVSFDLYPGEV------------LGIVGESGSGKTTLL 49
Query: 280 NSL 282
N+L
Sbjct: 50 NAL 52
Score = 33.7 bits (78), Expect = 0.16
Identities = 12/18 (66%), Positives = 16/18 (88%)
Query: 102 LMVVGESGLGKSTLVNSL 119
L +VGESG GK+TL+N+L
Sbjct: 35 LGIVGESGSGKTTLLNAL 52
Score = 33.7 bits (78), Expect = 0.16
Identities = 12/18 (66%), Positives = 16/18 (88%)
Query: 201 LMVVGESGLGKSTLVNSL 218
L +VGESG GK+TL+N+L
Sbjct: 35 LGIVGESGSGKTTLLNAL 52
>gnl|CDD|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19). Rab19 subfamily.
Rab19 proteins are associated with Golgi stacks.
Similarity analysis indicated that Rab41 is closely
related to Rab19. However, the function of these Rabs is
not yet characterized. GTPase activating proteins (GAPs)
interact with GTP-bound Rab and accelerate the
hydrolysis of GTP to GDP. Guanine nucleotide exchange
factors (GEFs) interact with GDP-bound Rabs to promote
the formation of the GTP-bound state. Rabs are further
regulated by guanine nucleotide dissociation inhibitors
(GDIs), which facilitate Rab recycling by masking
C-terminal lipid binding and promoting cytosolic
localization. Most Rab GTPases contain a lipid
modification site at the C-terminus, with sequence
motifs CC, CXC, or CCX. Lipid binding is essential for
membrane attachment, a key feature of most Rab proteins.
Due to the presence of truncated sequences in this CD,
the lipid modification site is not available for
annotation.
Length = 165
Score = 34.3 bits (79), Expect = 0.076
Identities = 20/71 (28%), Positives = 41/71 (57%), Gaps = 13/71 (18%)
Query: 261 FDFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIE--KKSMDIEERGV 318
F F ++++G+S +GK+ +V F S + ++RQG T ++ K+++I+ G
Sbjct: 2 FLFKIILIGDSNVGKTCVVQR-FKSGTF--------SERQGNTIGVDFTMKTLEIQ--GK 50
Query: 319 KLRLTVVDTPG 329
+++L + DT G
Sbjct: 51 RVKLQIWDTAG 61
>gnl|CDD|215634 PLN03211, PLN03211, ABC transporter G-25; Provisional.
Length = 659
Score = 35.2 bits (81), Expect = 0.080
Identities = 30/126 (23%), Positives = 48/126 (38%), Gaps = 35/126 (27%)
Query: 10 KTPSDAPPT--PPPRTPKRVRTLPRRNWTSKISEENGDVYCLSCSPHCLTFPE-AYRIK- 65
+ +D P PP + + + +L SC P L F + YR+K
Sbjct: 8 ENQNDGPDRSKPPSQDSRDLPSL----------------LLSSCYPITLKFMDVCYRVKF 51
Query: 66 --MTPDGGSCATDRDYIGFATLP----EQVHRKSVKKGFDFT------LMVVGESGLGKS 113
M G + + +G Q+ +++ G L V+G SG GKS
Sbjct: 52 ENMKNKGSNI---KRILGHKPKISDETRQIQERTILNGVTGMASPGEILAVLGPSGSGKS 108
Query: 114 TLVNSL 119
TL+N+L
Sbjct: 109 TLLNAL 114
>gnl|CDD|223521 COG0444, DppD, ABC-type dipeptide/oligopeptide/nickel transport
system, ATPase component [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 316
Score = 34.9 bits (81), Expect = 0.085
Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 93 SVKKGFDFTLMVVGESGLGKSTLVNSL 119
+KKG L +VGESG GKS L ++
Sbjct: 27 ELKKGE--ILGIVGESGSGKSVLAKAI 51
Score = 34.9 bits (81), Expect = 0.085
Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 192 SVKKGFDFTLMVVGESGLGKSTLVNSL 218
+KKG L +VGESG GKS L ++
Sbjct: 27 ELKKGE--ILGIVGESGSGKSVLAKAI 51
Score = 34.9 bits (81), Expect = 0.085
Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 256 SVKKGFDFTLMVVGESGLGKSTLVNSL 282
+KKG L +VGESG GKS L ++
Sbjct: 27 ELKKGE--ILGIVGESGSGKSVLAKAI 51
>gnl|CDD|213224 cd03257, ABC_NikE_OppD_transporters, ATP-binding cassette domain of
nickel/oligopeptides specific transporters. The ABC
transporter subfamily specific for the transport of
dipeptides, oligopeptides (OppD), and nickel (NikDE).
The NikABCDE system of E. coli belongs to this family
and is composed of the periplasmic binding protein NikA,
two integral membrane components (NikB and NikC), and
two ATPase (NikD and NikE). The NikABCDE transporter is
synthesized under anaerobic conditions to meet the
increased demand for nickel resulting from hydrogenase
synthesis. The molecular mechanism of nickel uptake in
many bacteria and most archaea is not known. Many other
members of this ABC family are also involved in the
uptake of dipeptides and oligopeptides. The oligopeptide
transport system (Opp) is a five-component ABC transport
composed of a membrane-anchored substrate binding
proteins (SRP), OppA, two transmembrane proteins, OppB
and OppC, and two ATP-binding domains, OppD and OppF.
Length = 228
Score = 34.4 bits (80), Expect = 0.092
Identities = 16/27 (59%), Positives = 20/27 (74%), Gaps = 2/27 (7%)
Query: 93 SVKKGFDFTLMVVGESGLGKSTLVNSL 119
S+KKG TL +VGESG GKSTL ++
Sbjct: 27 SIKKGE--TLGLVGESGSGKSTLARAI 51
Score = 34.4 bits (80), Expect = 0.092
Identities = 16/27 (59%), Positives = 20/27 (74%), Gaps = 2/27 (7%)
Query: 192 SVKKGFDFTLMVVGESGLGKSTLVNSL 218
S+KKG TL +VGESG GKSTL ++
Sbjct: 27 SIKKGE--TLGLVGESGSGKSTLARAI 51
Score = 34.4 bits (80), Expect = 0.092
Identities = 16/27 (59%), Positives = 20/27 (74%), Gaps = 2/27 (7%)
Query: 256 SVKKGFDFTLMVVGESGLGKSTLVNSL 282
S+KKG TL +VGESG GKSTL ++
Sbjct: 27 SIKKGE--TLGLVGESGSGKSTLARAI 51
>gnl|CDD|206748 cd01855, YqeH, Circularly permuted YqeH GTPase. YqeH is an
essential GTP-binding protein. Depletion of YqeH induces
an excess initiation of DNA replication, suggesting that
it negatively controls initiation of chromosome
replication. The YqeH subfamily is common in eukaryotes
and sporadically present in bacteria with probable
acquisition by plants from chloroplasts. Proteins of the
YqeH family contain all sequence motifs typical of the
vast class of P-loop-containing GTPases, but show a
circular permutation, with a G4-G1-G3 pattern of motifs
as opposed to the regular G1-G3-G4 pattern seen in most
GTPases.
Length = 191
Score = 33.8 bits (78), Expect = 0.11
Identities = 19/69 (27%), Positives = 30/69 (43%), Gaps = 10/69 (14%)
Query: 266 MVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQG----KTTTIEKKSMDIEERGVKLR 321
VVG + +GKSTL+N+L L G + + R TT+ + + +
Sbjct: 129 YVVGATNVGKSTLINAL-LKSNGGKVQAQALVQRLTVSPIPGTTL-----GLIKIPLGEG 182
Query: 322 LTVVDTPGF 330
+ DTPG
Sbjct: 183 KKLYDTPGI 191
Score = 30.3 bits (69), Expect = 1.9
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 103 MVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNGSNTVIEVAGT 145
VVG + +GKSTL+N+L L G + + TV + GT
Sbjct: 129 YVVGATNVGKSTLINAL-LKSNGGKVQAQALVQRLTVSPIPGT 170
Score = 29.5 bits (67), Expect = 3.1
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 202 MVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNE 234
VVG + +GKSTL+N+L S+ + V
Sbjct: 129 YVVGATNVGKSTLINALLKSNGGKVQAQALVQR 161
>gnl|CDD|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18). Rab18 subfamily.
Mammalian Rab18 is implicated in endocytic transport and
is expressed most highly in polarized epithelial cells.
However, trypanosomal Rab, TbRAB18, is upregulated in
the BSF (Blood Stream Form) stage and localized
predominantly to elements of the Golgi complex. In human
and mouse cells, Rab18 has been identified in lipid
droplets, organelles that store neutral lipids. GTPase
activating proteins (GAPs) interact with GTP-bound Rab
and accelerate the hydrolysis of GTP to GDP. Guanine
nucleotide exchange factors (GEFs) interact with
GDP-bound Rabs to promote the formation of the GTP-bound
state. Rabs are further regulated by guanine nucleotide
dissociation inhibitors (GDIs), which facilitate Rab
recycling by masking C-terminal lipid binding and
promoting cytosolic localization. Most Rab GTPases
contain a lipid modification site at the C-terminus,
with sequence motifs CC, CXC, or CCX. Lipid binding is
essential for membrane attachment, a key feature of most
Rab proteins. Due to the presence of truncated sequences
in this CD, the lipid modification site is not available
for annotation.
Length = 161
Score = 33.4 bits (77), Expect = 0.11
Identities = 17/67 (25%), Positives = 34/67 (50%), Gaps = 9/67 (13%)
Query: 263 FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRL 322
++++G+SG+GKS+L+ F D + ++ T ++ K + G K++L
Sbjct: 1 LKILLIGDSGVGKSSLLLR-FTDDTF--------DEDLSSTIGVDFKVKTVTVDGKKVKL 51
Query: 323 TVVDTPG 329
+ DT G
Sbjct: 52 AIWDTAG 58
>gnl|CDD|179790 PRK04213, PRK04213, GTP-binding protein; Provisional.
Length = 201
Score = 33.7 bits (78), Expect = 0.12
Identities = 22/78 (28%), Positives = 30/78 (38%), Gaps = 15/78 (19%)
Query: 254 RKSVKKGFDFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDI 313
+ ++ VG S +GKSTLV L +KV V R G T + D
Sbjct: 1 MFETRPDRKPEIVFVGRSNVGKSTLVRELT------GKKVR-VGKRPG--VTRKPNHYDW 51
Query: 314 EERGVKLRLTVVDTPGFG 331
+ + D PGFG
Sbjct: 52 GD------FILTDLPGFG 63
Score = 28.3 bits (64), Expect = 7.7
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 91 RKSVKKGFDFTLMVVGESGLGKSTLVNSLF 120
+ ++ VG S +GKSTLV L
Sbjct: 1 MFETRPDRKPEIVFVGRSNVGKSTLVRELT 30
Score = 28.3 bits (64), Expect = 7.7
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 190 RKSVKKGFDFTLMVVGESGLGKSTLVNSLF 219
+ ++ VG S +GKSTLV L
Sbjct: 1 MFETRPDRKPEIVFVGRSNVGKSTLVRELT 30
>gnl|CDD|224082 COG1160, COG1160, Predicted GTPases [General function prediction
only].
Length = 444
Score = 34.5 bits (80), Expect = 0.13
Identities = 20/76 (26%), Positives = 31/76 (40%), Gaps = 11/76 (14%)
Query: 263 FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRL 322
+ +VG +GKSTL N L R++ V+D G T + R
Sbjct: 4 PVVAIVGRPNVGKSTLFNRLT------GRRIAIVSDTPGVTRDRIYGDAEWLGREF---- 53
Query: 323 TVVDTPGFGDSINSEE 338
++DT G D + +E
Sbjct: 54 ILIDTGGL-DDGDEDE 68
>gnl|CDD|224047 COG1122, CbiO, ABC-type cobalt transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 235
Score = 34.2 bits (79), Expect = 0.13
Identities = 29/136 (21%), Positives = 52/136 (38%), Gaps = 37/136 (27%)
Query: 91 RKSVKKGFDFT------LMVVGESGLGKSTLVNSL--FLSDLYGDRKVPNVNGSNTVIEV 142
RK+ K ++++G +G GKSTL+ L L G+ V+G +T E
Sbjct: 16 RKAALKDVSLEIEKGERVLLIGPNGSGKSTLLKLLNGLLKPTSGE---VLVDGLDTSSEK 72
Query: 143 AGTKVRGRQYPWGVVEGSTVLTPSLIGSLFQ---------TDRDYIGFATLPEQVHRKSV 193
+ ++R + +G +FQ T D + F + R+ +
Sbjct: 73 SLLELRQK-----------------VGLVFQNPDDQLFGPTVEDEVAFGLENLGLPREEI 115
Query: 194 KKGFDFTLMVVGESGL 209
++ L +VG L
Sbjct: 116 EERVAEALELVGLEEL 131
Score = 28.4 bits (64), Expect = 9.3
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 6/35 (17%)
Query: 190 RKSVKKGFDFT------LMVVGESGLGKSTLVNSL 218
RK+ K ++++G +G GKSTL+ L
Sbjct: 16 RKAALKDVSLEIEKGERVLLIGPNGSGKSTLLKLL 50
Score = 28.4 bits (64), Expect = 9.3
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 6/35 (17%)
Query: 254 RKSVKKGFDFT------LMVVGESGLGKSTLVNSL 282
RK+ K ++++G +G GKSTL+ L
Sbjct: 16 RKAALKDVSLEIEKGERVLLIGPNGSGKSTLLKLL 50
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 34.6 bits (80), Expect = 0.15
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 8/53 (15%)
Query: 103 MVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNGSNTVIE------VAGTKVRG 149
++VGE G+GK+ +V L + GD VP + VAG K RG
Sbjct: 195 VLVGEPGVGKTAIVEGLAQRIVNGD--VPESLKDKRIYSLDLGSLVAGAKYRG 245
>gnl|CDD|206669 cd01882, BMS1, Bms1, an essential GTPase, promotes assembly of
preribosomal RNA processing complexes. Bms1 is an
essential, evolutionarily conserved, nucleolar protein.
Its depletion interferes with processing of the 35S
pre-rRNA at sites A0, A1, and A2, and the formation of
40S subunits. Bms1, the putative endonuclease Rc11, and
the essential U3 small nucleolar RNA form a stable
subcomplex that is believed to control an early step in
the formation of the 40S subumit. The C-terminal domain
of Bms1 contains a GTPase-activating protein (GAP) that
functions intramolecularly. It is believed that Rc11
activates Bms1 by acting as a guanine-nucleotide
exchange factor (GEF) to promote GDP/GTP exchange, and
that activated (GTP-bound) Bms1 delivers Rc11 to the
preribosomes.
Length = 231
Score = 33.9 bits (78), Expect = 0.15
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 4/45 (8%)
Query: 104 VVGESGLGKSTLVNSLFLSDLYGDRKVPNVNGSNTVIEVAGTKVR 148
VVG G+GKSTL+ SL Y + + ++ G T+ V G K R
Sbjct: 44 VVGPPGVGKSTLIRSLIKR--YTKQNLSDIKGPITI--VTGKKRR 84
Score = 30.0 bits (68), Expect = 2.3
Identities = 23/70 (32%), Positives = 33/70 (47%), Gaps = 17/70 (24%)
Query: 267 VVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLTVVD 326
VVG G+GKSTL+ SL Y + + ++ G T + K K RLT ++
Sbjct: 44 VVGPPGVGKSTLIRSLIKR--YTKQNLSDIK---GPITIVTGK---------KRRLTFIE 89
Query: 327 TPGFGDSINS 336
P + INS
Sbjct: 90 CP---NDINS 96
>gnl|CDD|234988 PRK01889, PRK01889, GTPase RsgA; Reviewed.
Length = 356
Score = 34.1 bits (79), Expect = 0.17
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 101 TLMVVGESGLGKSTLVNSL 119
T+ ++G SG+GKSTLVN+L
Sbjct: 197 TVALLGSSGVGKSTLVNAL 215
Score = 34.1 bits (79), Expect = 0.17
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 200 TLMVVGESGLGKSTLVNSL 218
T+ ++G SG+GKSTLVN+L
Sbjct: 197 TVALLGSSGVGKSTLVNAL 215
Score = 34.1 bits (79), Expect = 0.17
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 264 TLMVVGESGLGKSTLVNSL 282
T+ ++G SG+GKSTLVN+L
Sbjct: 197 TVALLGSSGVGKSTLVNAL 215
>gnl|CDD|237039 PRK12288, PRK12288, GTPase RsgA; Reviewed.
Length = 347
Score = 34.1 bits (79), Expect = 0.18
Identities = 18/41 (43%), Positives = 27/41 (65%), Gaps = 6/41 (14%)
Query: 268 VGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGK---TTT 305
VG+SG+GKS+L+N+L L + + V +V+D G TTT
Sbjct: 211 VGQSGVGKSSLINAL-LPEA--EILVGDVSDNSGLGQHTTT 248
Score = 31.4 bits (72), Expect = 1.1
Identities = 10/15 (66%), Positives = 15/15 (100%)
Query: 105 VGESGLGKSTLVNSL 119
VG+SG+GKS+L+N+L
Sbjct: 211 VGQSGVGKSSLINAL 225
Score = 31.4 bits (72), Expect = 1.1
Identities = 10/15 (66%), Positives = 15/15 (100%)
Query: 204 VGESGLGKSTLVNSL 218
VG+SG+GKS+L+N+L
Sbjct: 211 VGQSGVGKSSLINAL 225
>gnl|CDD|188208 TIGR02323, CP_lyasePhnK, phosphonate C-P lyase system protein PhnK.
Members of this family are the PhnK protein of C-P
lyase systems for utilization of phosphonates. These
systems resemble phosphonatase-based systems in having a
three component ABC transporter, where TIGR01097 is the
permease, TIGR01098 is the phosphonates binding protein,
and TIGR02315 is the ATP-binding cassette (ABC) protein.
They differ, however, in having, typically, ten or more
additional genes, many of which are believed to form a
membrane-associated complex. This protein (PhnK) and the
adjacent-encoded PhnL resemble transporter ATP-binding
proteins but are suggested, based on mutatgenesis
studies, to be part of this complex rather than part of
a transporter per se [Central intermediary metabolism,
Phosphorus compounds].
Length = 253
Score = 33.7 bits (77), Expect = 0.21
Identities = 21/63 (33%), Positives = 25/63 (39%), Gaps = 22/63 (34%)
Query: 220 LSDLYGDRKVPNVNEKGSIPYSDIGFATLPEQVHRKSVKKGFDFTLMVVGESGLGKSTLV 279
LS YG K D+ F P +V L +VGESG GKSTL+
Sbjct: 9 LSKSYGGGK----------GCRDVSFDLYPGEV------------LGIVGESGSGKSTLL 46
Query: 280 NSL 282
L
Sbjct: 47 GCL 49
Score = 30.6 bits (69), Expect = 1.8
Identities = 12/18 (66%), Positives = 14/18 (77%)
Query: 102 LMVVGESGLGKSTLVNSL 119
L +VGESG GKSTL+ L
Sbjct: 32 LGIVGESGSGKSTLLGCL 49
Score = 30.6 bits (69), Expect = 1.8
Identities = 12/18 (66%), Positives = 14/18 (77%)
Query: 201 LMVVGESGLGKSTLVNSL 218
L +VGESG GKSTL+ L
Sbjct: 32 LGIVGESGSGKSTLLGCL 49
>gnl|CDD|226415 COG3899, COG3899, Predicted ATPase [General function prediction
only].
Length = 849
Score = 34.3 bits (79), Expect = 0.21
Identities = 14/24 (58%), Positives = 17/24 (70%)
Query: 94 VKKGFDFTLMVVGESGLGKSTLVN 117
V KG ++V GESG+GKS LVN
Sbjct: 19 VSKGRGEVVLVAGESGIGKSALVN 42
Score = 34.3 bits (79), Expect = 0.21
Identities = 14/24 (58%), Positives = 17/24 (70%)
Query: 193 VKKGFDFTLMVVGESGLGKSTLVN 216
V KG ++V GESG+GKS LVN
Sbjct: 19 VSKGRGEVVLVAGESGIGKSALVN 42
Score = 34.3 bits (79), Expect = 0.21
Identities = 14/24 (58%), Positives = 17/24 (70%)
Query: 257 VKKGFDFTLMVVGESGLGKSTLVN 280
V KG ++V GESG+GKS LVN
Sbjct: 19 VSKGRGEVVLVAGESGIGKSALVN 42
>gnl|CDD|130344 TIGR01277, thiQ, thiamine ABC transporter, ATP-binding protein.
This model describes the energy-transducing ATPase
subunit ThiQ of the ThiBPQ thiamine (and thiamine
pyrophosphate) ABC transporter in several
Proteobacteria. This protein is found so far only in
Proteobacteria, and is found in complete genomes only if
the ThiB and ThiP subunits are also found [Transport and
binding proteins, Other].
Length = 213
Score = 33.3 bits (76), Expect = 0.23
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 203 VVGESGLGKSTLVNSL--FLSDLYGDRKVPNVNEKGSIPY 240
++G SG GKSTL+N + F+ G KV + + G PY
Sbjct: 29 IMGPSGAGKSTLLNLIAGFIEPASGSIKVNDQSHTGLAPY 68
Score = 29.4 bits (66), Expect = 3.2
Identities = 23/69 (33%), Positives = 33/69 (47%), Gaps = 7/69 (10%)
Query: 267 VVGESGLGKSTLVNSL--FLSDLYGDRKVPNVNDRQGKTTTIEKK--SMDIEERGVKLRL 322
++G SG GKSTL+N + F+ G K VND+ ++ SM +E + L
Sbjct: 29 IMGPSGAGKSTLLNLIAGFIEPASGSIK---VNDQSHTGLAPYQRPVSMLFQENNLFAHL 85
Query: 323 TVVDTPGFG 331
TV G G
Sbjct: 86 TVRQNIGLG 94
>gnl|CDD|213211 cd03244, ABCC_MRP_domain2, ATP-binding cassette domain 2 of
multidrug resistance-associated protein. The ABC
subfamily C is also known as MRP (multidrug
resistance-associated protein). Some of the MRP members
have five additional transmembrane segments in their
N-terminus, but the function of these additional
membrane-spanning domains is not clear. The MRP was
found in the multidrug-resistance lung cancer cell in
which p-glycoprotein was not overexpressed. MRP exports
glutathione by drug stimulation, as well as, certain
substrates in conjugated forms with anions, such as
glutathione, glucuronate, and sulfate.
Length = 221
Score = 33.2 bits (77), Expect = 0.24
Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 9/55 (16%)
Query: 203 VVGESGLGKSTLVNSLFLSDLYGDRKVPNVNEKGSIPYSDIGFATLPEQVHRKSV 257
+VG +G GKS+L+ +LF R V GSI + + + R +
Sbjct: 35 IVGRTGSGKSSLLLALF-------RLVELS--SGSILIDGVDISKIGLHDLRSRI 80
Score = 32.1 bits (74), Expect = 0.58
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 7/33 (21%)
Query: 104 VVGESGLGKSTLVNSLFLSDLYGDRKVPNVNGS 136
+VG +G GKS+L+ +LF R V +GS
Sbjct: 35 IVGRTGSGKSSLLLALF-------RLVELSSGS 60
Score = 31.7 bits (73), Expect = 0.70
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 267 VVGESGLGKSTLVNSLF 283
+VG +G GKS+L+ +LF
Sbjct: 35 IVGRTGSGKSSLLLALF 51
>gnl|CDD|213221 cd03254, ABCC_Glucan_exporter_like, ATP-binding cassette domain of
glucan transporter and related proteins, subfamily C.
Glucan exporter ATP-binding protein. In A. tumefaciens
cyclic beta-1, 2-glucan must be transported into the
periplasmic space to exert its action as a virulence
factor. This subfamily belongs to the MRP-like family
and is involved in drug, peptide, and lipid export. The
MRP-like family, similar to all ABC proteins, have a
common four-domain core structure constituted by two
membrane-spanning domains each composed of six
transmembrane (TM) helices and two nucleotide-binding
domains (NBD). ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 229
Score = 33.4 bits (77), Expect = 0.24
Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 15/75 (20%)
Query: 189 HRKSVKKGFDF------TLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNEKGSIPYSD 242
+K V K +F T+ +VG +G GK+TL+N L Y +KG I
Sbjct: 14 EKKPVLKDINFSIKPGETVAIVGPTGAGKTTLIN--LLMRFYD-------PQKGQILIDG 64
Query: 243 IGFATLPEQVHRKSV 257
I + + R +
Sbjct: 65 IDIRDISRKSLRSMI 79
Score = 28.3 bits (64), Expect = 8.4
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 6/36 (16%)
Query: 90 HRKSVKKGFDF------TLMVVGESGLGKSTLVNSL 119
+K V K +F T+ +VG +G GK+TL+N L
Sbjct: 14 EKKPVLKDINFSIKPGETVAIVGPTGAGKTTLINLL 49
Score = 28.3 bits (64), Expect = 8.4
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 6/36 (16%)
Query: 253 HRKSVKKGFDF------TLMVVGESGLGKSTLVNSL 282
+K V K +F T+ +VG +G GK+TL+N L
Sbjct: 14 EKKPVLKDINFSIKPGETVAIVGPTGAGKTTLINLL 49
>gnl|CDD|233209 TIGR00958, 3a01208, Conjugate Transporter-2 (CT2) Family protein.
[Transport and binding proteins, Other].
Length = 711
Score = 33.9 bits (78), Expect = 0.24
Identities = 29/82 (35%), Positives = 38/82 (46%), Gaps = 24/82 (29%)
Query: 224 YGDRKVPNV---------NEKGSIPYSDIGFA--TLPEQVHRKSVKKGFDFTL------M 266
Y DRK PN+ N +G I + D+ F+ P+ V KG FTL
Sbjct: 457 YLDRK-PNIPLTGTLAPLNLEGLIEFQDVSFSYPNRPDV----PVLKGLTFTLHPGEVVA 511
Query: 267 VVGESGLGKSTLVNSLFLSDLY 288
+VG SG GKST+ L +LY
Sbjct: 512 LVGPSGSGKSTVA--ALLQNLY 531
>gnl|CDD|221803 pfam12846, AAA_10, AAA-like domain. This family of domains contain
a P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins.
Length = 316
Score = 33.2 bits (76), Expect = 0.31
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 201 LMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNEKGSIPYSDI 243
+++VG SG GKSTL+ L L L +V ++ KG YS +
Sbjct: 4 MLIVGPSGSGKSTLLKLLALRLLARGGRVIVIDPKGE--YSGL 44
Score = 33.2 bits (76), Expect = 0.34
Identities = 14/28 (50%), Positives = 18/28 (64%), Gaps = 1/28 (3%)
Query: 102 LMVVGESGLGKSTLVNSLFLSDL-YGDR 128
+++VG SG GKSTL+ L L L G R
Sbjct: 4 MLIVGPSGSGKSTLLKLLALRLLARGGR 31
Score = 33.2 bits (76), Expect = 0.34
Identities = 14/28 (50%), Positives = 18/28 (64%), Gaps = 1/28 (3%)
Query: 265 LMVVGESGLGKSTLVNSLFLSDL-YGDR 291
+++VG SG GKSTL+ L L L G R
Sbjct: 4 MLIVGPSGSGKSTLLKLLALRLLARGGR 31
>gnl|CDD|232848 TIGR00157, TIGR00157, ribosome small subunit-dependent GTPase A.
Members of this protein were designated YjeQ and are now
designated RsgA (ribosome small subunit-dependent GTPase
A). The strongest motif in the alignment of these
proteins is GXSGVGKS[ST], a classic P-loop for
nucleotide binding. This protein has been shown to
cleave GTP and remain bound to GDP. A role as a
regulator of translation has been suggested. The Aquifex
aeolicus ortholog is split into consecutive open reading
frames. Consequently, this model was build in fragment
mode (-f option) [Protein synthesis, Translation
factors].
Length = 245
Score = 32.8 bits (75), Expect = 0.31
Identities = 27/105 (25%), Positives = 50/105 (47%), Gaps = 19/105 (18%)
Query: 234 EKGSIPYSDIGFATLPEQVH-RKSVKKGFD-----FTLMVVGESGLGKSTLVNSLFLSDL 287
E+ I Y +IG+ L + +K+ + ++ G+SG+GKS+L+N+L +
Sbjct: 88 EQLDI-YRNIGYQVLMTSSKNQDGLKELIEALQNRISVFA-GQSGVGKSSLINAL-DPSV 144
Query: 288 YGDRKVPNVND--RQGKTTTIEKKSMDIEERGVKLRLTVVDTPGF 330
++V +++ GK TT + G+ + DTPGF
Sbjct: 145 --KQQVNDISSKLGLGKHTTTHVELFHFHG-GL-----IADTPGF 181
>gnl|CDD|227320 COG4987, CydC, ABC-type transport system involved in cytochrome bd
biosynthesis, fused ATPase and permease components
[Energy production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 573
Score = 33.5 bits (77), Expect = 0.33
Identities = 26/96 (27%), Positives = 42/96 (43%), Gaps = 22/96 (22%)
Query: 195 KGFDFTL------MVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNEKGSIPYSDIGFATL 248
K F+ TL ++G SG GKSTL+ L ++GSI + + A+L
Sbjct: 355 KNFNLTLAQGEKVAILGRSGSGKSTLLQ-LLAGAW--------DPQQGSITLNGVEIASL 405
Query: 249 PEQVHRKSVKKGFDFTLMVVGESGLGKSTLVNSLFL 284
EQ R+++ ++ L TL ++L L
Sbjct: 406 DEQALRETIS-------VLTQRVHLFSGTLRDNLRL 434
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only detects
a fraction of this vast family. The poorly conserved
N-terminal helix is missing from the alignment.
Length = 148
Score = 32.0 bits (72), Expect = 0.33
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 101 TLMVVGESGLGKSTLVNSL 119
+++VG G GK+TL +L
Sbjct: 4 VILIVGPPGSGKTTLARAL 22
Score = 32.0 bits (72), Expect = 0.33
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 200 TLMVVGESGLGKSTLVNSL 218
+++VG G GK+TL +L
Sbjct: 4 VILIVGPPGSGKTTLARAL 22
Score = 32.0 bits (72), Expect = 0.33
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 264 TLMVVGESGLGKSTLVNSL 282
+++VG G GK+TL +L
Sbjct: 4 VILIVGPPGSGKTTLARAL 22
>gnl|CDD|226967 COG4608, AppF, ABC-type oligopeptide transport system, ATPase
component [Amino acid transport and metabolism].
Length = 268
Score = 33.0 bits (76), Expect = 0.35
Identities = 15/27 (55%), Positives = 19/27 (70%), Gaps = 2/27 (7%)
Query: 93 SVKKGFDFTLMVVGESGLGKSTLVNSL 119
S+K+G TL +VGESG GKSTL +
Sbjct: 35 SIKEGE--TLGLVGESGCGKSTLGRLI 59
Score = 33.0 bits (76), Expect = 0.35
Identities = 15/27 (55%), Positives = 19/27 (70%), Gaps = 2/27 (7%)
Query: 192 SVKKGFDFTLMVVGESGLGKSTLVNSL 218
S+K+G TL +VGESG GKSTL +
Sbjct: 35 SIKEGE--TLGLVGESGCGKSTLGRLI 59
Score = 33.0 bits (76), Expect = 0.35
Identities = 15/27 (55%), Positives = 19/27 (70%), Gaps = 2/27 (7%)
Query: 256 SVKKGFDFTLMVVGESGLGKSTLVNSL 282
S+K+G TL +VGESG GKSTL +
Sbjct: 35 SIKEGE--TLGLVGESGCGKSTLGRLI 59
>gnl|CDD|197555 smart00175, RAB, Rab subfamily of small GTPases. Rab GTPases are
implicated in vesicle trafficking.
Length = 164
Score = 32.1 bits (74), Expect = 0.38
Identities = 18/67 (26%), Positives = 38/67 (56%), Gaps = 9/67 (13%)
Query: 263 FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRL 322
F ++++G+SG+GKS+L++ F + +++ T ++ K+ IE G +++L
Sbjct: 1 FKIILIGDSGVGKSSLLSR-FTDGKF--------SEQYKSTIGVDFKTKTIEVDGKRVKL 51
Query: 323 TVVDTPG 329
+ DT G
Sbjct: 52 QIWDTAG 58
Score = 29.8 bits (68), Expect = 2.3
Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 3/51 (5%)
Query: 100 FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPN--VNGSNTVIEVAGTKVR 148
F ++++G+SG+GKS+L++ F + ++ V+ IEV G +V+
Sbjct: 1 FKIILIGDSGVGKSSLLSR-FTDGKFSEQYKSTIGVDFKTKTIEVDGKRVK 50
>gnl|CDD|237040 PRK12289, PRK12289, GTPase RsgA; Reviewed.
Length = 352
Score = 32.7 bits (75), Expect = 0.40
Identities = 22/73 (30%), Positives = 34/73 (46%), Gaps = 24/73 (32%)
Query: 267 VVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDR---------QGKTTTIEKKSMDIEERG 317
V G SG+GKS+L+N L +P+V R +G+ TT + ++ G
Sbjct: 177 VAGPSGVGKSSLINRL----------IPDVELRVGKVSGKLGRGRHTTRHVELFELPNGG 226
Query: 318 VKLRLTVVDTPGF 330
+ + DTPGF
Sbjct: 227 L-----LADTPGF 234
Score = 30.0 bits (68), Expect = 2.9
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 12/47 (25%)
Query: 104 VVGESGLGKSTLVNSLFLSDLYGDRKVPNVNGSNTVIEVAGTKVRGR 150
V G SG+GKS+L+N L +P+V V +V+G RGR
Sbjct: 177 VAGPSGVGKSSLINRL----------IPDVE--LRVGKVSGKLGRGR 211
>gnl|CDD|224048 COG1123, COG1123, ATPase components of various ABC-type transport
systems, contain duplicated ATPase [General function
prediction only].
Length = 539
Score = 32.9 bits (76), Expect = 0.45
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 9/46 (19%)
Query: 80 IGFATLPEQVHRKSVKKGFDFTLM------VVGESGLGKSTLVNSL 119
+ FAT +V + F + +VGESG GKSTL +L
Sbjct: 13 VEFATDGGRVP---AVRDVSFEVEPGEILGIVGESGSGKSTLALAL 55
Score = 32.9 bits (76), Expect = 0.45
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 9/46 (19%)
Query: 179 IGFATLPEQVHRKSVKKGFDFTLM------VVGESGLGKSTLVNSL 218
+ FAT +V + F + +VGESG GKSTL +L
Sbjct: 13 VEFATDGGRVP---AVRDVSFEVEPGEILGIVGESGSGKSTLALAL 55
Score = 32.9 bits (76), Expect = 0.45
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 9/46 (19%)
Query: 243 IGFATLPEQVHRKSVKKGFDFTLM------VVGESGLGKSTLVNSL 282
+ FAT +V + F + +VGESG GKSTL +L
Sbjct: 13 VEFATDGGRVP---AVRDVSFEVEPGEILGIVGESGSGKSTLALAL 55
Score = 31.0 bits (71), Expect = 1.6
Identities = 12/15 (80%), Positives = 13/15 (86%)
Query: 101 TLMVVGESGLGKSTL 115
TL +VGESG GKSTL
Sbjct: 319 TLGLVGESGSGKSTL 333
Score = 31.0 bits (71), Expect = 1.6
Identities = 12/15 (80%), Positives = 13/15 (86%)
Query: 200 TLMVVGESGLGKSTL 214
TL +VGESG GKSTL
Sbjct: 319 TLGLVGESGSGKSTL 333
Score = 31.0 bits (71), Expect = 1.6
Identities = 12/15 (80%), Positives = 13/15 (86%)
Query: 264 TLMVVGESGLGKSTL 278
TL +VGESG GKSTL
Sbjct: 319 TLGLVGESGSGKSTL 333
>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the AAA
superfamily.
Length = 154
Score = 31.8 bits (72), Expect = 0.48
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 102 LMVVGESGLGKSTLVNSLF 120
+++ G SG GK++L+ L
Sbjct: 27 VLLTGPSGTGKTSLLRELL 45
Score = 31.8 bits (72), Expect = 0.48
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 201 LMVVGESGLGKSTLVNSLF 219
+++ G SG GK++L+ L
Sbjct: 27 VLLTGPSGTGKTSLLRELL 45
Score = 31.8 bits (72), Expect = 0.48
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 265 LMVVGESGLGKSTLVNSLF 283
+++ G SG GK++L+ L
Sbjct: 27 VLLTGPSGTGKTSLLRELL 45
>gnl|CDD|131259 TIGR02204, MsbA_rel, ABC transporter, permease/ATP-binding protein.
This protein is related to a Proteobacterial ATP
transporter that exports lipid A and to eukaryotic
P-glycoproteins.
Length = 576
Score = 32.7 bits (75), Expect = 0.49
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 8/54 (14%)
Query: 235 KGSIPYSDIGFATLPEQVHRKSVKKGFDF------TLMVVGESGLGKSTLVNSL 282
+G I + + FA P + + ++ G + T+ +VG SG GKSTL L
Sbjct: 335 RGEIEFEQVNFA-YPARPDQPALD-GLNLTVRPGETVALVGPSGAGKSTLFQLL 386
Score = 29.3 bits (66), Expect = 5.7
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 8/48 (16%)
Query: 78 DYIGFATLPEQVHRKSVKKGFDF------TLMVVGESGLGKSTLVNSL 119
+ + FA P + + ++ G + T+ +VG SG GKSTL L
Sbjct: 341 EQVNFA-YPARPDQPALD-GLNLTVRPGETVALVGPSGAGKSTLFQLL 386
Score = 29.3 bits (66), Expect = 5.7
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 8/48 (16%)
Query: 177 DYIGFATLPEQVHRKSVKKGFDF------TLMVVGESGLGKSTLVNSL 218
+ + FA P + + ++ G + T+ +VG SG GKSTL L
Sbjct: 341 EQVNFA-YPARPDQPALD-GLNLTVRPGETVALVGPSGAGKSTLFQLL 386
>gnl|CDD|215692 pfam00071, Ras, Ras family. Includes sub-families Ras, Rab, Rac,
Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with
GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025,
pfam00063. As regards Rab GTPases, these are important
regulators of vesicle formation, motility and fusion.
They share a fold in common with all Ras GTPases: this
is a six-stranded beta-sheet surrounded by five
alpha-helices.
Length = 162
Score = 31.7 bits (73), Expect = 0.53
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 9/65 (13%)
Query: 265 LMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLTV 324
L++VG+ G+GKS+L+ F + + + +P T ++ + IE G ++L +
Sbjct: 2 LVLVGDGGVGKSSLLIR-FTQNKFPEEYIP--------TIGVDFYTKTIEVDGKTVKLQI 52
Query: 325 VDTPG 329
DT G
Sbjct: 53 WDTAG 57
>gnl|CDD|185037 PRK15079, PRK15079, oligopeptide ABC transporter ATP-binding
protein OppF; Provisional.
Length = 331
Score = 32.4 bits (74), Expect = 0.55
Identities = 12/15 (80%), Positives = 12/15 (80%)
Query: 101 TLMVVGESGLGKSTL 115
TL VVGESG GKST
Sbjct: 49 TLGVVGESGCGKSTF 63
Score = 32.4 bits (74), Expect = 0.55
Identities = 12/15 (80%), Positives = 12/15 (80%)
Query: 200 TLMVVGESGLGKSTL 214
TL VVGESG GKST
Sbjct: 49 TLGVVGESGCGKSTF 63
Score = 32.4 bits (74), Expect = 0.55
Identities = 12/15 (80%), Positives = 12/15 (80%)
Query: 264 TLMVVGESGLGKSTL 278
TL VVGESG GKST
Sbjct: 49 TLGVVGESGCGKSTF 63
>gnl|CDD|213195 cd03228, ABCC_MRP_Like, ATP-binding cassette domain of multidrug
resistance protein-like transporters. The MRP
(Multidrug Resistance Protein)-like transporters are
involved in drug, peptide, and lipid export. They belong
to the subfamily C of the ATP-binding cassette (ABC)
superfamily of transport proteins. The ABCC subfamily
contains transporters with a diverse functional spectrum
that includes ion transport, cell surface receptor, and
toxin secretion activities. The MRP-like family, similar
to all ABC proteins, have a common four-domain core
structure constituted by two membrane-spanning domains,
each composed of six transmembrane (TM) helices, and two
nucleotide-binding domains (NBD). ABC transporters are a
subset of nucleotide hydrolases that contain a signature
motif, Q-loop, and H-loop/switch region, in addition to,
the Walker A motif/P-loop and Walker B motif commonly
found in a number of ATP- and GTP-binding and
hydrolyzing proteins.
Length = 171
Score = 31.2 bits (72), Expect = 0.68
Identities = 13/32 (40%), Positives = 16/32 (50%), Gaps = 6/32 (18%)
Query: 94 VKKGFDFTL------MVVGESGLGKSTLVNSL 119
V K T+ +VG SG GKSTL+ L
Sbjct: 17 VLKDVSLTIKPGEKVAIVGPSGSGKSTLLKLL 48
Score = 31.2 bits (72), Expect = 0.68
Identities = 13/32 (40%), Positives = 16/32 (50%), Gaps = 6/32 (18%)
Query: 193 VKKGFDFTL------MVVGESGLGKSTLVNSL 218
V K T+ +VG SG GKSTL+ L
Sbjct: 17 VLKDVSLTIKPGEKVAIVGPSGSGKSTLLKLL 48
Score = 31.2 bits (72), Expect = 0.68
Identities = 13/32 (40%), Positives = 16/32 (50%), Gaps = 6/32 (18%)
Query: 257 VKKGFDFTL------MVVGESGLGKSTLVNSL 282
V K T+ +VG SG GKSTL+ L
Sbjct: 17 VLKDVSLTIKPGEKVAIVGPSGSGKSTLLKLL 48
>gnl|CDD|223296 COG0218, COG0218, Predicted GTPase [General function prediction
only].
Length = 200
Score = 31.4 bits (72), Expect = 0.79
Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 12/65 (18%)
Query: 267 VVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLTVVD 326
G S +GKS+L+N+L + + + G+T I ++++ +LRL VD
Sbjct: 29 FAGRSNVGKSSLINALT-----NQKNLARTSKTPGRTQLI--NFFEVDD---ELRL--VD 76
Query: 327 TPGFG 331
PG+G
Sbjct: 77 LPGYG 81
>gnl|CDD|236546 PRK09518, PRK09518, bifunctional cytidylate kinase/GTPase Der;
Reviewed.
Length = 712
Score = 32.1 bits (73), Expect = 0.80
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 10/67 (14%)
Query: 264 TLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLT 323
+ +VG +GKSTLVN + R+ V D G T ++ S D E G
Sbjct: 277 VVAIVGRPNVGKSTLVNRIL------GRREAVVEDTPG--VTRDRVSYDAEWAGT--DFK 326
Query: 324 VVDTPGF 330
+VDT G+
Sbjct: 327 LVDTGGW 333
>gnl|CDD|224059 COG1136, SalX, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 226
Score = 31.3 bits (72), Expect = 0.83
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 93 SVKKGFDFTLMVVGESGLGKSTLVNSL 119
++ G +F +VG SG GKSTL+N L
Sbjct: 27 EIEAG-EFV-AIVGPSGSGKSTLLNLL 51
Score = 31.3 bits (72), Expect = 0.83
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 192 SVKKGFDFTLMVVGESGLGKSTLVNSL 218
++ G +F +VG SG GKSTL+N L
Sbjct: 27 EIEAG-EFV-AIVGPSGSGKSTLLNLL 51
Score = 31.3 bits (72), Expect = 0.83
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 256 SVKKGFDFTLMVVGESGLGKSTLVNSL 282
++ G +F +VG SG GKSTL+N L
Sbjct: 27 EIEAG-EFV-AIVGPSGSGKSTLLNLL 51
>gnl|CDD|240339 PTZ00265, PTZ00265, multidrug resistance protein (mdr1); Provisional.
Length = 1466
Score = 31.9 bits (72), Expect = 1.1
Identities = 29/105 (27%), Positives = 46/105 (43%), Gaps = 11/105 (10%)
Query: 225 GDRKVPNVNE-KGSIPYSDIGFATLPEQVHRKSVKKGFDF------TLMVVGESGLGKST 277
G ++ N N+ KG I D+ F + + K F T +VGE+G GKST
Sbjct: 1152 GGIRIKNKNDIKGKIEIMDVNFRYISRP--NVPIYKDLTFSCDSKKTTAIVGETGSGKST 1209
Query: 278 LVNSLF-LSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLR 321
+++ L DL D + N+ T E+ EE+ V ++
Sbjct: 1210 VMSLLMRFYDLKNDHHIVFKNEHTNDMTN-EQDYQGDEEQNVGMK 1253
>gnl|CDD|131580 TIGR02528, EutP, ethanolamine utilization protein, EutP. This
protein is found within operons which code for
polyhedral organelles containing the enzyme ethanolamine
ammonia lyase. The function of this gene is unknown,
although the presence of an N-terminal GxxGxGK motif
implies a GTP-binding site [Energy metabolism, Amino
acids and amines].
Length = 142
Score = 30.5 bits (69), Expect = 1.2
Identities = 16/65 (24%), Positives = 23/65 (35%), Gaps = 23/65 (35%)
Query: 265 LMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLTV 324
+M +G G GK+TL +L ++ KT +E I
Sbjct: 3 IMFIGSVGCGKTTLTQALQGEEI-----------LYKKTQAVEYNDGAI----------- 40
Query: 325 VDTPG 329
DTPG
Sbjct: 41 -DTPG 44
Score = 28.6 bits (64), Expect = 4.8
Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 1/51 (1%)
Query: 102 LMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNGSNTVIEVAGTKVRGRQY 152
+M +G G GK+TL +L ++ +K V ++ I+ G V R+
Sbjct: 3 IMFIGSVGCGKTTLTQALQGEEILY-KKTQAVEYNDGAIDTPGEYVENRRL 52
>gnl|CDD|206708 cd04136, Rap_like, Rap-like family consists of Rap1, Rap2 and RSR1.
The Rap subfamily consists of the Rap1, Rap2, and RSR1.
Rap subfamily proteins perform different cellular
functions, depending on the isoform and its subcellular
localization. For example, in rat salivary gland,
neutrophils, and platelets, Rap1 localizes to secretory
granules and is believed to regulate exocytosis or the
formation of secretory granules. Rap1 has also been
shown to localize in the Golgi of rat fibroblasts,
zymogen granules, plasma membrane, and microsomal
membrane of the pancreatic acini, as well as in the
endocytic compartment of skeletal muscle cells and
fibroblasts. Rap1 localizes in the nucleus of human
oropharyngeal squamous cell carcinomas (SCCs) and cell
lines. Rap1 plays a role in phagocytosis by controlling
the binding of adhesion receptors (typically integrins)
to their ligands. In yeast, Rap1 has been implicated in
multiple functions, including activation and silencing
of transcription and maintenance of telomeres. Rap2 is
involved in multiple functions, including activation of
c-Jun N-terminal kinase (JNK) to regulate the actin
cytoskeleton and activation of the Wnt/beta-catenin
signaling pathway in embryonic Xenopus. A number of
effector proteins for Rap2 have been identified,
including isoform 3 of the human mitogen-activated
protein kinase kinase kinase kinase 4 (MAP4K4) and
Traf2- and Nck-interacting kinase (TNIK), and the
RalGEFs RalGDS, RGL, and Rlf, which also interact with
Rap1 and Ras. RSR1 is the fungal homolog of Rap1 and
Rap2. In budding yeasts, it is involved in selecting a
site for bud growth, which directs the establishment of
cell polarization. The Rho family GTPase Cdc42 and its
GEF, Cdc24, then establish an axis of polarized growth.
It is believed that Cdc42 interacts directly with RSR1
in vivo. In filamentous fungi such as Ashbya gossypii,
RSR1 is a key regulator of polar growth in the hypha.
Most Ras proteins contain a lipid modification site at
the C-terminus, with a typical sequence motif CaaX,
where a = an aliphatic amino acid and X = any amino
acid. Lipid binding is essential for membrane
attachment, a key feature of most Ras proteins. Due to
the presence of truncated sequences in this CD, the
lipid modification site is not available for annotation.
Length = 164
Score = 30.6 bits (69), Expect = 1.2
Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 10/68 (14%)
Query: 262 DFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLR 321
++ L+V+G G+GKS L F+ ++ D+ P + D K ++ + +E
Sbjct: 1 EYKLVVLGSGGVGKSALTVQ-FVQGIFVDKYDPTIEDSYRKQIEVDCQQCMLE------- 52
Query: 322 LTVVDTPG 329
++DT G
Sbjct: 53 --ILDTAG 58
>gnl|CDD|206733 cd04170, EF-G_bact, Elongation factor G (EF-G) family.
Translocation is mediated by EF-G (also called
translocase). The structure of EF-G closely resembles
that of the complex between EF-Tu and tRNA. This is an
example of molecular mimicry; a protein domain evolved
so that it mimics the shape of a tRNA molecule. EF-G in
the GTP form binds to the ribosome, primarily through
the interaction of its EF-Tu-like domain with the 50S
subunit. The binding of EF-G to the ribosome in this
manner stimulates the GTPase activity of EF-G. On GTP
hydrolysis, EF-G undergoes a conformational change that
forces its arm deeper into the A site on the 30S
subunit. To accommodate this domain, the peptidyl-tRNA
in the A site moves to the P site, carrying the mRNA and
the deacylated tRNA with it. The ribosome may be
prepared for these rearrangements by the initial binding
of EF-G as well. The dissociation of EF-G leaves the
ribosome ready to accept the next aminoacyl-tRNA into
the A site. This group contains only bacterial members.
Length = 268
Score = 31.0 bits (71), Expect = 1.2
Identities = 24/84 (28%), Positives = 37/84 (44%), Gaps = 29/84 (34%)
Query: 267 VVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKS----MDIEERGVKL-- 320
+VG SG GK+TL +L LY + DR G +E + D EE+ K+
Sbjct: 4 LVGHSGSGKTTLAEAL----LYATGAI----DRLG---RVEDGNTVSDYDPEEKKRKMSI 52
Query: 321 ------------RLTVVDTPGFGD 332
++ ++DTPG+ D
Sbjct: 53 ETSVAPLEWNGHKINLIDTPGYAD 76
>gnl|CDD|206680 cd01893, Miro1, Mitochondrial Rho family 1 (Miro1), N-terminal.
Miro1 subfamily. Miro (mitochondrial Rho) proteins have
tandem GTP-binding domains separated by a linker region
containing putative calcium-binding EF hand motifs.
Genes encoding Miro-like proteins were found in several
eukaryotic organisms. This CD represents the N-terminal
GTPase domain of Miro proteins. These atypical Rho
GTPases have roles in mitochondrial homeostasis and
apoptosis. Most Rho proteins contain a lipid
modification site at the C-terminus; however, Miro is
one of few Rho subfamilies that lack this feature.
Length = 168
Score = 30.4 bits (69), Expect = 1.2
Identities = 14/37 (37%), Positives = 26/37 (70%), Gaps = 2/37 (5%)
Query: 203 VVGESGLGKSTLVNSLFLSDLYGDRKVPNVNEKGSIP 239
++G+ G+GKS+L+ SL +S+ + + VP V + +IP
Sbjct: 7 LIGDEGVGKSSLIMSL-VSEEFPE-NVPRVLPEITIP 41
>gnl|CDD|206642 cd00876, Ras, Rat sarcoma (Ras) family of small guanosine
triphosphatases (GTPases). The Ras family of the Ras
superfamily includes classical N-Ras, H-Ras, and K-Ras,
as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG,
Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins.
Ras proteins regulate cell growth, proliferation and
differentiation. Ras is activated by guanine nucleotide
exchange factors (GEFs) that release GDP and allow GTP
binding. Many RasGEFs have been identified. These are
sequestered in the cytosol until activation by growth
factors triggers recruitment to the plasma membrane or
Golgi, where the GEF colocalizes with Ras. Active
GTP-bound Ras interacts with several effector proteins:
among the best characterized are the Raf kinases,
phosphatidylinositol 3-kinase (PI3K), RalGEFs and
NORE/MST1. Most Ras proteins contain a lipid
modification site at the C-terminus, with a typical
sequence motif CaaX, where a = an aliphatic amino acid
and X = any amino acid. Lipid binding is essential for
membrane attachment, a key feature of most Ras proteins.
Due to the presence of truncated sequences in this CD,
the lipid modification site is not available for
annotation.
Length = 160
Score = 30.6 bits (70), Expect = 1.2
Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 16/69 (23%)
Query: 264 TLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIE---KKSMDIEERGVKL 320
L+V+G G+GKS L F+S + + P TIE +K + ++ G
Sbjct: 1 KLVVLGAGGVGKSALT-IRFVSGEFVEEYDP----------TIEDSYRKQIVVD--GETY 47
Query: 321 RLTVVDTPG 329
L ++DT G
Sbjct: 48 TLDILDTAG 56
>gnl|CDD|226647 COG4181, COG4181, Predicted ABC-type transport system involved in
lysophospholipase L1 biosynthesis, ATPase component
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 228
Score = 30.8 bits (70), Expect = 1.3
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 6/39 (15%)
Query: 84 TLPEQVHRKSVKKGFDF------TLMVVGESGLGKSTLV 116
T+ + S+ KG + T+ +VG SG GKSTL+
Sbjct: 15 TVGQGEGELSILKGVELVVKRGETVAIVGPSGSGKSTLL 53
Score = 30.8 bits (70), Expect = 1.3
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 6/39 (15%)
Query: 183 TLPEQVHRKSVKKGFDF------TLMVVGESGLGKSTLV 215
T+ + S+ KG + T+ +VG SG GKSTL+
Sbjct: 15 TVGQGEGELSILKGVELVVKRGETVAIVGPSGSGKSTLL 53
Score = 30.8 bits (70), Expect = 1.3
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 6/39 (15%)
Query: 247 TLPEQVHRKSVKKGFDF------TLMVVGESGLGKSTLV 279
T+ + S+ KG + T+ +VG SG GKSTL+
Sbjct: 15 TVGQGEGELSILKGVELVVKRGETVAIVGPSGSGKSTLL 53
>gnl|CDD|213222 cd03255, ABC_MJ0796_LolCDE_FtsE, ATP-binding cassette domain of the
transporters involved in export of lipoprotein and
macrolide, and cell division protein. This family is
comprised of MJ0796 ATP-binding cassette,
macrolide-specific ABC-type efflux carrier (MacAB), and
proteins involved in cell division (FtsE), and release
of lipoproteins from the cytoplasmic membrane (LolCDE).
They are clustered together phylogenetically. MacAB is
an exporter that confers resistance to macrolides, while
the LolCDE system is not a transporter at all. An FtsE
null mutants showed filamentous growth and appeared
viable on high salt medium only, indicating a role for
FtsE in cell division and/or salt transport. The LolCDE
complex catalyzes the release of lipoproteins from the
cytoplasmic membrane prior to their targeting to the
outer membrane.
Length = 218
Score = 30.9 bits (71), Expect = 1.3
Identities = 15/27 (55%), Positives = 20/27 (74%), Gaps = 2/27 (7%)
Query: 93 SVKKGFDFTLMVVGESGLGKSTLVNSL 119
S++KG +F +VG SG GKSTL+N L
Sbjct: 26 SIEKG-EFV-AIVGPSGSGKSTLLNIL 50
Score = 30.9 bits (71), Expect = 1.3
Identities = 15/27 (55%), Positives = 20/27 (74%), Gaps = 2/27 (7%)
Query: 192 SVKKGFDFTLMVVGESGLGKSTLVNSL 218
S++KG +F +VG SG GKSTL+N L
Sbjct: 26 SIEKG-EFV-AIVGPSGSGKSTLLNIL 50
Score = 30.9 bits (71), Expect = 1.3
Identities = 15/27 (55%), Positives = 20/27 (74%), Gaps = 2/27 (7%)
Query: 256 SVKKGFDFTLMVVGESGLGKSTLVNSL 282
S++KG +F +VG SG GKSTL+N L
Sbjct: 26 SIEKG-EFV-AIVGPSGSGKSTLLNIL 50
>gnl|CDD|206752 cd01859, MJ1464, An uncharacterized, circularly permuted subfamily
of the Ras GTPases. This family represents archaeal
GTPase typified by the protein MJ1464 from Methanococcus
jannaschii. The members of this family show a circular
permutation of the GTPase signature motifs so that
C-terminal strands 5, 6, and 7 (strands 6 contain the
NKxD motif) are relocated to the N terminus.
Length = 157
Score = 30.4 bits (69), Expect = 1.3
Identities = 18/80 (22%), Positives = 34/80 (42%), Gaps = 18/80 (22%)
Query: 254 RKSVKKGFDFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPN--VNDRQGKTTTIEKKSM 311
++ G + VVG +GKS+++N+ L G + G T I+
Sbjct: 91 KELAIDGKPVIVGVVGYPKVGKSSIINA-----LKGRHSASTSPIPGSPGYTKGIQL--- 142
Query: 312 DIEERGVKL--RLTVVDTPG 329
V++ ++ ++DTPG
Sbjct: 143 ------VRIDSKIYLIDTPG 156
Score = 28.8 bits (65), Expect = 3.8
Identities = 12/43 (27%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 77 RDYIGFATLPEQVHRKSVKKGFDFTLMVVGESGLGKSTLVNSL 119
R+ +G L + ++ G + VVG +GKS+++N+L
Sbjct: 78 RERLGTRILRRTI-KELAIDGKPVIVGVVGYPKVGKSSIINAL 119
Score = 28.8 bits (65), Expect = 3.8
Identities = 12/43 (27%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 176 RDYIGFATLPEQVHRKSVKKGFDFTLMVVGESGLGKSTLVNSL 218
R+ +G L + ++ G + VVG +GKS+++N+L
Sbjct: 78 RERLGTRILRRTI-KELAIDGKPVIVGVVGYPKVGKSSIINAL 119
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 29.9 bits (68), Expect = 1.3
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 102 LMVVGESGLGKSTLVNSL 119
++ GESG GK+TL+ L
Sbjct: 7 GVLTGESGSGKTTLLRRL 24
Score = 29.9 bits (68), Expect = 1.3
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 201 LMVVGESGLGKSTLVNSL 218
++ GESG GK+TL+ L
Sbjct: 7 GVLTGESGSGKTTLLRRL 24
Score = 29.9 bits (68), Expect = 1.3
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 265 LMVVGESGLGKSTLVNSL 282
++ GESG GK+TL+ L
Sbjct: 7 GVLTGESGSGKTTLLRRL 24
>gnl|CDD|206749 cd01856, YlqF, Circularly permuted YlqF GTPase. Proteins of the
YlqF family contain all sequence motifs typical of the
vast class of P-loop-containing GTPases, but show a
circular permutation, with a G4-G1-G3 pattern of motifs
as opposed to the regular G1-G3-G4 pattern seen in most
GTPases. The YlqF subfamily is represented in all
eukaryotes as well as a phylogenetically diverse array
of bacteria (including gram-positive bacteria,
proteobacteria, Synechocystis, Borrelia, and
Thermotoga).
Length = 171
Score = 30.6 bits (70), Expect = 1.3
Identities = 25/82 (30%), Positives = 36/82 (43%), Gaps = 20/82 (24%)
Query: 253 HRKSVKKGFD---FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIE-- 307
+ K KG MVVG +GKSTL+N L +KV V ++ G T +
Sbjct: 103 NEKLKAKGLLPRPLRAMVVGIPNVGKSTLINRLRG------KKVAKVGNKPGVTRGQQWI 156
Query: 308 KKSMDIEERGVKLRLTVVDTPG 329
+ +IE ++DTPG
Sbjct: 157 RIGPNIE---------LLDTPG 169
>gnl|CDD|226360 COG3840, ThiQ, ABC-type thiamine transport system, ATPase component
[Coenzyme metabolism].
Length = 231
Score = 30.8 bits (70), Expect = 1.4
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 2/40 (5%)
Query: 203 VVGESGLGKSTLVNSL--FLSDLYGDRKVPNVNEKGSIPY 240
++G SG GKSTL+N + F + G+ + V+ S P
Sbjct: 30 ILGPSGAGKSTLLNLIAGFETPASGEILINGVDHTASPPA 69
>gnl|CDD|213207 cd03240, ABC_Rad50, ATP-binding cassette domain of Rad50. The
catalytic domains of Rad50 are similar to the
ATP-binding cassette of ABC transporters, but are not
associated with membrane-spanning domains. The conserved
ATP-binding motifs common to Rad50 and the ABC
transporter family include the Walker A and Walker B
motifs, the Q loop, a histidine residue in the switch
region, a D-loop, and a conserved LSGG sequence. This
conserved sequence, LSGG, is the most specific and
characteristic motif of this family and is thus known as
the ABC signature sequence.
Length = 204
Score = 30.7 bits (70), Expect = 1.5
Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 8/65 (12%)
Query: 263 FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERG-VKLR 321
TL +VG++G GK+T++ +L + L G+ PN I + E R VKL
Sbjct: 24 LTL-IVGQNGAGKTTIIEALKYA-LTGE-LPPNSKGGAHDPKLIREG----EVRAQVKLA 76
Query: 322 LTVVD 326
+
Sbjct: 77 FENAN 81
>gnl|CDD|226641 COG4172, COG4172, ABC-type uncharacterized transport system,
duplicated ATPase component [General function prediction
only].
Length = 534
Score = 31.1 bits (71), Expect = 1.6
Identities = 12/15 (80%), Positives = 13/15 (86%)
Query: 101 TLMVVGESGLGKSTL 115
TL +VGESG GKSTL
Sbjct: 315 TLGLVGESGSGKSTL 329
Score = 31.1 bits (71), Expect = 1.6
Identities = 12/15 (80%), Positives = 13/15 (86%)
Query: 200 TLMVVGESGLGKSTL 214
TL +VGESG GKSTL
Sbjct: 315 TLGLVGESGSGKSTL 329
Score = 31.1 bits (71), Expect = 1.6
Identities = 12/15 (80%), Positives = 13/15 (86%)
Query: 264 TLMVVGESGLGKSTL 278
TL +VGESG GKSTL
Sbjct: 315 TLGLVGESGSGKSTL 329
Score = 29.9 bits (68), Expect = 4.3
Identities = 17/58 (29%), Positives = 22/58 (37%), Gaps = 8/58 (13%)
Query: 200 TLMVVGESGLGKSTLVNSL--FLSDLYGDRKVPNVNEKGSIPYSDIGFATLPEQVHRK 255
TL +VGESG GKS S+ L + GSI + E+ R
Sbjct: 38 TLALVGESGSGKSVTALSILGLLP------SPAAAHPSGSILFDGEDLLAASERQLRG 89
>gnl|CDD|213192 cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding
cassette component of cobalt transport system. Domain I
of the ABC component of a cobalt transport family found
in bacteria, archaea, and eukaryota. The transition
metal cobalt is an essential component of many enzymes
and must be transported into cells in appropriate
amounts when needed. This ABC transport system of the
CbiMNQO family is involved in cobalt transport in
association with the cobalamin (vitamin B12)
biosynthetic pathways. Most of cobalt (Cbi) transport
systems possess a separate CbiN component, the
cobalt-binding periplasmic protein, and they are encoded
by the conserved gene cluster cbiMNQO. Both the CbiM and
CbiQ proteins are integral cytoplasmic membrane
proteins, and the CbiO protein has the linker peptide
and the Walker A and B motifs commonly found in the
ATPase components of the ABC-type transport systems.
Length = 211
Score = 30.5 bits (70), Expect = 1.6
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 93 SVKKGFDFTLMVVGESGLGKSTLVNSL--FLSDLYGDRKVPNVNGSNTVIEVAGTKV 147
++KKG +F L +VG +G GKSTL+ L L G+ V + + ++ KV
Sbjct: 23 TIKKG-EFVL-IVGPNGSGKSTLLRLLNGLLGPTSGEVLVDGKDLTKLSLKELRRKV 77
Score = 30.1 bits (69), Expect = 2.4
Identities = 14/27 (51%), Positives = 20/27 (74%), Gaps = 2/27 (7%)
Query: 192 SVKKGFDFTLMVVGESGLGKSTLVNSL 218
++KKG +F L +VG +G GKSTL+ L
Sbjct: 23 TIKKG-EFVL-IVGPNGSGKSTLLRLL 47
Score = 30.1 bits (69), Expect = 2.4
Identities = 14/27 (51%), Positives = 20/27 (74%), Gaps = 2/27 (7%)
Query: 256 SVKKGFDFTLMVVGESGLGKSTLVNSL 282
++KKG +F L +VG +G GKSTL+ L
Sbjct: 23 TIKKG-EFVL-IVGPNGSGKSTLLRLL 47
>gnl|CDD|232980 TIGR00450, mnmE_trmE_thdF, tRNA modification GTPase TrmE. TrmE,
also called MnmE and previously designated ThdF
(thiophene and furan oxidation protein), is a GTPase
involved in tRNA modification to create
5-methylaminomethyl-2-thiouridine in the wobble position
of some tRNAs. This protein and GidA form an
alpha2/beta2 heterotetramer [Protein synthesis, tRNA and
rRNA base modification].
Length = 442
Score = 30.9 bits (70), Expect = 1.7
Identities = 25/77 (32%), Positives = 40/77 (51%), Gaps = 12/77 (15%)
Query: 263 FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKT-TTIEKKSMDIEERGVKLR 321
F L +VG +GKS+L+N+L DR + V+D +G T +E D E G+ ++
Sbjct: 204 FKLAIVGSPNVGKSSLLNALLKQ----DRAI--VSDIKGTTRDVVEG---DFELNGILIK 254
Query: 322 LTVVDTPGFGDSINSEE 338
L +DT G + + E
Sbjct: 255 L--LDTAGIREHADFVE 269
>gnl|CDD|224083 COG1161, COG1161, Predicted GTPases [General function prediction
only].
Length = 322
Score = 30.8 bits (70), Expect = 1.7
Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 13/72 (18%)
Query: 258 KKGFDFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERG 317
+ VVG +GKSTL+N L L +KV ++R G T I+
Sbjct: 128 LLKRKIRVGVVGYPNVGKSTLINRL-LG-----KKVAKTSNRPGTTK-------GIQWIK 174
Query: 318 VKLRLTVVDTPG 329
+ + ++DTPG
Sbjct: 175 LDDGIYLLDTPG 186
>gnl|CDD|224041 COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport
system, ATPase component [Inorganic ion transport and
metabolism].
Length = 248
Score = 30.6 bits (70), Expect = 1.8
Identities = 13/25 (52%), Positives = 19/25 (76%), Gaps = 2/25 (8%)
Query: 93 SVKKGFDFTLMVVGESGLGKSTLVN 117
SV+KG +F + ++G SG GKSTL+
Sbjct: 25 SVEKG-EF-VAILGPSGCGKSTLLR 47
Score = 30.6 bits (70), Expect = 1.8
Identities = 13/25 (52%), Positives = 19/25 (76%), Gaps = 2/25 (8%)
Query: 192 SVKKGFDFTLMVVGESGLGKSTLVN 216
SV+KG +F + ++G SG GKSTL+
Sbjct: 25 SVEKG-EF-VAILGPSGCGKSTLLR 47
Score = 30.6 bits (70), Expect = 1.8
Identities = 13/25 (52%), Positives = 19/25 (76%), Gaps = 2/25 (8%)
Query: 256 SVKKGFDFTLMVVGESGLGKSTLVN 280
SV+KG +F + ++G SG GKSTL+
Sbjct: 25 SVEKG-EF-VAILGPSGCGKSTLLR 47
>gnl|CDD|224049 COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport
system, ATPase component [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 252
Score = 30.7 bits (70), Expect = 1.8
Identities = 13/19 (68%), Positives = 14/19 (73%)
Query: 101 TLMVVGESGLGKSTLVNSL 119
TL +VGESG GKSTL L
Sbjct: 35 TLGIVGESGSGKSTLARLL 53
Score = 30.7 bits (70), Expect = 1.8
Identities = 13/19 (68%), Positives = 14/19 (73%)
Query: 200 TLMVVGESGLGKSTLVNSL 218
TL +VGESG GKSTL L
Sbjct: 35 TLGIVGESGSGKSTLARLL 53
Score = 30.7 bits (70), Expect = 1.8
Identities = 13/19 (68%), Positives = 14/19 (73%)
Query: 264 TLMVVGESGLGKSTLVNSL 282
TL +VGESG GKSTL L
Sbjct: 35 TLGIVGESGSGKSTLARLL 53
>gnl|CDD|213220 cd03253, ABCC_ATM1_transporter, ATP-binding cassette domain of
iron-sulfur clusters transporter, subfamily C. ATM1 is
an ABC transporter that is expressed in the
mitochondria. Although the specific function of ATM1 is
unknown, its disruption results in the accumulation of
excess mitochondrial iron, loss of mitochondrial
cytochromes, oxidative damage to mitochondrial DNA, and
decreased levels of cytosolic heme proteins. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. The nucleotide binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 236
Score = 30.7 bits (70), Expect = 1.8
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 10/52 (19%)
Query: 238 IPYSDIGFATLPEQVHRKSVKKGFDFTLM------VVGESGLGKSTLVNSLF 283
I + ++ FA P + V K FT+ +VG SG GKST++ LF
Sbjct: 1 IEFENVTFAYDPG----RPVLKDVSFTIPAGKKVAIVGPSGSGKSTILRLLF 48
Score = 28.4 bits (64), Expect = 9.0
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 6/35 (17%)
Query: 92 KSVKKGFDFTLM------VVGESGLGKSTLVNSLF 120
+ V K FT+ +VG SG GKST++ LF
Sbjct: 14 RPVLKDVSFTIPAGKKVAIVGPSGSGKSTILRLLF 48
Score = 28.4 bits (64), Expect = 9.0
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 6/35 (17%)
Query: 191 KSVKKGFDFTLM------VVGESGLGKSTLVNSLF 219
+ V K FT+ +VG SG GKST++ LF
Sbjct: 14 RPVLKDVSFTIPAGKKVAIVGPSGSGKSTILRLLF 48
>gnl|CDD|237451 PRK13631, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 320
Score = 30.6 bits (69), Expect = 1.8
Identities = 18/90 (20%), Positives = 32/90 (35%), Gaps = 13/90 (14%)
Query: 187 QVHRKSVKKGFDFTL------MVVGESGLGKSTLVNSL--FLSDLYGDRKVPNVNEKGSI 238
Q + +T ++G SG GKSTLV + YG +V ++
Sbjct: 35 QENELVALNNISYTFEKNKIYFIIGNSGSGKSTLVTHFNGLIKSKYGTIQVGDIYIGDKK 94
Query: 239 PYSDIGFATLPEQVH-----RKSVKKGFDF 263
++ +++ R+ V F F
Sbjct: 95 NNHELITNPYSKKIKNFKELRRRVSMVFQF 124
Score = 29.0 bits (65), Expect = 6.7
Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 8/51 (15%)
Query: 88 QVHRKSVKKGFDFTL------MVVGESGLGKSTLVNSL--FLSDLYGDRKV 130
Q + +T ++G SG GKSTLV + YG +V
Sbjct: 35 QENELVALNNISYTFEKNKIYFIIGNSGSGKSTLVTHFNGLIKSKYGTIQV 85
Score = 29.0 bits (65), Expect = 6.7
Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 8/51 (15%)
Query: 251 QVHRKSVKKGFDFTL------MVVGESGLGKSTLVNSL--FLSDLYGDRKV 293
Q + +T ++G SG GKSTLV + YG +V
Sbjct: 35 QENELVALNNISYTFEKNKIYFIIGNSGSGKSTLVTHFNGLIKSKYGTIQV 85
>gnl|CDD|213215 cd03248, ABCC_TAP, ATP-binding cassette domain of the Transporter
Associated with Antigen Processing, subfamily C. TAP
(Transporter Associated with Antigen Processing) is
essential for peptide delivery from the cytosol into the
lumen of the endoplasmic reticulum (ER), where these
peptides are loaded on major histocompatibility complex
(MHC) I molecules. Loaded MHC I leave the ER and display
their antigenic cargo on the cell surface to cytotoxic T
cells. Subsequently, virus-infected or malignantly
transformed cells can be eliminated. TAP belongs to the
large family of ATP-binding cassette (ABC) transporters,
which translocate a vast variety of solutes across
membranes.
Length = 226
Score = 30.1 bits (68), Expect = 2.2
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 8/54 (14%)
Query: 235 KGSIPYSDIGFATLPEQVHRKSVKKGFDFTL------MVVGESGLGKSTLVNSL 282
KG + + ++ FA P + V + FTL +VG SG GKST+V L
Sbjct: 9 KGIVKFQNVTFA-YPTRPDTL-VLQDVSFTLHPGEVTALVGPSGSGKSTVVALL 60
>gnl|CDD|206682 cd01895, EngA2, EngA2 GTPase contains the second domain of EngA.
This EngA2 subfamily CD represents the second GTPase
domain of EngA and its orthologs, which are composed of
two adjacent GTPase domains. Since the sequences of the
two domains are more similar to each other than to other
GTPases, it is likely that an ancient gene duplication,
rather than a fusion of evolutionarily distinct GTPases,
gave rise to this family. Although the exact function of
these proteins has not been elucidated, studies have
revealed that the E. coli EngA homolog, Der, and
Neisseria gonorrhoeae EngA are essential for cell
viability. A recent report suggests that E. coli Der
functions in ribosome assembly and stability.
Length = 174
Score = 29.7 bits (68), Expect = 2.3
Identities = 20/56 (35%), Positives = 29/56 (51%), Gaps = 10/56 (17%)
Query: 274 GKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLTVVDTPG 329
GKS+L+N+L L +R + V+D G TT + + E G K L +DT G
Sbjct: 14 GKSSLLNAL----LGEERVI--VSDIAG--TTRDSIDVPFEYDGQKYTL--IDTAG 59
>gnl|CDD|227321 COG4988, CydD, ABC-type transport system involved in cytochrome bd
biosynthesis, ATPase and permease components [Energy
production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 559
Score = 30.7 bits (70), Expect = 2.4
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 6/30 (20%)
Query: 96 KGFDFTL------MVVGESGLGKSTLVNSL 119
+ T+ +VG SG GKSTL+N L
Sbjct: 338 SDLNLTIKAGQLTALVGASGAGKSTLLNLL 367
Score = 30.7 bits (70), Expect = 2.4
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 6/30 (20%)
Query: 195 KGFDFTL------MVVGESGLGKSTLVNSL 218
+ T+ +VG SG GKSTL+N L
Sbjct: 338 SDLNLTIKAGQLTALVGASGAGKSTLLNLL 367
Score = 30.7 bits (70), Expect = 2.4
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 6/30 (20%)
Query: 259 KGFDFTL------MVVGESGLGKSTLVNSL 282
+ T+ +VG SG GKSTL+N L
Sbjct: 338 SDLNLTIKAGQLTALVGASGAGKSTLLNLL 367
>gnl|CDD|188353 TIGR03608, L_ocin_972_ABC, putative bacteriocin export ABC
transporter, lactococcin 972 group. A gene pair with a
fairly wide distribution consists of a polypeptide
related to the lactococcin 972 (see TIGR01653) and
multiple-membrane-spanning putative immunity protein
(see TIGR01654). This model represents a small clade
within the ABC transporters that regularly are found
adjacent to these bacteriocin system gene pairs and are
likely serve as export proteins [Cellular processes,
Toxin production and resistance, Transport and binding
proteins, Unknown substrate].
Length = 206
Score = 29.9 bits (68), Expect = 2.4
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 88 QVHRKSVKKGFDFTL------MVVGESGLGKSTLVNSLFLSDLYGDRKV 130
+ K + + T+ ++GESG GKSTL+N + L + + +V
Sbjct: 7 KFGDKVILDDLNLTIEKGKMYAIIGESGSGKSTLLNIIGLLEKFDSGQV 55
Score = 29.9 bits (68), Expect = 2.4
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 187 QVHRKSVKKGFDFTL------MVVGESGLGKSTLVNSLFLSDLYGDRKV 229
+ K + + T+ ++GESG GKSTL+N + L + + +V
Sbjct: 7 KFGDKVILDDLNLTIEKGKMYAIIGESGSGKSTLLNIIGLLEKFDSGQV 55
Score = 29.9 bits (68), Expect = 2.4
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 251 QVHRKSVKKGFDFTL------MVVGESGLGKSTLVNSLFLSDLYGDRKV 293
+ K + + T+ ++GESG GKSTL+N + L + + +V
Sbjct: 7 KFGDKVILDDLNLTIEKGKMYAIIGESGSGKSTLLNIIGLLEKFDSGQV 55
>gnl|CDD|222290 pfam13654, AAA_32, AAA domain. This family includes a wide variety
of AAA domains including some that have lost essential
nucleotide binding residues in the P-loop.
Length = 509
Score = 30.5 bits (70), Expect = 2.5
Identities = 10/34 (29%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 99 DFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPN 132
+ + V+GE G G++TLV +L + P+
Sbjct: 30 GYNIFVLGEPGTGRTTLVRR-YLEERAKKEPTPD 62
Score = 30.5 bits (70), Expect = 2.5
Identities = 10/34 (29%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 198 DFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPN 231
+ + V+GE G G++TLV +L + P+
Sbjct: 30 GYNIFVLGEPGTGRTTLVRR-YLEERAKKEPTPD 62
Score = 30.5 bits (70), Expect = 2.5
Identities = 10/34 (29%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 262 DFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPN 295
+ + V+GE G G++TLV +L + P+
Sbjct: 30 GYNIFVLGEPGTGRTTLVRR-YLEERAKKEPTPD 62
>gnl|CDD|179525 PRK03003, PRK03003, GTP-binding protein Der; Reviewed.
Length = 472
Score = 30.3 bits (69), Expect = 2.5
Identities = 27/71 (38%), Positives = 33/71 (46%), Gaps = 20/71 (28%)
Query: 264 TLMVVGESGLGKSTLVNSLFLSDLYGDRK-----VPNVNDRQGKTTTIEKKSMDIEERGV 318
+ VVG +GKSTLVN + G R+ VP V T ++ S D E G
Sbjct: 40 VVAVVGRPNVGKSTLVNRIL-----GRREAVVEDVPGV--------TRDRVSYDAEWNG- 85
Query: 319 KLRLTVVDTPG 329
R TVVDT G
Sbjct: 86 -RRFTVVDTGG 95
>gnl|CDD|225183 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 30.7 bits (70), Expect = 2.5
Identities = 15/77 (19%), Positives = 28/77 (36%), Gaps = 12/77 (15%)
Query: 215 VNSLFLSDLY---GDRKVPNVNEKGSIPYSDIGFATLPEQVHRKSVKKGFDFTLM----- 266
+ + + + +G I + ++ F P+ V + +
Sbjct: 446 LGDILDTPPEQEGDKTLIHLPKLQGEIEFENVSFRYGPDD---PPVLEDLSLEIPPGEKV 502
Query: 267 -VVGESGLGKSTLVNSL 282
+VG SG GKSTL+ L
Sbjct: 503 AIVGRSGSGKSTLLKLL 519
Score = 28.7 bits (65), Expect = 9.0
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 104 VVGESGLGKSTLVNSL 119
+VG SG GKSTL+ L
Sbjct: 504 IVGRSGSGKSTLLKLL 519
Score = 28.7 bits (65), Expect = 9.0
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 203 VVGESGLGKSTLVNSL 218
+VG SG GKSTL+ L
Sbjct: 504 IVGRSGSGKSTLLKLL 519
>gnl|CDD|234193 TIGR03388, ascorbase, L-ascorbate oxidase, plant type. Members of
this protein family are the copper-containing enzyme
L-ascorbate oxidase (EC 1.10.3.3), also called
ascorbase. This family is found in flowering plants, and
shows greater sequence similarity to a family of
laccases (EC 1.10.3.2) from plants than to other known
ascorbate oxidases.
Length = 541
Score = 30.5 bits (69), Expect = 2.5
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 7 FYFKTPSDAPPTPPPRTPKRVRTLPRRNWTSKI 39
+Y +PS PPTPPP TP + ++ I
Sbjct: 297 YYPNSPSRLPPTPPPVTPAWDDFDRSKAFSLAI 329
>gnl|CDD|213834 TIGR03597, GTPase_YqeH, ribosome biogenesis GTPase YqeH. This
family describes YqeH, a member of a larger family of
GTPases involved in ribosome biogenesis. Like YqlF, it
shows a cyclical permutation relative to GTPases EngA
(in which the GTPase domain is duplicated), Era, and
others. Members of this protein family are found in a
relatively small number of bacterial species, including
Bacillus subtilis but not Escherichia coli [Protein
synthesis, Other].
Length = 360
Score = 30.3 bits (69), Expect = 2.5
Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 8/65 (12%)
Query: 266 MVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLTVV 325
VVG + +GKS+L+N L L GD+ V + TT+ D+ E + ++
Sbjct: 158 YVVGVTNVGKSSLINKL-LKQNNGDKDVITTS--PFPGTTL-----DLIEIPLDDGHSLY 209
Query: 326 DTPGF 330
DTPG
Sbjct: 210 DTPGI 214
>gnl|CDD|131577 TIGR02525, plasmid_TraJ, plasmid transfer ATPase TraJ. Members of
this protein family are predicted ATPases associated
with plasmid transfer loci in bacteria. This family is
most similar to the DotB ATPase of a type-IV
secretion-like system of obligate intracellular
pathogens Legionella pneumophila and Coxiella burnetii
(TIGR02524) [Mobile and extrachromosomal element
functions, Plasmid functions].
Length = 372
Score = 30.5 bits (69), Expect = 2.6
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 2/35 (5%)
Query: 266 MVVGESGLGKSTLVNSLF--LSDLYGDRKVPNVND 298
++ GE+G GKSTL S++ + Y DRK+ D
Sbjct: 153 LICGETGSGKSTLAASIYQHCGETYPDRKIVTYED 187
>gnl|CDD|215587 PLN03118, PLN03118, Rab family protein; Provisional.
Length = 211
Score = 30.0 bits (67), Expect = 2.7
Identities = 23/72 (31%), Positives = 39/72 (54%), Gaps = 12/72 (16%)
Query: 260 GFD--FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERG 317
G+D F ++++G+SG+GKS+L+ S S +V D T ++ K + G
Sbjct: 10 GYDLSFKILLIGDSGVGKSSLLVSFISS---------SVED-LAPTIGVDFKIKQLTVGG 59
Query: 318 VKLRLTVVDTPG 329
+L+LT+ DT G
Sbjct: 60 KRLKLTIWDTAG 71
>gnl|CDD|236870 PRK11174, PRK11174, cysteine/glutathione ABC transporter
membrane/ATP-binding component; Reviewed.
Length = 588
Score = 30.2 bits (69), Expect = 2.8
Identities = 11/21 (52%), Positives = 16/21 (76%), Gaps = 2/21 (9%)
Query: 104 VVGESGLGKSTLVNSL--FLS 122
+VG SG GK++L+N+L FL
Sbjct: 381 LVGPSGAGKTSLLNALLGFLP 401
Score = 30.2 bits (69), Expect = 2.8
Identities = 11/21 (52%), Positives = 16/21 (76%), Gaps = 2/21 (9%)
Query: 203 VVGESGLGKSTLVNSL--FLS 221
+VG SG GK++L+N+L FL
Sbjct: 381 LVGPSGAGKTSLLNALLGFLP 401
Score = 30.2 bits (69), Expect = 2.8
Identities = 11/21 (52%), Positives = 16/21 (76%), Gaps = 2/21 (9%)
Query: 267 VVGESGLGKSTLVNSL--FLS 285
+VG SG GK++L+N+L FL
Sbjct: 381 LVGPSGAGKTSLLNALLGFLP 401
>gnl|CDD|130064 TIGR00991, 3a0901s02IAP34, GTP-binding protein (Chloroplast
Envelope Protein Translocase). [Transport and binding
proteins, Nucleosides, purines and pyrimidines].
Length = 313
Score = 29.9 bits (67), Expect = 3.0
Identities = 18/54 (33%), Positives = 30/54 (55%), Gaps = 8/54 (14%)
Query: 173 QTDRDYIGFATLPEQVHRKSVK-----KGFD---FTLMVVGESGLGKSTLVNSL 218
QT R+++G P K ++ K D T++V+G+ G+GKS+ VNS+
Sbjct: 5 QTPREWVGIQQFPPATQTKLLELLGKLKEEDVSSLTILVMGKGGVGKSSTVNSI 58
>gnl|CDD|133377 cd04177, RSR1, RSR1/Bud1p family GTPase. RSR1/Bud1p is a member of
the Rap subfamily of the Ras family that is found in
fungi. In budding yeasts, RSR1 is involved in selecting
a site for bud growth on the cell cortex, which directs
the establishment of cell polarization. The Rho family
GTPase cdc42 and its GEF, cdc24, then establish an axis
of polarized growth by organizing the actin cytoskeleton
and secretory apparatus at the bud site. It is believed
that cdc42 interacts directly with RSR1 in vivo. In
filamentous fungi, polar growth occurs at the tips of
hypha and at novel growth sites along the extending
hypha. In Ashbya gossypii, RSR1 is a key regulator of
hyphal growth, localizing at the tip region and
regulating in apical polarization of the actin
cytoskeleton. Most Ras proteins contain a lipid
modification site at the C-terminus, with a typical
sequence motif CaaX, where a = an aliphatic amino acid
and X = any amino acid. Lipid binding is essential for
membrane attachment, a key feature of most Ras proteins.
Length = 168
Score = 29.4 bits (66), Expect = 3.1
Identities = 18/68 (26%), Positives = 34/68 (50%), Gaps = 10/68 (14%)
Query: 262 DFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLR 321
D+ ++V+G G+GKS L F+ +++ + P + D K I+ + D+E
Sbjct: 1 DYKIVVLGAGGVGKSALTVQ-FVQNVFIESYDPTIEDSYRKQVEIDGRQCDLE------- 52
Query: 322 LTVVDTPG 329
++DT G
Sbjct: 53 --ILDTAG 58
>gnl|CDD|234033 TIGR02857, CydD, thiol reductant ABC exporter, CydD subunit. The
gene pair cydCD encodes an ABC-family transporter in
which each gene contains an N-terminal membrane-spanning
domain (pfam00664) and a C-terminal ATP-binding domain
(pfam00005). In E. coli these genes were discovered as
mutants which caused the terminal heme-copper oxidase
complex cytochrome bd to fail to assemble. Recent work
has shown that the transporter is involved in export of
redox-active thiol compounds such as cysteine and
glutathione. The linkage to assembly of the cytochrome
bd complex is further supported by the conserved operon
structure found outside the gammaproteobacteria
(cydABCD) containing both the transporter and oxidase
genes components. The genes used as the seed members for
this model are all either found in the
gammproteobacterial context or the CydABCD context. All
members of this family scoring above trusted at the time
of its creation were from genomes which encode a
cytochrome bd complex. Unfortunately, the gene symbol
nomenclature adopted based on this operon in B. subtilis
assigns cydC to the third gene in the operon where this
gene is actually homologous to the E. coli cydD gene. We
have chosen to name all homologs in this family in
accordance with the precedence of publication of the E.
coli name, CydD.
Length = 529
Score = 30.3 bits (69), Expect = 3.1
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 6/35 (17%)
Query: 91 RKSVKKGFDFTL------MVVGESGLGKSTLVNSL 119
R+ + FT+ +VG SG GKSTL+N L
Sbjct: 334 RRPALRPVSFTVPPGERVALVGPSGAGKSTLLNLL 368
Score = 30.3 bits (69), Expect = 3.1
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 6/35 (17%)
Query: 190 RKSVKKGFDFTL------MVVGESGLGKSTLVNSL 218
R+ + FT+ +VG SG GKSTL+N L
Sbjct: 334 RRPALRPVSFTVPPGERVALVGPSGAGKSTLLNLL 368
Score = 30.3 bits (69), Expect = 3.1
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 6/35 (17%)
Query: 254 RKSVKKGFDFTL------MVVGESGLGKSTLVNSL 282
R+ + FT+ +VG SG GKSTL+N L
Sbjct: 334 RRPALRPVSFTVPPGERVALVGPSGAGKSTLLNLL 368
>gnl|CDD|213216 cd03249, ABC_MTABC3_MDL1_MDL2, ATP-binding cassette domain of a
mitochondrial protein MTABC3 and related proteins.
MTABC3 (also known as ABCB6) is a mitochondrial
ATP-binding cassette protein involved in iron
homeostasis and one of four ABC transporters expressed
in the mitochondrial inner membrane, the other three
being MDL1(ABC7), MDL2, and ATM1. In fact, the yeast
MDL1 (multidrug resistance-like protein 1) and MDL2
(multidrug resistance-like protein 2) transporters are
also included in this CD. MDL1 is an ATP-dependent
permease that acts as a high-copy suppressor of ATM1 and
is thought to have a role in resistance to oxidative
stress. Interestingly, subfamily B is more closely
related to the carboxyl-terminal component of subfamily
C than the two halves of ABCC molecules are with one
another.
Length = 238
Score = 29.8 bits (68), Expect = 3.1
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 12/53 (22%)
Query: 238 IPYSDIGFA--TLPEQVHRKSVKKGFDF------TLMVVGESGLGKSTLVNSL 282
I + ++ F + P+ + KG T+ +VG SG GKST+V+ L
Sbjct: 1 IEFKNVSFRYPSRPDV----PILKGLSLTIPPGKTVALVGSSGCGKSTVVSLL 49
Score = 29.0 bits (66), Expect = 4.7
Identities = 15/37 (40%), Positives = 19/37 (51%), Gaps = 8/37 (21%)
Query: 91 RKSVK--KGFDF------TLMVVGESGLGKSTLVNSL 119
R V KG T+ +VG SG GKST+V+ L
Sbjct: 13 RPDVPILKGLSLTIPPGKTVALVGSSGCGKSTVVSLL 49
Score = 29.0 bits (66), Expect = 4.7
Identities = 15/37 (40%), Positives = 19/37 (51%), Gaps = 8/37 (21%)
Query: 190 RKSVK--KGFDF------TLMVVGESGLGKSTLVNSL 218
R V KG T+ +VG SG GKST+V+ L
Sbjct: 13 RPDVPILKGLSLTIPPGKTVALVGSSGCGKSTVVSLL 49
>gnl|CDD|223561 COG0486, ThdF, Predicted GTPase [General function prediction only].
Length = 454
Score = 30.2 bits (69), Expect = 3.2
Identities = 26/69 (37%), Positives = 38/69 (55%), Gaps = 14/69 (20%)
Query: 263 FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTT--TIEKKSMDIEERGVKL 320
++++G +GKS+L+N+L L DR + V D G TT IE+ DI G+ +
Sbjct: 218 LKVVIIGRPNVGKSSLLNAL----LGRDRAI--VTDIAG-TTRDVIEE---DINLNGIPV 267
Query: 321 RLTVVDTPG 329
RL VDT G
Sbjct: 268 RL--VDTAG 274
>gnl|CDD|216584 pfam01580, FtsK_SpoIIIE, FtsK/SpoIIIE family. FtsK has extensive
sequence similarity to wide variety of proteins from
prokaryotes and plasmids, termed the FtsK/SpoIIIE
family. This domain contains a putative ATP binding
P-loop motif. It is found in the FtsK cell division
protein from E. coli and the stage III sporulation
protein E SpoIIIE, which has roles in regulation of
prespore specific gene expression in B. subtilis. A
mutation in FtsK causes a temperature sensitive block in
cell division and it is involved in peptidoglycan
synthesis or modification. The SpoIIIE protein is
implicated in intercellular chromosomal DNA transfer.
Length = 201
Score = 29.7 bits (67), Expect = 3.3
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 102 LMVVGESGLGKSTLVNSLFLSDLY 125
L++ G +G GKST +N+L LS
Sbjct: 41 LLIAGATGSGKSTFLNTLILSLAA 64
Score = 29.7 bits (67), Expect = 3.3
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 201 LMVVGESGLGKSTLVNSLFLSDLY 224
L++ G +G GKST +N+L LS
Sbjct: 41 LLIAGATGSGKSTFLNTLILSLAA 64
Score = 29.7 bits (67), Expect = 3.3
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 265 LMVVGESGLGKSTLVNSLFLSDLY 288
L++ G +G GKST +N+L LS
Sbjct: 41 LLIAGATGSGKSTFLNTLILSLAA 64
>gnl|CDD|225438 COG2884, FtsE, Predicted ATPase involved in cell division [Cell
division and chromosome partitioning].
Length = 223
Score = 29.5 bits (67), Expect = 3.3
Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 16/71 (22%)
Query: 93 SVKKG-FDFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNGSNTVIEVAGTKVRGRQ 151
+ KG F F + G SG GKSTL+ ++ + K+ VNG + ++++GR+
Sbjct: 24 HIPKGEFVF---LTGPSGAGKSTLLKLIYGEERPTRGKI-LVNGHDL------SRLKGRE 73
Query: 152 YPW-----GVV 157
P+ GVV
Sbjct: 74 IPFLRRQIGVV 84
>gnl|CDD|227590 COG5265, ATM1, ABC-type transport system involved in Fe-S cluster
assembly, permease and ATPase components
[Posttranslational modification, protein turnover,
chaperones].
Length = 497
Score = 30.0 bits (68), Expect = 3.3
Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 10/55 (18%)
Query: 235 KGSIPYSDIGFATLPEQVHRKSVKKGFDF------TLMVVGESGLGKSTLVNSLF 283
G++ + ++ FA P R+ + G F T+ +VGESG GKST++ LF
Sbjct: 260 LGAVAFINVSFAYDP----RRPILNGISFTIPLGKTVAIVGESGAGKSTILRLLF 310
>gnl|CDD|213200 cd03233, ABCG_PDR_domain1, First domain of the pleiotropic drug
resistance-like subfamily G of ATP-binding cassette
transporters. The pleiotropic drug resistance (PDR) is
a well-described phenomenon occurring in fungi and
shares several similarities with processes in bacteria
and higher eukaryotes. This PDR subfamily represents
domain I of its (ABC-IM)2 organization. ABC transporters
are a large family of proteins involved in the transport
of a wide variety of different compounds including
sugars, ions, peptides, and more complex organic
molecules. The nucleotide-binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 202
Score = 29.5 bits (67), Expect = 3.5
Identities = 19/81 (23%), Positives = 35/81 (43%), Gaps = 12/81 (14%)
Query: 183 TLPEQVHRKSVKKGFDFT------LMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNEKG 236
T + + + K F ++V+G G G STL+ +L +R NV+ +G
Sbjct: 12 TTGKGRSKIPILKDFSGVVKPGEMVLVLGRPGSGCSTLLKAL------ANRTEGNVSVEG 65
Query: 237 SIPYSDIGFATLPEQVHRKSV 257
I Y+ I + E+ + +
Sbjct: 66 DIHYNGIPYKEFAEKYPGEII 86
>gnl|CDD|206714 cd04147, Ras_dva, Ras - dorsal-ventral anterior localization
(Ras-dva) family. Ras-dva subfamily. Ras-dva (Ras -
dorsal-ventral anterior localization) subfamily consists
of a set of proteins characterized only in Xenopus
leavis, to date. In Xenopus Ras-dva expression is
activated by the transcription factor Otx2 and begins
during gastrulation throughout the anterior ectoderm.
Ras-dva expression is inhibited in the anterior neural
plate by factor Xanf1. Downregulation of Ras-dva results
in head development abnormalities through the inhibition
of several regulators of the anterior neural plate and
folds patterning, including Otx2, BF-1, Xag2, Pax6,
Slug, and Sox9. Downregulation of Ras-dva also
interferes with the FGF-8a signaling within the anterior
ectoderm. Most Ras proteins contain a lipid modification
site at the C-terminus, with a typical sequence motif
CaaX, where a = an aliphatic amino acid and X = any
amino acid. Lipid binding is essential for membrane
attachment, a key feature of most Ras proteins.
Length = 197
Score = 29.4 bits (66), Expect = 3.5
Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 10/65 (15%)
Query: 265 LMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLTV 324
L+ +G +G+GK+ L+ FL D + + + T E S + E GVK+ + +
Sbjct: 2 LVFMGAAGVGKTALIQR-FLYDTFEPKH---------RRTVEELHSKEYEVAGVKVTIDI 51
Query: 325 VDTPG 329
+DT G
Sbjct: 52 LDTSG 56
>gnl|CDD|237186 PRK12740, PRK12740, elongation factor G; Reviewed.
Length = 668
Score = 30.1 bits (69), Expect = 3.5
Identities = 25/83 (30%), Positives = 35/83 (42%), Gaps = 29/83 (34%)
Query: 268 VGESGLGKSTLVNS-LFLSDLYGDRKVPNVNDRQG----KTTTIEKKSMDIE-ERGV--- 318
VG SG GK+TL + LF + R G TTT++ M E ERG+
Sbjct: 1 VGHSGAGKTTLTEAILFYT---------GAIHRIGEVEDGTTTMD--FMPEERERGISIT 49
Query: 319 ---------KLRLTVVDTPGFGD 332
++ ++DTPG D
Sbjct: 50 SAATTCEWKGHKINLIDTPGHVD 72
>gnl|CDD|227254 COG4917, EutP, Ethanolamine utilization protein [Amino acid
transport and metabolism].
Length = 148
Score = 29.1 bits (65), Expect = 3.6
Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 12/54 (22%)
Query: 265 LMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKS-MDIEERG 317
+ VG+ G GK+TL S LYG+ + KT +E DI+ G
Sbjct: 4 IAFVGQVGCGKTTLFQS-----LYGNDTLYK------KTQAVEFNDKGDIDTPG 46
Score = 28.3 bits (63), Expect = 5.5
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 201 LMVVGESGLGKSTLVNSLFLSD-LYGDRKVPNVNEKGSI 238
+ VG+ G GK+TL SL+ +D LY + N+KG I
Sbjct: 4 IAFVGQVGCGKTTLFQSLYGNDTLYKKTQAVEFNDKGDI 42
>gnl|CDD|234734 PRK00349, uvrA, excinuclease ABC subunit A; Reviewed.
Length = 943
Score = 30.0 bits (69), Expect = 3.6
Identities = 15/32 (46%), Positives = 17/32 (53%), Gaps = 4/32 (12%)
Query: 104 VVGESGLGKSTLVNSLFL----SDLYGDRKVP 131
V G SG GKSTL+N L G +KVP
Sbjct: 640 VTGVSGSGKSTLINETLYKALARKLNGAKKVP 671
Score = 30.0 bits (69), Expect = 3.6
Identities = 15/32 (46%), Positives = 17/32 (53%), Gaps = 4/32 (12%)
Query: 203 VVGESGLGKSTLVNSLFL----SDLYGDRKVP 230
V G SG GKSTL+N L G +KVP
Sbjct: 640 VTGVSGSGKSTLINETLYKALARKLNGAKKVP 671
Score = 30.0 bits (69), Expect = 3.6
Identities = 15/32 (46%), Positives = 17/32 (53%), Gaps = 4/32 (12%)
Query: 267 VVGESGLGKSTLVNSLFL----SDLYGDRKVP 294
V G SG GKSTL+N L G +KVP
Sbjct: 640 VTGVSGSGKSTLINETLYKALARKLNGAKKVP 671
>gnl|CDD|234141 TIGR03185, DNA_S_dndD, DNA sulfur modification protein DndD. This
model describes the DndB protein encoded by an operon
associated with a sulfur-containing modification to DNA.
The operon is sporadically distributed in bacteria, much
like some restriction enzyme operons. DndD is described
as a putative ATPase. The small number of examples known
so far include species from among the Firmicutes,
Actinomycetes, Proteobacteria, and Cyanobacteria [DNA
metabolism, Restriction/modification].
Length = 650
Score = 30.0 bits (68), Expect = 3.7
Identities = 23/97 (23%), Positives = 42/97 (43%), Gaps = 12/97 (12%)
Query: 269 GESGLGKSTLVNSLFLSDLYGDR----KVPNVNDRQGKTTTIEKKSMDIEERGVKLRLTV 324
G +G GK+TL++++ L+ LYG R N + Q I +++ + L +V
Sbjct: 35 GLNGAGKTTLLDAIQLA-LYGKRALCSGRGNKSYEQYLRGLINRQAGKTNPASITLTFSV 93
Query: 325 VDTPGFGDSINS---EESWRACCSYIDDQFRQYFNDE 358
V+ G + SW + ++ Y +DE
Sbjct: 94 VE----GGKRHEYTLVRSWHINNKDVKEKLTVYKDDE 126
>gnl|CDD|129528 TIGR00436, era, GTP-binding protein Era. Era is an essential
GTPase in Escherichia coli and many other bacteria. It
plays a role in ribosome biogenesis. Few bacteria lack
this protein [Protein synthesis, Other].
Length = 270
Score = 29.7 bits (67), Expect = 3.8
Identities = 17/66 (25%), Positives = 25/66 (37%), Gaps = 14/66 (21%)
Query: 267 VVGESGLGKSTLVNSLFLSDLYGDRKVPNV--NDRQGKTTTIEKKSMDIEERGVKLRLTV 324
++G +GKSTL+N L + N G TT + +
Sbjct: 5 ILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTGASQ------------IIF 52
Query: 325 VDTPGF 330
+DTPGF
Sbjct: 53 IDTPGF 58
>gnl|CDD|213260 cd03293, ABC_NrtD_SsuB_transporters, ATP-binding cassette domain of
the nitrate and sulfonate transporters. NrtD and SsuB
are the ATP-binding subunits of the bacterial ABC-type
nitrate and sulfonate transport systems, respectively.
ABC transporters are a large family of proteins involved
in the transport of a wide variety of different
compounds, like sugars, ions, peptides, and more complex
organic molecules. The nucleotide binding domain shows
the highest similarity between all members of the
family. ABC transporters are a subset of nucleotide
hydrolases that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 220
Score = 29.4 bits (67), Expect = 3.9
Identities = 13/25 (52%), Positives = 19/25 (76%), Gaps = 2/25 (8%)
Query: 93 SVKKGFDFTLMVVGESGLGKSTLVN 117
SV++G +F + +VG SG GKSTL+
Sbjct: 26 SVEEG-EF-VALVGPSGCGKSTLLR 48
Score = 29.4 bits (67), Expect = 3.9
Identities = 13/25 (52%), Positives = 19/25 (76%), Gaps = 2/25 (8%)
Query: 192 SVKKGFDFTLMVVGESGLGKSTLVN 216
SV++G +F + +VG SG GKSTL+
Sbjct: 26 SVEEG-EF-VALVGPSGCGKSTLLR 48
Score = 29.4 bits (67), Expect = 3.9
Identities = 13/25 (52%), Positives = 19/25 (76%), Gaps = 2/25 (8%)
Query: 256 SVKKGFDFTLMVVGESGLGKSTLVN 280
SV++G +F + +VG SG GKSTL+
Sbjct: 26 SVEEG-EF-VALVGPSGCGKSTLLR 48
>gnl|CDD|222036 pfam13304, AAA_21, AAA domain.
Length = 256
Score = 29.3 bits (65), Expect = 4.0
Identities = 27/192 (14%), Positives = 58/192 (30%), Gaps = 21/192 (10%)
Query: 267 VVGESGLGKSTLVNSLFL-------------SDLYGDRKVPNVNDRQGKTTTIEKKSMDI 313
++G +G GKS L+ +L L G + +P + D +E + +
Sbjct: 4 IIGPNGSGKSNLLKALALLLLLLSLGLTLDRGLNVGIKLLPFLLDENEIEIPLEFEIEEF 63
Query: 314 EERGVKLRLTVVDTPGFGDSINSEESWRACCSYIDDQFRQYFNDENRQGKTTTIEKKSMD 373
G++ R + E ++ + + K+ +++
Sbjct: 64 LIDGIRYRYGFELDKE-----DILEELLYEYRKGEELLFERERSKESFEKSPEKKRELRG 118
Query: 374 IEERGVKLRLTVVDTPGFGDSINSEESWRACCSYIDDQFRQYFNDESGLNRKNIVDNRFA 433
+ E + L L++ S+ S S+I R L ++V F
Sbjct: 119 LREVLLLLNLSLSS-FLLLASLEILLSILLPFSFILGNLR--NLRNIELKLLDLVKRLFL 175
Query: 434 TNRHRNNAPTPS 445
+
Sbjct: 176 ESDLLRLLKLLI 187
>gnl|CDD|206715 cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfamily of Ras
GTPases. RGK subfamily. The RGK (Rem, Rem2, Rad,
Gem/Kir) subfamily of Ras GTPases are expressed in a
tissue-specific manner and are dynamically regulated by
transcriptional and posttranscriptional mechanisms in
response to environmental cues. RGK proteins bind to the
beta subunit of L-type calcium channels, causing
functional down-regulation of these voltage-dependent
calcium channels, and either termination of
calcium-dependent secretion or modulation of electrical
conduction and contractile function. Inhibition of
L-type calcium channels by Rem2 may provide a mechanism
for modulating calcium-triggered exocytosis in
hormone-secreting cells, and has been proposed to
influence the secretion of insulin in pancreatic beta
cells. RGK proteins also interact with and inhibit the
Rho/Rho kinase pathway to modulate remodeling of the
cytoskeleton. Two characteristics of RGK proteins cited
in the literature are N-terminal and C-terminal
extensions beyond the GTPase domain typical of Ras
superfamily members. The N-terminal extension is not
conserved among family members; the C-terminal extension
is reported to be conserved among the family and lack
the CaaX prenylation motif typical of
membrane-associated Ras proteins. However, a putative
CaaX motif has been identified in the alignment of the
C-terminal residues of this CD.
Length = 219
Score = 29.3 bits (66), Expect = 4.1
Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 9/77 (11%)
Query: 263 FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRL 322
+ ++++G+SG+GKS+L N F + +Y D D + T S+D EE L
Sbjct: 1 YRVVLLGDSGVGKSSLANI-FTAGVYEDSAYEASGDDTYERTV----SVDGEEA----TL 51
Query: 323 TVVDTPGFGDSINSEES 339
V D D + E+S
Sbjct: 52 VVYDHWEQEDGMWLEDS 68
>gnl|CDD|200384 TIGR04133, rSAM_w_lipo, radical SAM enzyme, rSAM/lipoprotein
system. Members of this protein family are radical SAM
enzymes with an additional 4Fe4S cluster-binding
C-terminal domain (TIGR04085) shared with PqqE and many
other peptide and protein-modifying radical SAM enzymes.
All members occur in the context of a predicted
lipoprotein that usually is encoded by an adjacent gene.
Length = 350
Score = 29.7 bits (67), Expect = 4.1
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 140 IEVAGTKVRGRQYPWGVVEGSTVLTPSLIGSL 171
+E G ++ R YPWG+V LT + SL
Sbjct: 90 LEEIGRELYRRGYPWGMVTNGLALTEERLTSL 121
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 30.0 bits (68), Expect = 4.3
Identities = 9/18 (50%), Positives = 15/18 (83%)
Query: 102 LMVVGESGLGKSTLVNSL 119
L++ GESG GK++L+ +L
Sbjct: 422 LLITGESGAGKTSLLRAL 439
Score = 30.0 bits (68), Expect = 4.3
Identities = 9/18 (50%), Positives = 15/18 (83%)
Query: 201 LMVVGESGLGKSTLVNSL 218
L++ GESG GK++L+ +L
Sbjct: 422 LLITGESGAGKTSLLRAL 439
Score = 30.0 bits (68), Expect = 4.3
Identities = 9/18 (50%), Positives = 15/18 (83%)
Query: 265 LMVVGESGLGKSTLVNSL 282
L++ GESG GK++L+ +L
Sbjct: 422 LLITGESGAGKTSLLRAL 439
>gnl|CDD|224588 COG1674, FtsK, DNA segregation ATPase FtsK/SpoIIIE and related
proteins [Cell division and chromosome partitioning].
Length = 858
Score = 29.8 bits (67), Expect = 4.7
Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 6/58 (10%)
Query: 76 DRDYIGFATLPEQVHRKSVKKGFDFT----LMVVGESGLGKSTLVNSLFLSDLYGDRK 129
+R +G LP+ + ++ + D L++ G +G GKS +N++ LS LY
Sbjct: 505 ERFPLGVIDLPKDIRQEPIV--IDLAKAGHLLIAGATGSGKSVALNTMILSLLYTHSP 560
Score = 29.8 bits (67), Expect = 4.7
Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 6/58 (10%)
Query: 175 DRDYIGFATLPEQVHRKSVKKGFDFT----LMVVGESGLGKSTLVNSLFLSDLYGDRK 228
+R +G LP+ + ++ + D L++ G +G GKS +N++ LS LY
Sbjct: 505 ERFPLGVIDLPKDIRQEPIV--IDLAKAGHLLIAGATGSGKSVALNTMILSLLYTHSP 560
Score = 29.0 bits (65), Expect = 6.8
Identities = 18/78 (23%), Positives = 27/78 (34%), Gaps = 14/78 (17%)
Query: 219 FLSDLYGDRKVPNVNEKGSIPYSDIGFATLPEQVHRKSVKKGFDFT----LMVVGESGLG 274
L +L + G I D+ Q D L++ G +G G
Sbjct: 493 PLRELLDLDEFLERFPLGVI---DLPKD--IRQEPIV-----IDLAKAGHLLIAGATGSG 542
Query: 275 KSTLVNSLFLSDLYGDRK 292
KS +N++ LS LY
Sbjct: 543 KSVALNTMILSLLYTHSP 560
>gnl|CDD|213183 cd03216, ABC_Carb_Monos_I, First domain of the ATP-binding cassette
component of monosaccharide transport system. This
family represents the domain I of the carbohydrate
uptake proteins that transport only monosaccharides
(Monos). The Carb_Monos family is involved in the uptake
of monosaccharides, such as pentoses (such as xylose,
arabinose, and ribose) and hexoses (such as xylose,
arabinose, and ribose), that cannot be broken down to
simple sugars by hydrolysis. Pentoses include xylose,
arabinose, and ribose. Important hexoses include
glucose, galactose, and fructose. In members of the
Carb_monos family, the single hydrophobic gene product
forms a homodimer while the ABC protein represents a
fusion of two nucleotide-binding domains. However, it is
assumed that two copies of the ABC domains are present
in the assembled transporter.
Length = 163
Score = 28.5 bits (65), Expect = 4.8
Identities = 10/31 (32%), Positives = 16/31 (51%), Gaps = 6/31 (19%)
Query: 96 KGFDFTLM------VVGESGLGKSTLVNSLF 120
G ++ ++GE+G GKSTL+ L
Sbjct: 17 DGVSLSVRRGEVHALLGENGAGKSTLMKILS 47
Score = 28.5 bits (65), Expect = 4.8
Identities = 10/31 (32%), Positives = 16/31 (51%), Gaps = 6/31 (19%)
Query: 195 KGFDFTLM------VVGESGLGKSTLVNSLF 219
G ++ ++GE+G GKSTL+ L
Sbjct: 17 DGVSLSVRRGEVHALLGENGAGKSTLMKILS 47
Score = 28.5 bits (65), Expect = 4.8
Identities = 10/31 (32%), Positives = 16/31 (51%), Gaps = 6/31 (19%)
Query: 259 KGFDFTLM------VVGESGLGKSTLVNSLF 283
G ++ ++GE+G GKSTL+ L
Sbjct: 17 DGVSLSVRRGEVHALLGENGAGKSTLMKILS 47
>gnl|CDD|237894 PRK15064, PRK15064, ABC transporter ATP-binding protein;
Provisional.
Length = 530
Score = 29.5 bits (67), Expect = 5.1
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 21/75 (28%)
Query: 186 EQVHR-----KSVKKGFD-------FTLMV--------VGESGLGKSTLVNSLFLSDLYG 225
+++HR +++ KGFD L++ +GE+G+GK+TL+ +L + +L
Sbjct: 313 KKLHRNALEVENLTKGFDNGPLFKNLNLLLEAGERLAIIGENGVGKTTLLRTL-VGELEP 371
Query: 226 DRKVPNVNEKGSIPY 240
D +E +I Y
Sbjct: 372 DSGTVKWSENANIGY 386
Score = 28.7 bits (65), Expect = 8.8
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 20/53 (37%)
Query: 87 EQVHR-----KSVKKGFD-------FTLMV--------VGESGLGKSTLVNSL 119
+++HR +++ KGFD L++ +GE+G+GK+TL+ +L
Sbjct: 313 KKLHRNALEVENLTKGFDNGPLFKNLNLLLEAGERLAIIGENGVGKTTLLRTL 365
Score = 28.7 bits (65), Expect = 8.8
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 20/53 (37%)
Query: 250 EQVHR-----KSVKKGFD-------FTLMV--------VGESGLGKSTLVNSL 282
+++HR +++ KGFD L++ +GE+G+GK+TL+ +L
Sbjct: 313 KKLHRNALEVENLTKGFDNGPLFKNLNLLLEAGERLAIIGENGVGKTTLLRTL 365
>gnl|CDD|184214 PRK13657, PRK13657, cyclic beta-1,2-glucan ABC transporter;
Provisional.
Length = 588
Score = 29.5 bits (67), Expect = 5.2
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 12/42 (28%)
Query: 241 SDIGFATLPEQVHRKSVKKGFDFTLMVVGESGLGKSTLVNSL 282
D+ F P Q T+ +VG +G GKSTL+N L
Sbjct: 352 EDVSFEAKPGQ------------TVAIVGPTGAGKSTLINLL 381
>gnl|CDD|206647 cd00881, GTP_translation_factor, GTP translation factor family
primarily contains translation initiation, elongation
and release factors. The GTP translation factor family
consists primarily of translation initiation,
elongation, and release factors, which play specific
roles in protein translation. In addition, the family
includes Snu114p, a component of the U5 small nuclear
riboprotein particle which is a component of the
spliceosome and is involved in excision of introns,
TetM, a tetracycline resistance gene that protects the
ribosome from tetracycline binding, and the unusual
subfamily CysN/ATPS, which has an unrelated function
(ATP sulfurylase) acquired through lateral transfer of
the EF1-alpha gene and development of a new function.
Length = 183
Score = 28.8 bits (65), Expect = 5.2
Identities = 21/80 (26%), Positives = 29/80 (36%), Gaps = 19/80 (23%)
Query: 267 VVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGV-------- 318
V+G GK+TL SL L + + T E+ ERG+
Sbjct: 4 VIGHVDHGKTTLTGSL-LYQTGAIDRRGTRKETFLDTLKEER------ERGITIKTGVVE 56
Query: 319 ----KLRLTVVDTPGFGDSI 334
K R+ +DTPG D
Sbjct: 57 FEWPKRRINFIDTPGHEDFS 76
>gnl|CDD|226643 COG4175, ProV, ABC-type proline/glycine betaine transport system,
ATPase component [Amino acid transport and metabolism].
Length = 386
Score = 29.3 bits (66), Expect = 5.3
Identities = 23/83 (27%), Positives = 37/83 (44%), Gaps = 9/83 (10%)
Query: 256 SVKKGFDFTLMVVGESGLGKSTLV---NSLFLSD----LYGDRKVPNVNDRQGKTTTIEK 308
V++G F +M G SG GKSTLV N L L + + ++ + + +K
Sbjct: 50 DVEEGEIFVIM--GLSGSGKSTLVRLLNRLIEPTRGEILVDGKDIAKLSAAELRELRRKK 107
Query: 309 KSMDIEERGVKLRLTVVDTPGFG 331
SM + + TV++ FG
Sbjct: 108 ISMVFQSFALLPHRTVLENVAFG 130
>gnl|CDD|222307 pfam13671, AAA_33, AAA domain. This family of domains contain only
a P-loop motif, that is characteristic of the AAA
superfamily. Many of the proteins in this family are
just short fragments so there is no Walker B motif.
Length = 143
Score = 28.4 bits (64), Expect = 5.4
Identities = 14/77 (18%), Positives = 21/77 (27%), Gaps = 13/77 (16%)
Query: 265 LMVVGESGLGKSTLVNSLFL--------SDLYGDRKVPNVNDRQGKTTTIEKKSMDIEER 316
+++VG G GKST L SD R + +
Sbjct: 2 ILMVGLPGSGKSTFARRLLRELGAVVLSSDTLRKRLRGDGPPDISYYARASGRVYQRLLE 61
Query: 317 GVKLRL-----TVVDTP 328
+ L +VD
Sbjct: 62 LAREALRAGRPVIVDAT 78
>gnl|CDD|215640 PLN03232, PLN03232, ABC transporter C family member; Provisional.
Length = 1495
Score = 29.6 bits (66), Expect = 5.5
Identities = 20/61 (32%), Positives = 31/61 (50%), Gaps = 3/61 (4%)
Query: 226 DRKVPNVNEKGSIPYSDIGF---ATLPEQVHRKSVKKGFDFTLMVVGESGLGKSTLVNSL 282
+R V +GSI + D+ LP +H S + VVG +G GKS+++N+L
Sbjct: 1223 NRPVSGWPSRGSIKFEDVHLRYRPGLPPVLHGLSFFVSPSEKVGVVGRTGAGKSSMLNAL 1282
Query: 283 F 283
F
Sbjct: 1283 F 1283
>gnl|CDD|133345 cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3. The
M-Ras/R-Ras-like subfamily contains R-Ras2/TC21,
M-Ras/R-Ras3, and related members of the Ras family.
M-Ras is expressed in lympho-hematopoetic cells. It
interacts with some of the known Ras effectors, but
appears to also have its own effectors. Expression of
mutated M-Ras leads to transformation of several types
of cell lines, including hematopoietic cells, mammary
epithelial cells, and fibroblasts. Overexpression of
M-Ras is observed in carcinomas from breast, uterus,
thyroid, stomach, colon, kidney, lung, and rectum. In
addition, expression of a constitutively active M-Ras
mutant in murine bone marrow induces a malignant mast
cell leukemia that is distinct from the monocytic
leukemia induced by H-Ras. TC21, along with H-Ras, has
been shown to regulate the branching morphogenesis of
ureteric bud cell branching in mice. Most Ras proteins
contain a lipid modification site at the C-terminus,
with a typical sequence motif CaaX, where a = an
aliphatic amino acid and X = any amino acid. Lipid
binding is essential for membrane attachment, a key
feature of most Ras proteins. Due to the presence of
truncated sequences in this CD, the lipid modification
site is not available for annotation.
Length = 164
Score = 28.5 bits (64), Expect = 5.7
Identities = 23/71 (32%), Positives = 33/71 (46%), Gaps = 18/71 (25%)
Query: 263 FTLMVVGESGLGKSTL----VNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGV 318
+ L+VVG G+GKS L + S F++D Y P + D K I+ G
Sbjct: 3 YKLVVVGGGGVGKSALTIQFIQSYFVTD-YD----PTIEDSYTKQCEID---------GQ 48
Query: 319 KLRLTVVDTPG 329
RL ++DT G
Sbjct: 49 WARLDILDTAG 59
>gnl|CDD|234395 TIGR03918, GTP_HydF, [FeFe] hydrogenase H-cluster maturation GTPase
HydF. This model describes the family of the [Fe]
hydrogenase maturation protein HypF as characterized in
Chlamydomonas reinhardtii and found, in an operon with
radical SAM proteins HydE and HydG, in numerous
bacteria. It has GTPase activity, can bind an 4Fe-4S
cluster, and is essential for hydrogenase activity
[Protein fate, Protein modification and repair].
Length = 391
Score = 29.4 bits (67), Expect = 5.8
Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 11/60 (18%)
Query: 274 GKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERG-VKLRLTVVDTPGFGD 332
GKS+L+N+L D + V+D G TT K+M++ G V ++DT G D
Sbjct: 18 GKSSLINALTGQD------IAIVSDVPGTTTDPVYKAMELLPLGPV----VLIDTAGLDD 67
>gnl|CDD|215653 pfam00009, GTP_EFTU, Elongation factor Tu GTP binding domain. This
domain contains a P-loop motif, also found in several
other families such as pfam00071, pfam00025 and
pfam00063. Elongation factor Tu consists of three
structural domains, this plus two C-terminal beta barrel
domains.
Length = 184
Score = 28.6 bits (65), Expect = 5.9
Identities = 15/69 (21%), Positives = 25/69 (36%), Gaps = 21/69 (30%)
Query: 274 GKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIE-ERGV------------KL 320
GK+TL ++L V ++ + E ERG+ K
Sbjct: 15 GKTTLTDAL--------LYVTGAISKESAKGARVLDKLKEERERGITIKIAAVSFETKKR 66
Query: 321 RLTVVDTPG 329
+ ++DTPG
Sbjct: 67 LINIIDTPG 75
>gnl|CDD|213265 cd03298, ABC_ThiQ_thiamine_transporter, ATP-binding cassette domain
of the thiamine transport system. Part of the
binding-protein-dependent transport system tbpA-thiPQ
for thiamine and TPP. Probably responsible for the
translocation of thiamine across the membrane. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. The nucleotide binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 211
Score = 28.6 bits (64), Expect = 6.0
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 104 VVGESGLGKSTLVN 117
+VG SG GKSTL+N
Sbjct: 29 IVGPSGSGKSTLLN 42
Score = 28.6 bits (64), Expect = 6.0
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 203 VVGESGLGKSTLVN 216
+VG SG GKSTL+N
Sbjct: 29 IVGPSGSGKSTLLN 42
Score = 28.6 bits (64), Expect = 6.0
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 267 VVGESGLGKSTLVN 280
+VG SG GKSTL+N
Sbjct: 29 IVGPSGSGKSTLLN 42
>gnl|CDD|236865 PRK11160, PRK11160, cysteine/glutathione ABC transporter
membrane/ATP-binding component; Reviewed.
Length = 574
Score = 29.4 bits (67), Expect = 6.0
Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 9/57 (15%)
Query: 232 VNEKGSIPYSDIGFATLPEQVHRKSVKKGFDFTLM------VVGESGLGKSTLVNSL 282
++ S+ +++ F T P+Q V KG + ++G +G GKSTL+ L
Sbjct: 333 AADQVSLTLNNVSF-TYPDQPQ--PVLKGLSLQIKAGEKVALLGRTGCGKSTLLQLL 386
>gnl|CDD|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30). Rab30 subfamily.
Rab30 appears to be associated with the Golgi stack. It
is expressed in a wide variety of tissue types and in
humans maps to chromosome 11. GTPase activating proteins
(GAPs) interact with GTP-bound Rab and accelerate the
hydrolysis of GTP to GDP. Guanine nucleotide exchange
factors (GEFs) interact with GDP-bound Rabs to promote
the formation of the GTP-bound state. Rabs are further
regulated by guanine nucleotide dissociation inhibitors
(GDIs), which facilitate Rab recycling by masking
C-terminal lipid binding and promoting cytosolic
localization. Most Rab GTPases contain a lipid
modification site at the C-terminus, with sequence
motifs CC, CXC, or CCX. Lipid binding is essential for
membrane attachment, a key feature of most Rab proteins.
Due to the presence of truncated sequences in this CD,
the lipid modification site is not available for
annotation.
Length = 169
Score = 28.3 bits (63), Expect = 6.2
Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 9/69 (13%)
Query: 261 FDFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKL 320
F F ++++G +G+GK+ LV F L+ P QG T ++ +E +G K+
Sbjct: 6 FLFKIVLIGNAGVGKTCLVRR-FTQGLFP----PG----QGATIGVDFMIKTVEIKGEKI 56
Query: 321 RLTVVDTPG 329
+L + DT G
Sbjct: 57 KLQIWDTAG 65
>gnl|CDD|238984 cd02026, PRK, Phosphoribulokinase (PRK) is an enzyme involved in
the Benson-Calvin cycle in chloroplasts or
photosynthetic prokaryotes. This enzyme catalyzes the
phosphorylation of D-ribulose 5-phosphate to form
D-ribulose 1, 5-biphosphate, using ATP and NADPH
produced by the primary reactions of photosynthesis.
Length = 273
Score = 28.8 bits (65), Expect = 6.4
Identities = 14/24 (58%), Positives = 16/24 (66%), Gaps = 3/24 (12%)
Query: 104 VVGESGLGKSTL---VNSLFLSDL 124
V G+SG GKST + SLF SDL
Sbjct: 4 VAGDSGCGKSTFLRRLTSLFGSDL 27
Score = 28.8 bits (65), Expect = 6.4
Identities = 14/24 (58%), Positives = 16/24 (66%), Gaps = 3/24 (12%)
Query: 203 VVGESGLGKSTL---VNSLFLSDL 223
V G+SG GKST + SLF SDL
Sbjct: 4 VAGDSGCGKSTFLRRLTSLFGSDL 27
Score = 28.8 bits (65), Expect = 6.4
Identities = 14/24 (58%), Positives = 16/24 (66%), Gaps = 3/24 (12%)
Query: 267 VVGESGLGKSTL---VNSLFLSDL 287
V G+SG GKST + SLF SDL
Sbjct: 4 VAGDSGCGKSTFLRRLTSLFGSDL 27
>gnl|CDD|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15). Rab15 colocalizes
with the transferrin receptor in early endosome
compartments, but not with late endosomal markers. It
codistributes with Rab4 and Rab5 on early/sorting
endosomes, and with Rab11 on pericentriolar recycling
endosomes. It is believed to function as an inhibitory
GTPase that regulates distinct steps in early endocytic
trafficking. GTPase activating proteins (GAPs) interact
with GTP-bound Rab and accelerate the hydrolysis of GTP
to GDP. Guanine nucleotide exchange factors (GEFs)
interact with GDP-bound Rabs to promote the formation of
the GTP-bound state. Rabs are further regulated by
guanine nucleotide dissociation inhibitors (GDIs), which
facilitate Rab recycling by masking C-terminal lipid
binding and promoting cytosolic localization. Most Rab
GTPases contain a lipid modification site at the
C-terminus, with sequence motifs CC, CXC, or CCX. Lipid
binding is essential for membrane attachment, a key
feature of most Rab proteins. Due to the presence of
truncated sequences in this CD, the lipid modification
site is not available for annotation.
Length = 164
Score = 28.4 bits (63), Expect = 6.8
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 9/67 (13%)
Query: 263 FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRL 322
F L+++G+SG+GK+ L+ F + + + T ++ K IE G+K+R+
Sbjct: 1 FRLLLIGDSGVGKTCLL-CRFTDNEFHSSHI--------STIGVDFKMKTIEVDGIKVRI 51
Query: 323 TVVDTPG 329
+ DT G
Sbjct: 52 QIWDTAG 58
>gnl|CDD|213190 cd03223, ABCD_peroxisomal_ALDP, ATP-binding cassette domain of
peroxisomal transporter, subfamily D. Peroxisomal
ATP-binding cassette transporter (Pat) is involved in
the import of very long-chain fatty acids (VLCFA) into
the peroxisome. The peroxisomal membrane forms a
permeability barrier for a wide variety of metabolites
required for and formed during fatty acid
beta-oxidation. To communicate with the cytoplasm and
mitochondria, peroxisomes need dedicated proteins to
transport such hydrophilic molecules across their
membranes. X-linked adrenoleukodystrophy (X-ALD) is
caused by mutations in the ALD gene, which encodes ALDP
(adrenoleukodystrophy protein ), a peroxisomal integral
membrane protein that is a member of the ATP-binding
cassette (ABC) transporter protein family. The disease
is characterized by a striking and unpredictable
variation in phenotypic expression. Phenotypes include
the rapidly progressive childhood cerebral form (CCALD),
the milder adult form, adrenomyeloneuropathy (AMN), and
variants without neurologic involvement (i.e.
asymptomatic).
Length = 166
Score = 28.3 bits (64), Expect = 6.9
Identities = 20/87 (22%), Positives = 28/87 (32%), Gaps = 32/87 (36%)
Query: 102 LMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNGSNTVIEVAGTKVRGRQYPWGVVEGST 161
L++ G SG GKS+L + +PWG
Sbjct: 30 LLITGPSGTGKSSLF-----------------------------RALAGLWPWG---SGR 57
Query: 162 VLTPSLIGSLFQTDRDYIGFATLPEQV 188
+ P LF R Y+ TL EQ+
Sbjct: 58 IGMPEGEDLLFLPQRPYLPLGTLREQL 84
Score = 27.9 bits (63), Expect = 8.1
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 201 LMVVGESGLGKSTL 214
L++ G SG GKS+L
Sbjct: 30 LLITGPSGTGKSSL 43
Score = 27.9 bits (63), Expect = 8.1
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 265 LMVVGESGLGKSTL 278
L++ G SG GKS+L
Sbjct: 30 LLITGPSGTGKSSL 43
>gnl|CDD|206690 cd04104, p47_IIGP_like, p47 GTPase family includes IGTP, TGTP/Mg21,
IRG-47, GTPI, LRG-47, and IIGP1. The p47 GTPase family
consists of several highly homologous proteins,
including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and
IIGP1. They are found in higher eukaryotes where they
play a role in immune resistance against intracellular
pathogens. p47 proteins exist at low resting levels in
mouse cells, but are strongly induced by Type II
interferon (IFN-gamma). ITGP is critical for resistance
to Toxoplasma gondii infection and in involved in
inhibition of Coxsackievirus-B3-induced apoptosis. TGTP
was shown to limit vesicular stomatitis virus (VSV)
infection of fibroblasts in vitro. IRG-47 is involved in
resistance to T. gondii infection. LRG-47 has been
implicated in resistance to T. gondii, Listeria
monocytogenes, Leishmania, and mycobacterial infections.
IIGP1 has been shown to localize to the ER and to the
Golgi membranes in IFN-induced cells and inflamed
tissues. In macrophages, IIGP1 interacts with hook3, a
microtubule binding protein that participates in the
organization of the cis-Golgi compartment.
Length = 197
Score = 28.4 bits (64), Expect = 7.1
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 104 VVGESGLGKSTLVNSL 119
V GESG GKS+ +N+L
Sbjct: 6 VTGESGAGKSSFINAL 21
Score = 28.4 bits (64), Expect = 7.1
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 203 VVGESGLGKSTLVNSL 218
V GESG GKS+ +N+L
Sbjct: 6 VTGESGAGKSSFINAL 21
Score = 28.4 bits (64), Expect = 7.1
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 267 VVGESGLGKSTLVNSL 282
V GESG GKS+ +N+L
Sbjct: 6 VTGESGAGKSSFINAL 21
>gnl|CDD|224053 COG1129, MglA, ABC-type sugar transport system, ATPase component
[Carbohydrate transport and metabolism].
Length = 500
Score = 29.0 bits (66), Expect = 7.2
Identities = 10/28 (35%), Positives = 15/28 (53%), Gaps = 6/28 (21%)
Query: 96 KGFDFTLM------VVGESGLGKSTLVN 117
G T+ ++GE+G GKSTL+
Sbjct: 25 DGVSLTVRPGEVHALLGENGAGKSTLMK 52
Score = 29.0 bits (66), Expect = 7.2
Identities = 10/28 (35%), Positives = 15/28 (53%), Gaps = 6/28 (21%)
Query: 195 KGFDFTLM------VVGESGLGKSTLVN 216
G T+ ++GE+G GKSTL+
Sbjct: 25 DGVSLTVRPGEVHALLGENGAGKSTLMK 52
Score = 29.0 bits (66), Expect = 7.2
Identities = 10/28 (35%), Positives = 15/28 (53%), Gaps = 6/28 (21%)
Query: 259 KGFDFTLM------VVGESGLGKSTLVN 280
G T+ ++GE+G GKSTL+
Sbjct: 25 DGVSLTVRPGEVHALLGENGAGKSTLMK 52
>gnl|CDD|219856 pfam08477, Miro, Miro-like protein. Mitochondrial Rho proteins
(Miro-1, and Miro-2), are atypical Rho GTPases. They
have a unique domain organisation, with tandem
GTP-binding domains and two EF hand domains (pfam00036),
that may bind calcium. They are also larger than
classical small GTPases. It has been proposed that they
are involved in mitochondrial homeostasis and apoptosis.
Length = 116
Score = 27.8 bits (62), Expect = 7.3
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 5/49 (10%)
Query: 265 LMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDI 313
++V+G+ G GKS+L++ L G P + QG T ++ +D
Sbjct: 2 VVVIGDKGSGKSSLLSQLV-----GGEFPPEPLEIQGDTLAVDTLEVDG 45
>gnl|CDD|215595 PLN03130, PLN03130, ABC transporter C family member; Provisional.
Length = 1622
Score = 29.3 bits (66), Expect = 7.3
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 3/51 (5%)
Query: 236 GSIPYSDIGF---ATLPEQVHRKSVKKGFDFTLMVVGESGLGKSTLVNSLF 283
GSI + D+ LP +H S + + +VG +G GKS+++N+LF
Sbjct: 1236 GSIKFEDVVLRYRPELPPVLHGLSFEISPSEKVGIVGRTGAGKSSMLNALF 1286
>gnl|CDD|226164 COG3638, COG3638, ABC-type phosphate/phosphonate transport system,
ATPase component [Inorganic ion transport and
metabolism].
Length = 258
Score = 28.8 bits (65), Expect = 7.5
Identities = 23/75 (30%), Positives = 32/75 (42%), Gaps = 9/75 (12%)
Query: 104 VVGESGLGKSTLVNSL-FLSDL-YGDRKVPNVNGSNTVIEVAGTKVRGR-----QYPWGV 156
++G SG GKSTL+ SL L D G+ V + K+R Q +
Sbjct: 35 IIGPSGAGKSTLLRSLNGLVDPTSGEILFNGVQITKLK-GKELRKLRRDIGMIFQQF-NL 92
Query: 157 VEGSTVLTPSLIGSL 171
V +VL L+G L
Sbjct: 93 VPRLSVLENVLLGRL 107
>gnl|CDD|224085 COG1163, DRG, Predicted GTPase [General function prediction only].
Length = 365
Score = 28.8 bits (65), Expect = 7.5
Identities = 25/74 (33%), Positives = 38/74 (51%), Gaps = 11/74 (14%)
Query: 256 SVKKGFDFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEE 315
+VKK D T+ +VG +GKSTL+N L + V D TT+E +E
Sbjct: 57 AVKKSGDATVALVGFPSVGKSTLLNKLTNTK-------SEVADYP--FTTLEPVPGMLEY 107
Query: 316 RGVKLRLTVVDTPG 329
+G +++L +D PG
Sbjct: 108 KGAQIQL--LDLPG 119
>gnl|CDD|213218 cd03251, ABCC_MsbA, ATP-binding cassette domain of the bacterial
lipid flippase and related proteins, subfamily C. MsbA
is an essential ABC transporter, closely related to
eukaryotic MDR proteins. ABC transporters are a large
family of proteins involved in the transport of a wide
variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and GTP-binding
and hydrolyzing proteins.
Length = 234
Score = 28.4 bits (64), Expect = 7.6
Identities = 13/24 (54%), Positives = 16/24 (66%), Gaps = 2/24 (8%)
Query: 94 VKKGFDFTLMVVGESGLGKSTLVN 117
+ G T+ +VG SG GKSTLVN
Sbjct: 25 IPAGE--TVALVGPSGSGKSTLVN 46
Score = 28.4 bits (64), Expect = 7.6
Identities = 13/24 (54%), Positives = 16/24 (66%), Gaps = 2/24 (8%)
Query: 193 VKKGFDFTLMVVGESGLGKSTLVN 216
+ G T+ +VG SG GKSTLVN
Sbjct: 25 IPAGE--TVALVGPSGSGKSTLVN 46
Score = 28.4 bits (64), Expect = 7.6
Identities = 13/24 (54%), Positives = 16/24 (66%), Gaps = 2/24 (8%)
Query: 257 VKKGFDFTLMVVGESGLGKSTLVN 280
+ G T+ +VG SG GKSTLVN
Sbjct: 25 IPAGE--TVALVGPSGSGKSTLVN 46
>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 = 28.8 bits (65), Expect = 8.4
Identities = 19/61 (31%), Positives = 26/61 (42%), Gaps = 15/61 (24%)
Query: 169 GSLFQTDRDYIGFATLPEQVHRKSVKKGFD--------FTLMVVGE-------SGLGKST 213
G L Q +R Y A+ P + R V + D F + G+ SG+GKST
Sbjct: 96 GPLPQGERRYPLRASPPPAMSRARVGEPLDTGVRVIDTFLPLCRGQRLGIFAGSGVGKST 155
Query: 214 L 214
L
Sbjct: 156 L 156
>gnl|CDD|213223 cd03256, ABC_PhnC_transporter, ATP-binding cassette domain of the
binding protein-dependent phosphonate transport system.
Phosphonates are a class of organophosphorus compounds
characterized by a chemically stable
carbon-to-phosphorus (C-P) bond. Phosphonates are
widespread among naturally occurring compounds in all
kingdoms of wildlife, but only prokaryotic
microorganisms are able to cleave this bond. Certain
bacteria such as E. coli can use alkylphosphonates as a
phosphorus source. ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 241
Score = 28.3 bits (64), Expect = 8.5
Identities = 24/93 (25%), Positives = 39/93 (41%), Gaps = 25/93 (26%)
Query: 93 SVKKGFDFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNGSNTVIEVAGTKVRGR-- 150
S+ G +F ++G SG GKSTL+ L + V +GS + K++G+
Sbjct: 23 SINPG-EFV-ALIGPSGAGKSTLLRCL-------NGLVEPTSGSVLIDGTDINKLKGKAL 73
Query: 151 ------------QYPWGVVEGSTVLTPSLIGSL 171
Q+ ++E +VL L G L
Sbjct: 74 RQLRRQIGMIFQQFN--LIERLSVLENVLSGRL 104
>gnl|CDD|213228 cd03261, ABC_Org_Solvent_Resistant, ATP-binding cassette transport
system involved in resistant to organic solvents. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. The nucleotide binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 235
Score = 28.2 bits (64), Expect = 8.6
Identities = 13/30 (43%), Positives = 17/30 (56%), Gaps = 6/30 (20%)
Query: 92 KSVKKGFDFT------LMVVGESGLGKSTL 115
++V KG D L ++G SG GKSTL
Sbjct: 13 RTVLKGVDLDVRRGEILAIIGPSGSGKSTL 42
Score = 28.2 bits (64), Expect = 8.6
Identities = 13/30 (43%), Positives = 17/30 (56%), Gaps = 6/30 (20%)
Query: 191 KSVKKGFDFT------LMVVGESGLGKSTL 214
++V KG D L ++G SG GKSTL
Sbjct: 13 RTVLKGVDLDVRRGEILAIIGPSGSGKSTL 42
Score = 28.2 bits (64), Expect = 8.6
Identities = 13/30 (43%), Positives = 17/30 (56%), Gaps = 6/30 (20%)
Query: 255 KSVKKGFDFT------LMVVGESGLGKSTL 278
++V KG D L ++G SG GKSTL
Sbjct: 13 RTVLKGVDLDVRRGEILAIIGPSGSGKSTL 42
>gnl|CDD|234274 TIGR03594, GTPase_EngA, ribosome-associated GTPase EngA. EngA
(YfgK, Der) is a ribosome-associated essential GTPase
with a duplication of its GTP-binding domain. It is
broadly to universally distributed among bacteria. It
appears to function in ribosome biogenesis or stability
[Protein synthesis, Other].
Length = 429
Score = 28.6 bits (65), Expect = 8.8
Identities = 22/56 (39%), Positives = 29/56 (51%), Gaps = 10/56 (17%)
Query: 274 GKSTLVNSLFLSDLYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLTVVDTPG 329
GKSTLVN+L L +R + V+D G TT + + E G K L +DT G
Sbjct: 184 GKSTLVNAL----LGEERVI--VSDIAG--TTRDSIDIPFERNGKKYTL--IDTAG 229
>gnl|CDD|236828 PRK11034, clpA, ATP-dependent Clp protease ATP-binding subunit;
Provisional.
Length = 758
Score = 28.6 bits (64), Expect = 8.9
Identities = 20/53 (37%), Positives = 28/53 (52%), Gaps = 8/53 (15%)
Query: 103 MVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNGSNTVIE------VAGTKVRG 149
++VGESG+GK+ + L + GD VP V T+ +AGTK RG
Sbjct: 211 LLVGESGVGKTAIAEGLAWRIVQGD--VPEVMADCTIYSLDIGSLLAGTKYRG 261
>gnl|CDD|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35). Rab35 is one of
several Rab proteins to be found to participate in the
regulation of osteoclast cells in rats. In addition,
Rab35 has been identified as a protein that interacts
with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK)
in human cells. Overexpression of NPM-ALK is a key
oncogenic event in some anaplastic large-cell lymphomas;
since Rab35 interacts with N|PM-ALK, it may provide a
target for cancer treatments. GTPase activating proteins
(GAPs) interact with GTP-bound Rab and accelerate the
hydrolysis of GTP to GDP. Guanine nucleotide exchange
factors (GEFs) interact with GDP-bound Rabs to promote
the formation of the GTP-bound state. Rabs are further
regulated by guanine nucleotide dissociation inhibitors
(GDIs), which facilitate Rab recycling by masking
C-terminal lipid binding and promoting cytosolic
localization. Most Rab GTPases contain a lipid
modification site at the C-terminus, with sequence
motifs CC, CXC, or CCX. Lipid binding is essential for
membrane attachment, a key feature of most Rab proteins.
Length = 199
Score = 28.3 bits (63), Expect = 8.9
Identities = 23/78 (29%), Positives = 42/78 (53%), Gaps = 21/78 (26%)
Query: 259 KGFD--FTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVNDRQGK-TTTI----EKKSM 311
+ +D F L+++G+SG+GKS+L+ L +D N G TTI + +++
Sbjct: 1 RDYDHLFKLLIIGDSGVGKSSLL--LRFAD----------NTFSGSYITTIGVDFKIRTV 48
Query: 312 DIEERGVKLRLTVVDTPG 329
+I G +++L + DT G
Sbjct: 49 EIN--GERVKLQIWDTAG 64
>gnl|CDD|172762 PRK14274, PRK14274, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 259
Score = 28.3 bits (63), Expect = 9.1
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 203 VVGESGLGKSTLVNSLFLSDLYGDRKVPNVNEKGSIPYSD 242
++G SG GKST + +L L + VPNV G + Y+
Sbjct: 43 IIGPSGCGKSTFIKTLNLM----IQMVPNVKLTGEMNYNG 78
>gnl|CDD|218719 pfam05729, NACHT, NACHT domain. This NTPase domain is found in
apoptosis proteins as well as those involved in MHC
transcription activation. This family is closely related
to pfam00931.
Length = 165
Score = 28.0 bits (63), Expect = 9.2
Identities = 8/19 (42%), Positives = 15/19 (78%)
Query: 101 TLMVVGESGLGKSTLVNSL 119
T+++ GE+G GK+TL+ +
Sbjct: 2 TVILQGEAGSGKTTLLQKI 20
Score = 28.0 bits (63), Expect = 9.2
Identities = 8/19 (42%), Positives = 15/19 (78%)
Query: 200 TLMVVGESGLGKSTLVNSL 218
T+++ GE+G GK+TL+ +
Sbjct: 2 TVILQGEAGSGKTTLLQKI 20
Score = 28.0 bits (63), Expect = 9.2
Identities = 8/19 (42%), Positives = 15/19 (78%)
Query: 264 TLMVVGESGLGKSTLVNSL 282
T+++ GE+G GK+TL+ +
Sbjct: 2 TVILQGEAGSGKTTLLQKI 20
>gnl|CDD|132060 TIGR03015, pepcterm_ATPase, putative secretion ATPase, PEP-CTERM
locus subfamily. Members of this protein are marked as
probable ATPases by the nucleotide binding P-loop motif
GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of
helicases, and extensive homology to ATPases of
MSHA-type pilus systems and to GspA proteins associated
with type II protein secretion systems [Protein fate,
Protein and peptide secretion and trafficking].
Length = 269
Score = 28.5 bits (64), Expect = 9.3
Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 24/64 (37%)
Query: 78 DYIGFATLPEQ------------VHRK---------SVKKGFDFTLMVVGESGLGKSTLV 116
+ GF T P Q H++ S ++GF +++ GE G GK+TL+
Sbjct: 4 AFFGFTTKPFQLLPDPDFFYPSKGHKRAMAYLEYGLSQREGF---ILITGEVGAGKTTLI 60
Query: 117 NSLF 120
+L
Sbjct: 61 RNLL 64
Score = 28.5 bits (64), Expect = 9.3
Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 24/64 (37%)
Query: 177 DYIGFATLPEQ------------VHRK---------SVKKGFDFTLMVVGESGLGKSTLV 215
+ GF T P Q H++ S ++GF +++ GE G GK+TL+
Sbjct: 4 AFFGFTTKPFQLLPDPDFFYPSKGHKRAMAYLEYGLSQREGF---ILITGEVGAGKTTLI 60
Query: 216 NSLF 219
+L
Sbjct: 61 RNLL 64
>gnl|CDD|206711 cd04140, ARHI_like, A Ras homolog member I (ARHI). ARHI (A Ras
homolog member I) is a member of the Ras family with
several unique structural and functional properties.
ARHI is expressed in normal human ovarian and breast
tissue, but its expression is decreased or eliminated in
breast and ovarian cancer. ARHI contains an N-terminal
extension of 34 residues (human) that is required to
retain its tumor suppressive activity. Unlike most other
Ras family members, ARHI is maintained in the
constitutively active (GTP-bound) state in resting cells
and has modest GTPase activity. ARHI inhibits STAT3
(signal transducers and activators of transcription 3),
a latent transcription factor whose abnormal activation
plays a critical role in oncogenesis. Most Ras proteins
contain a lipid modification site at the C-terminus,
with a typical sequence motif CaaX, where a = an
aliphatic amino acid and X = any amino acid. Lipid
binding is essential for membrane attachment, a key
feature of most Ras proteins. Due to the presence of
truncated sequences in this CD, the lipid modification
site is not available for annotation.
Length = 165
Score = 27.9 bits (62), Expect = 9.4
Identities = 12/37 (32%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 262 DFTLMVVGESGLGKSTLVNSLFLSDLYGDRKVPNVND 298
D+ ++V G G+GKS+LV F+ + + +P + D
Sbjct: 1 DYRVVVFGAGGVGKSSLVLR-FVKGTFRESYIPTIED 36
>gnl|CDD|180584 PRK06481, PRK06481, fumarate reductase flavoprotein subunit;
Validated.
Length = 506
Score = 28.6 bits (64), Expect = 9.7
Identities = 13/45 (28%), Positives = 23/45 (51%)
Query: 287 LYGDRKVPNVNDRQGKTTTIEKKSMDIEERGVKLRLTVVDTPGFG 331
L+ + V + ++ GK T ++ K E + + + VV T GFG
Sbjct: 207 LFVNADVTKITEKDGKVTGVKVKINGKETKTISSKAVVVTTGGFG 251
>gnl|CDD|224260 COG1341, COG1341, Predicted GTPase or GTP-binding protein [General
function prediction only].
Length = 398
Score = 28.5 bits (64), Expect = 9.9
Identities = 18/83 (21%), Positives = 26/83 (31%), Gaps = 2/83 (2%)
Query: 138 TVIEVAGTKVRGRQYPWGVVEGSTVL--TPSLIGSLFQTDRDYIGFATLPEQVHRKSVKK 195
+ VA VR +V + + + + + KS
Sbjct: 11 GALLVAPGAVRILGLREVEGGALSVARVRTTYHQLVEVPEDRSEPLEEIADTWESKSESA 70
Query: 196 GFDFTLMVVGESGLGKSTLVNSL 218
G +MVVG GKSTL L
Sbjct: 71 GKVGVVMVVGPVDSGKSTLTTYL 93
>gnl|CDD|226364 COG3845, COG3845, ABC-type uncharacterized transport systems,
ATPase components [General function prediction only].
Length = 501
Score = 28.7 bits (65), Expect = 10.0
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 106 GESGLGKSTLVNSLF 120
GE+G GKSTL+ LF
Sbjct: 37 GENGAGKSTLMKILF 51
Score = 28.7 bits (65), Expect = 10.0
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 205 GESGLGKSTLVNSLF 219
GE+G GKSTL+ LF
Sbjct: 37 GENGAGKSTLMKILF 51
Score = 28.7 bits (65), Expect = 10.0
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 269 GESGLGKSTLVNSLF 283
GE+G GKSTL+ LF
Sbjct: 37 GENGAGKSTLMKILF 51
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
0.316 0.135 0.396
Gapped
Lambda K H
0.267 0.0534 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 27,430,848
Number of extensions: 2646141
Number of successful extensions: 4860
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4828
Number of HSP's successfully gapped: 421
Length of query: 541
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 439
Effective length of database: 6,413,494
Effective search space: 2815523866
Effective search space used: 2815523866
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 61 (27.7 bits)