RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1086
(654 letters)
>gnl|CDD|237046 PRK12297, obgE, GTPase CgtA; Reviewed.
Length = 424
Score = 295 bits (759), Expect = 8e-94
Identities = 143/383 (37%), Positives = 207/383 (54%), Gaps = 70/383 (18%)
Query: 43 FLDSLSLYVKGGSGGNG-----QPKY-------GGLGGRGGNVVCKVKAG-ASLESV--K 87
F+D +YVK G GG+G + KY GG GG+GG+V+ G +L K
Sbjct: 2 FIDQAKIYVKAGDGGDGMVSFRREKYVPKGGPDGGDGGKGGSVIFVADEGLRTLLDFRYK 61
Query: 88 KQFKGVRITAASGDNSLVHRLAGRNGEDKILELPVGITAY-ADGGTKLGELNTEEDSIII 146
+ FK A +G+N + + GRNGED I+++PVG A+ G + +L +++
Sbjct: 62 RHFK-----AENGENGMGKNMHGRNGEDLIIKVPVGTVVKDAETGEVIADLVEPGQEVVV 116
Query: 147 AHGGAGG--N-------------AQNGWLGRKGEELAVRLELKLIADIGLVGFPNAGKST 191
A GG GG N A+NG GEE +RLELKL+AD+GLVGFPN GKST
Sbjct: 117 AKGGRGGRGNAHFATSTNQAPRIAENG---EPGEERELRLELKLLADVGLVGFPNVGKST 173
Query: 192 FLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAHRNLGMGHQFLRH 251
L +S A+PKIA+Y FTT+ PN+GV+ DD R +AD+PGLIEGA +G+GHQFLRH
Sbjct: 174 LLSVVSNAKPKIANYHFTTLVPNLGVVETDDGRSFVMADIPGLIEGASEGVGLGHQFLRH 233
Query: 252 VERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLLEKPIILLVNKMDVE 311
+ERT++I ++D++G + R +E +NKEL+LY LLE+P I++ NKMD+
Sbjct: 234 IERTRVIVHVIDMSGSEG------RDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLP 287
Query: 312 GAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKTNSTDVNDAKLKIRSI 371
A+E NL++ K + + PISA T +L +
Sbjct: 288 EAEE----------NLEEFKEKLGPK-----------VFPISALTGQ---GLDELLYA-V 322
Query: 372 LDLLAEEEQEMVDRELELDSIII 394
+LL E + ++ E + +
Sbjct: 323 AELLEETPEFPLEEEEVEEEVYY 345
Score = 240 bits (616), Expect = 7e-73
Identities = 110/283 (38%), Positives = 155/283 (54%), Gaps = 56/283 (19%)
Query: 375 LAEEEQEMVDRELELDSIIIAHGGAGG--N-------------AQNGWLGRKGEELAVRL 419
L E QE+V +A GG GG N A+NG GEE +RL
Sbjct: 107 LVEPGQEVV----------VAKGGRGGRGNAHFATSTNQAPRIAENG---EPGEERELRL 153
Query: 420 ELKLIADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADL 479
ELKL+AD+GLVGFPN GKST L +S A+PKIA+Y FTT+ PN+GV+ DD R +AD+
Sbjct: 154 ELKLLADVGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETDDGRSFVMADI 213
Query: 480 PGLIEGAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELEL 539
PGLIEGA +G+GHQFLRH+ERT++I ++D++G + R +E +NKEL+L
Sbjct: 214 PGLIEGASEGVGLGHQFLRHIERTRVIVHVIDMSGSEG------RDPIEDYEKINKELKL 267
Query: 540 YKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILP 599
Y LLE+P I++ NKMD+ A+E NL++ K + + P
Sbjct: 268 YNPRLLERPQIVVANKMDLPEAEE----------NLEEFKEKLGPK-----------VFP 306
Query: 600 ISAKTNSTDVNDAKLKIRSILDLLAEEEQEMVDRELELVKKLK 642
ISA T +++ + +L+ E E + E E+ K +
Sbjct: 307 ISALTGQ-GLDELLYAVAELLEETPEFPLEEEEVEEEVYYKFE 348
>gnl|CDD|233986 TIGR02729, Obg_CgtA, Obg family GTPase CgtA. This model describes
a univeral, mostly one-gene-per-genome GTP-binding
protein that associates with ribosomal subunits and
appears to play a role in ribosomal RNA maturation. This
GTPase, related to the nucleolar protein Obg, is
designated CgtA in bacteria. Mutations in this gene are
pleiotropic, but it appears that effects on cellular
functions such as chromosome partition may be secondary
to the effect on ribosome structure. Recent work done in
Vibrio cholerae shows an essential role in the stringent
response, in which RelA-dependent ability to synthesize
the alarmone ppGpp is required for deletion of this
GTPase to be lethal [Protein synthesis, Other].
Length = 329
Score = 281 bits (722), Expect = 1e-89
Identities = 121/307 (39%), Positives = 177/307 (57%), Gaps = 49/307 (15%)
Query: 43 FLDSLSLYVKGGSGGNG-----QPKY-------GGLGGRGGNVVCKVKAGASLES----- 85
F+D ++VK G GGNG + KY GG GGRGG+V+ ++A +L +
Sbjct: 1 FVDEAKIFVKAGDGGNGCVSFRREKYVPKGGPDGGDGGRGGSVI--LEADENLNTLLDFR 58
Query: 86 VKKQFKGVRITAASGDNSLVHRLAGRNGEDKILELPVGITAY-ADGGTKLGELNTEEDSI 144
++ FK A +G+N + G+NGED ++++PVG Y AD G L +L
Sbjct: 59 YQRHFK-----AENGENGMGKNRTGKNGEDLVIKVPVGTVVYDADTGELLADLTEPGQRF 113
Query: 145 IIAHGGAGG--N-------------AQNGWLGRKGEELAVRLELKLIADIGLVGFPNAGK 189
++A GG GG N A G GEE +RLELKL+AD+GLVG PNAGK
Sbjct: 114 LVAKGGRGGLGNAHFKSSTNRAPRFATPGE---PGEERWLRLELKLLADVGLVGLPNAGK 170
Query: 190 STFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAHRNLGMGHQFL 249
ST + A+S A+PKIA YPFTT+ PN+GV+ DD R +AD+PGLIEGA G+GH+FL
Sbjct: 171 STLISAVSAAKPKIADYPFTTLVPNLGVVRVDDGRSFVIADIPGLIEGASEGAGLGHRFL 230
Query: 250 RHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLLEKPIILLVNKMD 309
+H+ERT+++ ++D++ +E ++ EL+ Y L EKP I+++NK+D
Sbjct: 231 KHIERTRVLLHLIDISPED------GSDPIEDYEIIRNELKKYSPELAEKPRIVVLNKID 284
Query: 310 VEGAQEI 316
+ +E+
Sbjct: 285 LLDEEEL 291
Score = 225 bits (576), Expect = 3e-68
Identities = 81/190 (42%), Positives = 116/190 (61%), Gaps = 24/190 (12%)
Query: 390 DSIIIAHGGAGG--N-------------AQNGWLGRKGEELAVRLELKLIADIGLVGFPN 434
++A GG GG N A G GEE +RLELKL+AD+GLVG PN
Sbjct: 111 QRFLVAKGGRGGLGNAHFKSSTNRAPRFATPGE---PGEERWLRLELKLLADVGLVGLPN 167
Query: 435 AGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAHRNLGMGH 494
AGKST + A+S A+PKIA YPFTT+ PN+GV+ DD R +AD+PGLIEGA G+GH
Sbjct: 168 AGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDDGRSFVIADIPGLIEGASEGAGLGH 227
Query: 495 QFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLLEKPIILLVN 554
+FL+H+ERT+++ ++D++ +E ++ EL+ Y L EKP I+++N
Sbjct: 228 RFLKHIERTRVLLHLIDISPED------GSDPIEDYEIIRNELKKYSPELAEKPRIVVLN 281
Query: 555 KMDVEGAQEI 564
K+D+ +E+
Sbjct: 282 KIDLLDEEEL 291
>gnl|CDD|237048 PRK12299, obgE, GTPase CgtA; Reviewed.
Length = 335
Score = 278 bits (715), Expect = 1e-88
Identities = 131/372 (35%), Positives = 192/372 (51%), Gaps = 70/372 (18%)
Query: 42 RFLDSLSLYVKGGSGGNG---------QPK---YGGLGGRGGNVVCKVKAGASLES---- 85
+F+D +YVK G GGNG P GG GGRGG+V+ ++A +L +
Sbjct: 1 KFIDEAKIYVKAGDGGNGCVSFRREKFIPFGGPDGGDGGRGGSVI--LEADENLNTLIDF 58
Query: 86 -VKKQFKGVRITAASGDNSLVHRLAGRNGEDKILELPVGITAY-ADGGTKLGELNTEEDS 143
K+ FK A +G+N + G++G+D +L++PVG Y AD G + +L
Sbjct: 59 RYKRHFK-----AENGENGMGRNRTGKSGKDLVLKVPVGTQIYDADTGELIADLTEHGQR 113
Query: 144 IIIAHGGAGG--N-------------AQNGWLGRKGEELAVRLELKLIADIGLVGFPNAG 188
++A GG GG N A G GEE +RLELKL+AD+GLVG PNAG
Sbjct: 114 FLVAKGGKGGLGNAHFKSSTNRAPRYATPGE---PGEERWLRLELKLLADVGLVGLPNAG 170
Query: 189 KSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAHRNLGMGHQF 248
KST + A+S A+PKIA YPFTT+ PN+GV+ DD++ +AD+PGLIEGA G+GH+F
Sbjct: 171 KSTLISAVSAAKPKIADYPFTTLHPNLGVVRVDDYKSFVIADIPGLIEGASEGAGLGHRF 230
Query: 249 LRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLLEKPIILLVNKM 308
L+H+ERT+L+ +VD+ VE + ELE Y L +KP IL++NK+
Sbjct: 231 LKHIERTRLLLHLVDIEA---------VDPVEDYKTIRNELEKYSPELADKPRILVLNKI 281
Query: 309 DVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKTNSTDVNDAKLKI 368
D+ +E + + E + ISA T +++ +
Sbjct: 282 DLLDEEEERE-----------------KRAALELAALGGPVFLISAVTG-EGLDELLRAL 323
Query: 369 RSILDLLAEEEQ 380
+L+ EE+
Sbjct: 324 WELLEEARREEE 335
Score = 225 bits (576), Expect = 4e-68
Identities = 92/254 (36%), Positives = 132/254 (51%), Gaps = 45/254 (17%)
Query: 390 DSIIIAHGGAGG--N-------------AQNGWLGRKGEELAVRLELKLIADIGLVGFPN 434
++A GG GG N A G GEE +RLELKL+AD+GLVG PN
Sbjct: 112 QRFLVAKGGKGGLGNAHFKSSTNRAPRYATPGE---PGEERWLRLELKLLADVGLVGLPN 168
Query: 435 AGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAHRNLGMGH 494
AGKST + A+S A+PKIA YPFTT+ PN+GV+ DD++ +AD+PGLIEGA G+GH
Sbjct: 169 AGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVDDYKSFVIADIPGLIEGASEGAGLGH 228
Query: 495 QFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLLEKPIILLVN 554
+FL+H+ERT+L+ +VD+ VE + ELE Y L +KP IL++N
Sbjct: 229 RFLKHIERTRLLLHLVDIEA---------VDPVEDYKTIRNELEKYSPELADKPRILVLN 279
Query: 555 KMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKTNSTDVNDAKL 614
K+D+ +E + + E + ISA T +++
Sbjct: 280 KIDLLDEEEERE-----------------KRAALELAALGGPVFLISAVTG-EGLDELLR 321
Query: 615 KIRSILDLLAEEEQ 628
+ +L+ EE+
Sbjct: 322 ALWELLEEARREEE 335
>gnl|CDD|223610 COG0536, Obg, Predicted GTPase [General function prediction only].
Length = 369
Score = 279 bits (716), Expect = 3e-88
Identities = 127/382 (33%), Positives = 190/382 (49%), Gaps = 60/382 (15%)
Query: 42 RFLDSLSLYVKGGSGGNG-----QPKY-------GGLGGRGGNVVCKVKAGA-SLESVKK 88
+F+D + + VK G GGNG + K+ GG GGRGG+V+ + +L
Sbjct: 2 KFVDEVKIEVKAGDGGNGCVSFRREKFVPKGGPDGGDGGRGGSVIFEADENLNTLID--- 58
Query: 89 QFKGVRI-TAASGDNSLVHRLAGRNGEDKILELPVGITAY-ADGGTKLGELNTEEDSIII 146
F+ + A +G+N + G G+D ++++PVG D G L +L ++
Sbjct: 59 -FRYKKHFKAENGENGMGRNRTGAKGKDLVIKVPVGTVVRDEDTGELLADLTEHGQRFLV 117
Query: 147 AHGGAGG--N-------------AQNGWLGRKGEELAVRLELKLIADIGLVGFPNAGKST 191
A GG GG N A G GEE +RLELKL+AD+GLVG PNAGKST
Sbjct: 118 AKGGRGGLGNAHFKSSVNRAPRFATPG---EPGEERDLRLELKLLADVGLVGLPNAGKST 174
Query: 192 FLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAHRNLGMGHQFLRH 251
L A+S A+PKIA YPFTT+ PN+GV+ D VAD+PGLIEGA +G+G +FLRH
Sbjct: 175 LLSAVSAAKPKIADYPFTTLVPNLGVVRVDGGESFVVADIPGLIEGASEGVGLGLRFLRH 234
Query: 252 VERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLLEKPIILLVNKMDVE 311
+ERT+++ ++D++ R +E + ELE Y L EKP I+++NK+D+
Sbjct: 235 IERTRVLLHVIDLSPID------GRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLP 288
Query: 312 GAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKTNSTDVNDAKLKIRSI 371
+E L LK + + ISA T +++ + +
Sbjct: 289 LDEE-------ELEELKKALAEALGWEVF---------YLISALTR-EGLDELLRALAEL 331
Query: 372 LDLLAEEEQEMVDRELELDSII 393
L+ E + EL ++ +
Sbjct: 332 LEETKAEAEAAEAEELPVEVEV 353
Score = 221 bits (565), Expect = 4e-66
Identities = 95/277 (34%), Positives = 137/277 (49%), Gaps = 41/277 (14%)
Query: 390 DSIIIAHGGAGG--N-------------AQNGWLGRKGEELAVRLELKLIADIGLVGFPN 434
++A GG GG N A G GEE +RLELKL+AD+GLVG PN
Sbjct: 113 QRFLVAKGGRGGLGNAHFKSSVNRAPRFATPG---EPGEERDLRLELKLLADVGLVGLPN 169
Query: 435 AGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAHRNLGMGH 494
AGKST L A+S A+PKIA YPFTT+ PN+GV+ D VAD+PGLIEGA +G+G
Sbjct: 170 AGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRVDGGESFVVADIPGLIEGASEGVGLGL 229
Query: 495 QFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLLEKPIILLVN 554
+FLRH+ERT+++ ++D++ R +E + ELE Y L EKP I+++N
Sbjct: 230 RFLRHIERTRVLLHVIDLSPID------GRDPIEDYQTIRNELEKYSPKLAEKPRIVVLN 283
Query: 555 KMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKTNSTDVNDAKL 614
K+D+ +E L LK + + ISA T +++
Sbjct: 284 KIDLPLDEE-------ELEELKKALAEALGWEVF---------YLISALTR-EGLDELLR 326
Query: 615 KIRSILDLLAEEEQEMVDRELELVKKLKSSLREHQGE 651
+ +L+ E + EL + ++ E
Sbjct: 327 ALAELLEETKAEAEAAEAEELPVEVEVLYDDEHEDFE 363
>gnl|CDD|237047 PRK12298, obgE, GTPase CgtA; Reviewed.
Length = 390
Score = 235 bits (603), Expect = 2e-71
Identities = 121/386 (31%), Positives = 186/386 (48%), Gaps = 72/386 (18%)
Query: 41 SRFLDSLSLYVKGGSGGNG-----QPKY-------GGLGGRGGNVVCKVKAGASLESV-- 86
+F+D + V G GGNG + KY GG GG GG+V ++A +L ++
Sbjct: 1 MKFVDEAKIRVVAGDGGNGCVSFRREKYIPKGGPDGGDGGDGGDVY--LEADENLNTLID 58
Query: 87 ---KKQFKGVRITAASGDNSLVHRLAGRNGEDKILELPVGITAY-ADGGTKLGELNTEED 142
++ F+ R G + G+ G+D +++PVG AD G +G+L
Sbjct: 59 YRFERHFRAERGQNGQGRDC-----TGKRGKDITIKVPVGTRVIDADTGEVIGDLTEHGQ 113
Query: 143 SIIIAHGGAGG---------------NAQNGWLGRKGEELAVRLELKLIADIGLVGFPNA 187
+++A GG G G GEE ++LELKL+AD+GL+G PNA
Sbjct: 114 RLLVAKGGWHGLGNTRFKSSVNRAPRQKTPGT---PGEERELKLELKLLADVGLLGLPNA 170
Query: 188 GKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAHRNLGMGHQ 247
GKSTF++A+S A+PK+A YPFTT+ PN+GV+ DD R VAD+PGLIEGA G+G +
Sbjct: 171 GKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVDDERSFVVADIPGLIEGASEGAGLGIR 230
Query: 248 FLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLLEKPIILLVNK 307
FL+H+ER +++ ++D+ VE ++ ELE Y L EKP L+ NK
Sbjct: 231 FLKHLERCRVLLHLIDIAPID------GSDPVENARIIINELEKYSPKLAEKPRWLVFNK 284
Query: 308 MDV---EGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKTNSTDVNDA 364
+D+ E A+E I + L ISA + V +
Sbjct: 285 IDLLDEEEAEERAKAIVEALGWEGPVY-------------------LISA-ASGLGVKEL 324
Query: 365 KLKIRSILDLLAEEEQEMVDRELELD 390
+ + ++ EE E + +++
Sbjct: 325 CWDLMTFIEENPREEAEEAEAPEKVE 350
Score = 185 bits (473), Expect = 1e-52
Identities = 91/281 (32%), Positives = 134/281 (47%), Gaps = 57/281 (20%)
Query: 375 LAEEEQEMVDRELELDSIIIAHGGAGG---------------NAQNGWLGRKGEELAVRL 419
L E Q ++ +A GG G G GEE ++L
Sbjct: 108 LTEHGQRLL----------VAKGGWHGLGNTRFKSSVNRAPRQKTPGT---PGEERELKL 154
Query: 420 ELKLIADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADL 479
ELKL+AD+GL+G PNAGKSTF++A+S A+PK+A YPFTT+ PN+GV+ DD R VAD+
Sbjct: 155 ELKLLADVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVDDERSFVVADI 214
Query: 480 PGLIEGAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELEL 539
PGLIEGA G+G +FL+H+ER +++ ++D+ VE ++ ELE
Sbjct: 215 PGLIEGASEGAGLGIRFLKHLERCRVLLHLIDIAPID------GSDPVENARIIINELEK 268
Query: 540 YKMNLLEKPIILLVNKMDV---EGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQS 596
Y L EKP L+ NK+D+ E A+E I + L
Sbjct: 269 YSPKLAEKPRWLVFNKIDLLDEEEAEERAKAIVEALGWEGPVY----------------- 311
Query: 597 ILPISAKTNSTDVNDAKLKIRSILDLLAEEEQEMVDRELEL 637
ISA + V + + + ++ EE E + ++
Sbjct: 312 --LISA-ASGLGVKELCWDLMTFIEENPREEAEEAEAPEKV 349
>gnl|CDD|206685 cd01898, Obg, Obg GTPase. The Obg nucleotide binding protein
subfamily has been implicated in stress response,
chromosome partitioning, replication initiation,
mycelium development, and sporulation. Obg proteins are
among a large group of GTP binding proteins conserved
from bacteria to humans. The E. coli homolog, ObgE is
believed to function in ribosomal biogenesis. Members of
the subfamily contain two equally and highly conserved
domains, a C-terminal GTP binding domain and an
N-terminal glycine-rich domain.
Length = 170
Score = 221 bits (566), Expect = 6e-69
Identities = 80/196 (40%), Positives = 112/196 (57%), Gaps = 26/196 (13%)
Query: 177 ADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIE 236
AD+GLVG PNAGKST L AIS A+PKIA YPFTT+ PN+GV+ DD R +AD+PGLIE
Sbjct: 1 ADVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDDGRSFVIADIPGLIE 60
Query: 237 GAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNL 296
GA G+GH+FLRH+ERT+++ ++D++G VE + ELE Y L
Sbjct: 61 GASEGKGLGHRFLRHIERTRVLLHVIDLSGED--------DPVEDYETIRNELEAYNPGL 112
Query: 297 LEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKT 356
EKP I+++NK+D+ A+E + L L + + PISA T
Sbjct: 113 AEKPRIVVLNKIDLLDAEE----RFEKLKELLKELKGKK-------------VFPISALT 155
Query: 357 NSTDVNDAKLKIRSIL 372
+++ K+ +L
Sbjct: 156 GEG-LDELLKKLAKLL 170
Score = 221 bits (566), Expect = 6e-69
Identities = 80/196 (40%), Positives = 112/196 (57%), Gaps = 26/196 (13%)
Query: 425 ADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIE 484
AD+GLVG PNAGKST L AIS A+PKIA YPFTT+ PN+GV+ DD R +AD+PGLIE
Sbjct: 1 ADVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDDGRSFVIADIPGLIE 60
Query: 485 GAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNL 544
GA G+GH+FLRH+ERT+++ ++D++G VE + ELE Y L
Sbjct: 61 GASEGKGLGHRFLRHIERTRVLLHVIDLSGED--------DPVEDYETIRNELEAYNPGL 112
Query: 545 LEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKT 604
EKP I+++NK+D+ A+E + L L + + PISA T
Sbjct: 113 AEKPRIVVLNKIDLLDAEE----RFEKLKELLKELKGKK-------------VFPISALT 155
Query: 605 NSTDVNDAKLKIRSIL 620
+++ K+ +L
Sbjct: 156 GEG-LDELLKKLAKLL 170
>gnl|CDD|237045 PRK12296, obgE, GTPase CgtA; Reviewed.
Length = 500
Score = 223 bits (570), Expect = 2e-65
Identities = 121/319 (37%), Positives = 170/319 (53%), Gaps = 45/319 (14%)
Query: 41 SRFLDSLSLYVKGGSGGNG-----QPKY-------GGLGGRGGNVVCKVKAGA-SLESVK 87
RF+D + L+VK G GGNG + K+ GG GGRGG+VV V +L +
Sbjct: 2 PRFVDRVVLHVKAGDGGNGCASVHREKFKPLGGPDGGNGGRGGSVVLVVDPQVTTL--LD 59
Query: 88 KQFKGVRITAASGDNSL-VHRLAGRNGEDKILELPVGITAYADGGTKLGELNTEEDSIII 146
F+ R A +G + +R G GED +L +P G + G L +L +
Sbjct: 60 FHFRPHR-KATNGKPGMGDNR-DGAAGEDLVLPVPDGTVVLDEDGEVLADLVGAGTRFVA 117
Query: 147 AHGGAGG--NAQ--------NGW--LGRKGEELAVRLELKLIADIGLVGFPNAGKSTFLK 194
A GG GG NA G+ LG GEE + LELK +AD+GLVGFP+AGKS+ +
Sbjct: 118 AAGGRGGLGNAALASKARKAPGFALLGEPGEERDLVLELKSVADVGLVGFPSAGKSSLIS 177
Query: 195 AISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAHRNLGMGHQFLRHVER 254
A+S A+PKIA YPFTT+ PN+GV+ D R +VAD+PGLI GA G+G FLRH+ER
Sbjct: 178 ALSAAKPKIADYPFTTLVPNLGVVQAGDTR-FTVADVPGLIPGASEGKGLGLDFLRHIER 236
Query: 255 TKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYK---------MNLLEKPIILLV 305
++ +VD P R + + L EL Y +L E+P ++++
Sbjct: 237 CAVLVHVVD-----CATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVL 291
Query: 306 NKMDVEGAQEIYDGIRDTL 324
NK+DV A+E+ + +R L
Sbjct: 292 NKIDVPDARELAEFVRPEL 310
Score = 180 bits (459), Expect = 1e-49
Identities = 83/204 (40%), Positives = 116/204 (56%), Gaps = 27/204 (13%)
Query: 390 DSIIIAHGGAGG--NAQ--------NGW--LGRKGEELAVRLELKLIADIGLVGFPNAGK 437
+ A GG GG NA G+ LG GEE + LELK +AD+GLVGFP+AGK
Sbjct: 113 TRFVAAAGGRGGLGNAALASKARKAPGFALLGEPGEERDLVLELKSVADVGLVGFPSAGK 172
Query: 438 STFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAHRNLGMGHQFL 497
S+ + A+S A+PKIA YPFTT+ PN+GV+ D R +VAD+PGLI GA G+G FL
Sbjct: 173 SSLISALSAAKPKIADYPFTTLVPNLGVVQAGDTR-FTVADVPGLIPGASEGKGLGLDFL 231
Query: 498 RHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYK---------MNLLEKP 548
RH+ER ++ +VD P R + + L EL Y +L E+P
Sbjct: 232 RHIERCAVLVHVVD-----CATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERP 286
Query: 549 IILLVNKMDVEGAQEIYDGIRDTL 572
++++NK+DV A+E+ + +R L
Sbjct: 287 RLVVLNKIDVPDARELAEFVRPEL 310
>gnl|CDD|206668 cd01881, Obg_like, Obg-like family of GTPases consist of five
subfamilies: Obg, DRG, YyaF/YchF, Ygr210, and NOG1. The
Obg-like subfamily consists of five well-delimited,
ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210,
and NOG1. Four of these groups (Obg, DRG, YyaF/YchF, and
Ygr210) are characterized by a distinct glycine-rich
motif immediately following the Walker B motif (G3 box).
Obg/CgtA is an essential gene that is involved in the
initiation of sporulation and DNA replication in the
bacteria Caulobacter and Bacillus, but its exact
molecular role is unknown. Furthermore, several OBG
family members possess a C-terminal RNA-binding domain,
the TGS domain, which is also present in threonyl-tRNA
synthetase and in bacterial guanosine polyphosphatase
SpoT. Nog1 is a nucleolar protein that might function in
ribosome assembly. The DRG and Nog1 subfamilies are
ubiquitous in archaea and eukaryotes, the Ygr210
subfamily is present in archaea and fungi, and the Obg
and YyaF/YchF subfamilies are ubiquitous in bacteria and
eukaryotes. The Obg/Nog1 and DRG subfamilies appear to
form one major branch of the Obg family and the Ygr210
and YchF subfamilies form another branch. No GEFs, GAPs,
or GDIs for Obg have been identified.
Length = 167
Score = 145 bits (367), Expect = 2e-40
Identities = 56/147 (38%), Positives = 82/147 (55%), Gaps = 6/147 (4%)
Query: 180 GLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAH 239
GLVG PN GKST L A++ A+ +IASYPFTT++PNVGV F D + + DLPGL++GA
Sbjct: 1 GLVGLPNVGKSTLLSALTSAKVEIASYPFTTLEPNVGVFEFGDGVDIQIIDLPGLLDGAS 60
Query: 240 RNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLLEK 299
G+G Q L H+ R+ LI ++D + +E LN+E+ + L K
Sbjct: 61 EGRGLGEQILAHLYRSDLILHVIDASE------DCVGDPLEDQKTLNEEVSGSFLFLKNK 114
Query: 300 PIILLVNKMDVEGAQEIYDGIRDTLHN 326
P +++ NK+D+ + D L
Sbjct: 115 PEMIVANKIDMASENNLKRLKLDKLKR 141
Score = 145 bits (367), Expect = 2e-40
Identities = 56/147 (38%), Positives = 82/147 (55%), Gaps = 6/147 (4%)
Query: 428 GLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAH 487
GLVG PN GKST L A++ A+ +IASYPFTT++PNVGV F D + + DLPGL++GA
Sbjct: 1 GLVGLPNVGKSTLLSALTSAKVEIASYPFTTLEPNVGVFEFGDGVDIQIIDLPGLLDGAS 60
Query: 488 RNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLLEK 547
G+G Q L H+ R+ LI ++D + +E LN+E+ + L K
Sbjct: 61 EGRGLGEQILAHLYRSDLILHVIDASE------DCVGDPLEDQKTLNEEVSGSFLFLKNK 114
Query: 548 PIILLVNKMDVEGAQEIYDGIRDTLHN 574
P +++ NK+D+ + D L
Sbjct: 115 PEMIVANKIDMASENNLKRLKLDKLKR 141
>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 = 93.1 bits (232), Expect = 1e-22
Identities = 45/133 (33%), Positives = 68/133 (51%), Gaps = 19/133 (14%)
Query: 178 DIGLVGFPNAGKSTFLKAISRARP-KIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIE 236
+ LVG PN GKST + A++ A+ ++ YP TT P +GV R++ + D PGLIE
Sbjct: 1 RVALVGRPNVGKSTLINALTGAKVAIVSDYPGTTRDPILGV--LGLGRQIILVDTPGLIE 58
Query: 237 GAHRN--LGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKM 294
GA + ++FL + LI ++VD + E + +ELE
Sbjct: 59 GASEGKGVEGFNRFLEAIREADLILLVVDAS----------EGLTEDDEEILEELE---- 104
Query: 295 NLLEKPIILLVNK 307
L +KPIIL++NK
Sbjct: 105 KLPKKPIILVLNK 117
Score = 93.1 bits (232), Expect = 1e-22
Identities = 45/133 (33%), Positives = 68/133 (51%), Gaps = 19/133 (14%)
Query: 426 DIGLVGFPNAGKSTFLKAISRARP-KIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIE 484
+ LVG PN GKST + A++ A+ ++ YP TT P +GV R++ + D PGLIE
Sbjct: 1 RVALVGRPNVGKSTLINALTGAKVAIVSDYPGTTRDPILGV--LGLGRQIILVDTPGLIE 58
Query: 485 GAHRN--LGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKM 542
GA + ++FL + LI ++VD + E + +ELE
Sbjct: 59 GASEGKGVEGFNRFLEAIREADLILLVVDAS----------EGLTEDDEEILEELE---- 104
Query: 543 NLLEKPIILLVNK 555
L +KPIIL++NK
Sbjct: 105 KLPKKPIILVLNK 117
>gnl|CDD|223091 COG0012, COG0012, Predicted GTPase, probable translation factor
[Translation, ribosomal structure and biogenesis].
Length = 372
Score = 94.2 bits (235), Expect = 1e-20
Identities = 37/103 (35%), Positives = 56/103 (54%), Gaps = 17/103 (16%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFR-------------- 224
IG+VG PN GKST A+++A +IA+YPF TI+PNVGV+ D R
Sbjct: 5 IGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKI 64
Query: 225 ---KMSVADLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIVDV 264
+ D+ GL++GA + G+G++FL ++ I +V
Sbjct: 65 RPAPVEFVDIAGLVKGASKGEGLGNKFLDNIREVDAIIHVVRC 107
Score = 94.2 bits (235), Expect = 1e-20
Identities = 37/103 (35%), Positives = 56/103 (54%), Gaps = 17/103 (16%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFR-------------- 472
IG+VG PN GKST A+++A +IA+YPF TI+PNVGV+ D R
Sbjct: 5 IGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKI 64
Query: 473 ---KMSVADLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIVDV 512
+ D+ GL++GA + G+G++FL ++ I +V
Sbjct: 65 RPAPVEFVDIAGLVKGASKGEGLGNKFLDNIREVDAIIHVVRC 107
>gnl|CDD|206686 cd01899, Ygr210, Ygr210 GTPase. Ygr210 is a member of Obg-like
family and present in archaea and fungi. They are
characterized by a distinct glycine-rich motif
immediately following the Walker B motif. The Ygr210 and
YyaF/YchF subfamilies appear to form one major branch of
the Obg-like family. Among eukaryotes, the Ygr210
subfamily is represented only in fungi. These fungal
proteins form a tight cluster with their archaeal
orthologs, which suggests the possibility of horizontal
transfer from archaea to fungi.
Length = 318
Score = 93.1 bits (232), Expect = 1e-20
Identities = 44/112 (39%), Positives = 58/112 (51%), Gaps = 25/112 (22%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITF------------------ 220
IGLVG PN GKSTF A + A +IA+YPFTTI PNVGV +
Sbjct: 1 IGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGV-GYVRVECPCKELGVSCNPRY 59
Query: 221 ----DDFRKMSVA--DLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIVDVNG 266
D R + V D+ GL+ GAH G+G+QFL + ++ +VD +G
Sbjct: 60 GKCIDGKRYVPVELIDVAGLVPGAHEGKGLGNQFLDDLRDADVLIHVVDASG 111
Score = 93.1 bits (232), Expect = 1e-20
Identities = 44/112 (39%), Positives = 58/112 (51%), Gaps = 25/112 (22%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITF------------------ 468
IGLVG PN GKSTF A + A +IA+YPFTTI PNVGV +
Sbjct: 1 IGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGV-GYVRVECPCKELGVSCNPRY 59
Query: 469 ----DDFRKMSVA--DLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIVDVNG 514
D R + V D+ GL+ GAH G+G+QFL + ++ +VD +G
Sbjct: 60 GKCIDGKRYVPVELIDVAGLVPGAHEGKGLGNQFLDDLRDADVLIHVVDASG 111
>gnl|CDD|236584 PRK09602, PRK09602, translation-associated GTPase; Reviewed.
Length = 396
Score = 91.4 bits (228), Expect = 1e-19
Identities = 44/111 (39%), Positives = 57/111 (51%), Gaps = 23/111 (20%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGV--------------------- 217
IGLVG PN GKSTF A + A +IA+YPFTTI PNVGV
Sbjct: 4 IGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNG 63
Query: 218 ITFDDFRKMSVA--DLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIVDVNG 266
D R + V D+ GL+ GAH G+G+QFL + + + +VD +G
Sbjct: 64 KCIDGTRFIPVELIDVAGLVPGAHEGRGLGNQFLDDLRQADALIHVVDASG 114
Score = 91.4 bits (228), Expect = 1e-19
Identities = 44/111 (39%), Positives = 57/111 (51%), Gaps = 23/111 (20%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGV--------------------- 465
IGLVG PN GKSTF A + A +IA+YPFTTI PNVGV
Sbjct: 4 IGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNG 63
Query: 466 ITFDDFRKMSVA--DLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIVDVNG 514
D R + V D+ GL+ GAH G+G+QFL + + + +VD +G
Sbjct: 64 KCIDGTRFIPVELIDVAGLVPGAHEGRGLGNQFLDDLRQADALIHVVDASG 114
Score = 30.5 bits (70), Expect = 2.7
Identities = 7/27 (25%), Positives = 17/27 (62%)
Query: 299 KPIILLVNKMDVEGAQEIYDGIRDTLH 325
KP+++ NK D+ A+E + +++ +
Sbjct: 218 KPMVIAANKADLPPAEENIERLKEEKY 244
Score = 30.5 bits (70), Expect = 2.7
Identities = 7/27 (25%), Positives = 17/27 (62%)
Query: 547 KPIILLVNKMDVEGAQEIYDGIRDTLH 573
KP+++ NK D+ A+E + +++ +
Sbjct: 218 KPMVIAANKADLPPAEENIERLKEEKY 244
>gnl|CDD|206683 cd01896, DRG, Developmentally Regulated GTP-binding protein (DRG).
The developmentally regulated GTP-binding protein (DRG)
subfamily is an uncharacterized member of the Obg
family, an evolutionary branch of GTPase superfamily
proteins. GTPases act as molecular switches regulating
diverse cellular processes. DRG2 and DRG1 comprise the
DRG subfamily in eukaryotes. In view of their widespread
expression in various tissues and high conservation
among distantly related species in eukaryotes and
archaea, DRG proteins may regulate fundamental cellular
processes. It is proposed that the DRG subfamily
proteins play their physiological roles through RNA
binding.
Length = 233
Score = 83.4 bits (207), Expect = 5e-18
Identities = 33/88 (37%), Positives = 51/88 (57%), Gaps = 1/88 (1%)
Query: 177 ADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIE 236
A + LVGFP+ GKST L ++ + ++A+Y FTT+ GV+ + K+ + DLPG+IE
Sbjct: 1 ARVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVMEYKG-AKIQLLDLPGIIE 59
Query: 237 GAHRNLGMGHQFLRHVERTKLIAMIVDV 264
GA G G Q + LI +++D
Sbjct: 60 GASDGKGRGRQVIAVARTADLILIVLDA 87
Score = 83.4 bits (207), Expect = 5e-18
Identities = 33/88 (37%), Positives = 51/88 (57%), Gaps = 1/88 (1%)
Query: 425 ADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIE 484
A + LVGFP+ GKST L ++ + ++A+Y FTT+ GV+ + K+ + DLPG+IE
Sbjct: 1 ARVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVMEYKG-AKIQLLDLPGIIE 59
Query: 485 GAHRNLGMGHQFLRHVERTKLIAMIVDV 512
GA G G Q + LI +++D
Sbjct: 60 GASDGKGRGRQVIAVARTADLILIVLDA 87
>gnl|CDD|224085 COG1163, DRG, Predicted GTPase [General function prediction only].
Length = 365
Score = 83.5 bits (207), Expect = 3e-17
Identities = 35/90 (38%), Positives = 54/90 (60%), Gaps = 1/90 (1%)
Query: 176 IADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLI 235
A + LVGFP+ GKST L ++ + ++A YPFTT++P G++ + ++ + DLPG+I
Sbjct: 63 DATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEYKGA-QIQLLDLPGII 121
Query: 236 EGAHRNLGMGHQFLRHVERTKLIAMIVDVN 265
EGA G G Q L LI +++DV
Sbjct: 122 EGASSGRGRGRQVLSVARNADLIIIVLDVF 151
Score = 83.5 bits (207), Expect = 3e-17
Identities = 35/90 (38%), Positives = 54/90 (60%), Gaps = 1/90 (1%)
Query: 424 IADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLI 483
A + LVGFP+ GKST L ++ + ++A YPFTT++P G++ + ++ + DLPG+I
Sbjct: 63 DATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEYKGA-QIQLLDLPGII 121
Query: 484 EGAHRNLGMGHQFLRHVERTKLIAMIVDVN 513
EGA G G Q L LI +++DV
Sbjct: 122 EGASSGRGRGRQVLSVARNADLIIIVLDVF 151
>gnl|CDD|110047 pfam01018, GTP1_OBG, GTP1/OBG. The N-terminal domain of B.
subtilis GTPase obgE has the OBG fold, which is formed
by three glycine-rich regions inserted into a small
8-stranded beta-sandwich these regions form six
left-handed collagen-like helices packed and H-bonded
together.
Length = 156
Score = 75.4 bits (186), Expect = 6e-16
Identities = 54/161 (33%), Positives = 73/161 (45%), Gaps = 33/161 (20%)
Query: 43 FLDSLSLYVKGGSGGNG-----QPKY-------GGLGGRGGNVVCKVKAGA-SLESV--K 87
F+D + +YV G+GGNG + KY GG GGRGG+V+ + +L K
Sbjct: 1 FVDQVEIYVAAGNGGNGCVSFRREKYVPKGGPDGGNGGRGGDVIFEADENLDTLLDFRYK 60
Query: 88 KQFKGVRITAASGDNSLVHRLAGRNGEDKILELPVGITAY-ADGGTKLGELNTEEDSIII 146
K FK A G + G+NGED ++++P G D G L +L ++
Sbjct: 61 KHFK-----AEDGKHGGSRNCHGKNGEDLVIKVPPGTVVLDLDNGELLADLVHHGQRLLA 115
Query: 147 AHGGAG--GNA----------QNGWLGRKGEELAVRLELKL 175
A GG G GNA G GEE +RLELKL
Sbjct: 116 AKGGKGGLGNAAFKSPVNRAPGYALNGEPGEERDIRLELKL 156
>gnl|CDD|236583 PRK09601, PRK09601, GTP-binding protein YchF; Reviewed.
Length = 364
Score = 79.0 bits (196), Expect = 1e-15
Identities = 36/100 (36%), Positives = 54/100 (54%), Gaps = 16/100 (16%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFR-------------- 224
G+VG PN GKST A+++A + A+YPF TI+PNVGV+ D R
Sbjct: 5 CGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIV 64
Query: 225 --KMSVADLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIV 262
+ D+ GL++GA + G+G+QFL ++ I +V
Sbjct: 65 PATIEFVDIAGLVKGASKGEGLGNQFLANIREVDAIVHVV 104
Score = 79.0 bits (196), Expect = 1e-15
Identities = 36/100 (36%), Positives = 54/100 (54%), Gaps = 16/100 (16%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFR-------------- 472
G+VG PN GKST A+++A + A+YPF TI+PNVGV+ D R
Sbjct: 5 CGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIV 64
Query: 473 --KMSVADLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIV 510
+ D+ GL++GA + G+G+QFL ++ I +V
Sbjct: 65 PATIEFVDIAGLVKGASKGEGLGNQFLANIREVDAIVHVV 104
>gnl|CDD|206684 cd01897, NOG, Nucleolar GTP-binding protein (NOG). NOG1 is a
nucleolar GTP-binding protein present in eukaryotes
ranging from trypanosomes to humans. NOG1 is
functionally linked to ribosome biogenesis and found in
association with the nuclear pore complexes and
identified in many preribosomal complexes. Thus, defects
in NOG1 can lead to defects in 60S biogenesis. The S.
cerevisiae NOG1 gene is essential for cell viability,
and mutations in the predicted G motifs abrogate
function. It is a member of the ODN family of
GTP-binding proteins that also includes the bacterial
Obg and DRG proteins.
Length = 167
Score = 74.5 bits (184), Expect = 1e-15
Identities = 52/206 (25%), Positives = 90/206 (43%), Gaps = 56/206 (27%)
Query: 181 LVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEG--A 238
+ G+PN GKS+ + ++RA+P++A YPFTT VG + R V D PG+++
Sbjct: 5 IAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHFDYKYLR-WQVIDTPGILDRPLE 63
Query: 239 HRNLGMGHQFLRHVERTKLIAM---------IVDVNGFQLGLKHPKRSCVETVLLLNKEL 289
RN +E + A+ +D + +C + + ++L
Sbjct: 64 ERNT---------IEMQAITALAHLRAAVLFFIDPSE----------TCGYS---IEEQL 101
Query: 290 ELYK--MNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQ 347
L+K L KP+I+++NK+D+ T +L + + +E E+VIK
Sbjct: 102 SLFKEIKPLFNKPVIVVLNKIDL-----------LTEEDLSEIEKELEKE--GEEVIK-- 146
Query: 348 SILPISAKTNSTDVNDAKLKIRSILD 373
IS T V++ K K +L
Sbjct: 147 ----ISTLTE-EGVDELKNKACELLL 167
Score = 74.5 bits (184), Expect = 1e-15
Identities = 52/206 (25%), Positives = 90/206 (43%), Gaps = 56/206 (27%)
Query: 429 LVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEG--A 486
+ G+PN GKS+ + ++RA+P++A YPFTT VG + R V D PG+++
Sbjct: 5 IAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHFDYKYLR-WQVIDTPGILDRPLE 63
Query: 487 HRNLGMGHQFLRHVERTKLIAM---------IVDVNGFQLGLKHPKRSCVETVLLLNKEL 537
RN +E + A+ +D + +C + + ++L
Sbjct: 64 ERNT---------IEMQAITALAHLRAAVLFFIDPSE----------TCGYS---IEEQL 101
Query: 538 ELYK--MNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQ 595
L+K L KP+I+++NK+D+ T +L + + +E E+VIK
Sbjct: 102 SLFKEIKPLFNKPVIVVLNKIDL-----------LTEEDLSEIEKELEKE--GEEVIK-- 146
Query: 596 SILPISAKTNSTDVNDAKLKIRSILD 621
IS T V++ K K +L
Sbjct: 147 ----ISTLTE-EGVDELKNKACELLL 167
>gnl|CDD|224009 COG1084, COG1084, Predicted GTPase [General function prediction
only].
Length = 346
Score = 76.6 bits (189), Expect = 5e-15
Identities = 39/132 (29%), Positives = 70/132 (53%), Gaps = 18/132 (13%)
Query: 183 GFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEG--AHR 240
G+PN GKS+ ++ ++ A+P++A YPFTT +VG R + V D PGL++ R
Sbjct: 175 GYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFERGYLR-IQVIDTPGLLDRPLEER 233
Query: 241 NLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYK--MNLLE 298
N +ER + I + + G L L P +C ++ +++ L + L +
Sbjct: 234 N---------EIER-QAILALRHLAGVILFLFDPSETCGYSL---EEQISLLEEIKELFK 280
Query: 299 KPIILLVNKMDV 310
PI++++NK+D+
Sbjct: 281 APIVVVINKIDI 292
Score = 76.6 bits (189), Expect = 5e-15
Identities = 39/132 (29%), Positives = 70/132 (53%), Gaps = 18/132 (13%)
Query: 431 GFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEG--AHR 488
G+PN GKS+ ++ ++ A+P++A YPFTT +VG R + V D PGL++ R
Sbjct: 175 GYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFERGYLR-IQVIDTPGLLDRPLEER 233
Query: 489 NLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYK--MNLLE 546
N +ER + I + + G L L P +C ++ +++ L + L +
Sbjct: 234 N---------EIER-QAILALRHLAGVILFLFDPSETCGYSL---EEQISLLEEIKELFK 280
Query: 547 KPIILLVNKMDV 558
PI++++NK+D+
Sbjct: 281 APIVVVINKIDI 292
>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 = 72.7 bits (179), Expect = 6e-15
Identities = 40/194 (20%), Positives = 70/194 (36%), Gaps = 34/194 (17%)
Query: 180 GLVGFPNAGKSTFLKAISRARPKIAS-YPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 238
+ G PN GKS+ L A+ I S P TT P + + D PGL E
Sbjct: 1 AIFGRPNVGKSSLLNALLGQNVGIVSPIPGTTRDPVRKEWELLPLGPVVLIDTPGLDEEG 60
Query: 239 HRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLLE 298
+ + +R L+ ++VD + + +E +L +
Sbjct: 61 GLGRERVEEARQVADRADLVLLVVD----------------SDLTPVEEEAKLGLLRERG 104
Query: 299 KPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKTNS 358
KP++L++NK+D+ E + + E VI +SA
Sbjct: 105 KPVLLVLNKIDLVPESE----------EEELLRERKLELLPDLPVI------AVSALPG- 147
Query: 359 TDVNDAKLKIRSIL 372
+++ + KI +L
Sbjct: 148 EGIDELRKKIAELL 161
Score = 72.7 bits (179), Expect = 6e-15
Identities = 40/194 (20%), Positives = 70/194 (36%), Gaps = 34/194 (17%)
Query: 428 GLVGFPNAGKSTFLKAISRARPKIAS-YPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 486
+ G PN GKS+ L A+ I S P TT P + + D PGL E
Sbjct: 1 AIFGRPNVGKSSLLNALLGQNVGIVSPIPGTTRDPVRKEWELLPLGPVVLIDTPGLDEEG 60
Query: 487 HRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLLE 546
+ + +R L+ ++VD + + +E +L +
Sbjct: 61 GLGRERVEEARQVADRADLVLLVVD----------------SDLTPVEEEAKLGLLRERG 104
Query: 547 KPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKTNS 606
KP++L++NK+D+ E + + E VI +SA
Sbjct: 105 KPVLLVLNKIDLVPESE----------EEELLRERKLELLPDLPVI------AVSALPG- 147
Query: 607 TDVNDAKLKIRSIL 620
+++ + KI +L
Sbjct: 148 EGIDELRKKIAELL 161
>gnl|CDD|206687 cd01900, YchF, YchF GTPase. YchF is a member of the Obg family,
which includes four other subfamilies of GTPases: Obg,
DRG, Ygr210, and NOG1. Obg is an essential gene that is
involved in DNA replication in C. crescentus and
Streptomyces griseus and is associated with the
ribosome. Several members of the family, including YchF,
possess the TGS domain related to the RNA-binding
proteins. Experimental data and genomic analysis suggest
that YchF may be part of a nucleoprotein complex and may
function as a GTP-dependent translational factor.
Length = 274
Score = 74.4 bits (184), Expect = 1e-14
Identities = 36/100 (36%), Positives = 56/100 (56%), Gaps = 16/100 (16%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFR-------------- 224
IG+VG PN GKST A++++ + A+YPF TI+PNVG++ D R
Sbjct: 1 IGIVGLPNVGKSTLFNALTKSNAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIV 60
Query: 225 --KMSVADLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIV 262
+ D+ GL++GA + G+G++FL H+ IA +V
Sbjct: 61 PATIEFVDIAGLVKGASKGEGLGNKFLSHIREVDAIAHVV 100
Score = 74.4 bits (184), Expect = 1e-14
Identities = 36/100 (36%), Positives = 56/100 (56%), Gaps = 16/100 (16%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFR-------------- 472
IG+VG PN GKST A++++ + A+YPF TI+PNVG++ D R
Sbjct: 1 IGIVGLPNVGKSTLFNALTKSNAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIV 60
Query: 473 --KMSVADLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIV 510
+ D+ GL++GA + G+G++FL H+ IA +V
Sbjct: 61 PATIEFVDIAGLVKGASKGEGLGNKFLSHIREVDAIAHVV 100
>gnl|CDD|240334 PTZ00258, PTZ00258, GTP-binding protein; Provisional.
Length = 390
Score = 71.9 bits (177), Expect = 2e-13
Identities = 30/100 (30%), Positives = 47/100 (47%), Gaps = 16/100 (16%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDD--FRKM---------- 226
+G+VG PN GKST A+ + + ++PF TI PN + D F +
Sbjct: 24 MGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIV 83
Query: 227 ----SVADLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIV 262
+ D+ GL++GA G+G+ FL H+ I +V
Sbjct: 84 PAQLDITDIAGLVKGASEGEGLGNAFLSHIRAVDGIYHVV 123
Score = 71.9 bits (177), Expect = 2e-13
Identities = 30/100 (30%), Positives = 47/100 (47%), Gaps = 16/100 (16%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDD--FRKM---------- 474
+G+VG PN GKST A+ + + ++PF TI PN + D F +
Sbjct: 24 MGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIV 83
Query: 475 ----SVADLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIV 510
+ D+ GL++GA G+G+ FL H+ I +V
Sbjct: 84 PAQLDITDIAGLVKGASEGEGLGNAFLSHIRAVDGIYHVV 123
>gnl|CDD|206726 cd04163, Era, E. coli Ras-like protein (Era) is a multifunctional
GTPase. Era (E. coli Ras-like protein) is a
multifunctional GTPase found in all bacteria except some
eubacteria. It binds to the 16S ribosomal RNA (rRNA) of
the 30S subunit and appears to play a role in the
assembly of the 30S subunit, possibly by chaperoning the
16S rRNA. It also contacts several assembly elements of
the 30S subunit. Era couples cell growth with
cytokinesis and plays a role in cell division and energy
metabolism. Homologs have also been found in eukaryotes.
Era contains two domains: the N-terminal GTPase domain
and a C-terminal domain KH domain that is critical for
RNA binding. Both domains are important for Era
function. Era is functionally able to compensate for
deletion of RbfA, a cold-shock adaptation protein that
is required for efficient processing of the 16S rRNA.
Length = 168
Score = 58.2 bits (142), Expect = 6e-10
Identities = 47/208 (22%), Positives = 80/208 (38%), Gaps = 59/208 (28%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPN------VGVITFDD----FRKMSV 228
+ ++G PN GKST L A+ KI+ + KP G+ T DD F
Sbjct: 6 VAIIGRPNVGKSTLLNALVGQ--KISI---VSPKPQTTRNRIRGIYTDDDAQIIF----- 55
Query: 229 ADLPGLIEGAHRNLGMGHQFLRHVERT----KLIAMIVDVNGFQLGLKHPKRSCVETVLL 284
D PG+ + + +G + ++ L+ +VD + E +L
Sbjct: 56 VDTPGIHKPKKK---LGERMVKAAWSALKDVDLVLFVVDAS-------EWIGEGDEFILE 105
Query: 285 LNKELELYKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVI 344
L K+ + P+IL++NK+D+ +E L + K +++
Sbjct: 106 LLKK--------SKTPVILVLNKIDLVKDKED----------LLPLLEKL------KELH 141
Query: 345 KFQSILPISAKTNSTDVNDAKLKIRSIL 372
F I PISA +V++ I L
Sbjct: 142 PFAEIFPISALKGE-NVDELLEYIVEYL 168
Score = 58.2 bits (142), Expect = 6e-10
Identities = 47/208 (22%), Positives = 80/208 (38%), Gaps = 59/208 (28%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPN------VGVITFDD----FRKMSV 476
+ ++G PN GKST L A+ KI+ + KP G+ T DD F
Sbjct: 6 VAIIGRPNVGKSTLLNALVGQ--KISI---VSPKPQTTRNRIRGIYTDDDAQIIF----- 55
Query: 477 ADLPGLIEGAHRNLGMGHQFLRHVERT----KLIAMIVDVNGFQLGLKHPKRSCVETVLL 532
D PG+ + + +G + ++ L+ +VD + E +L
Sbjct: 56 VDTPGIHKPKKK---LGERMVKAAWSALKDVDLVLFVVDAS-------EWIGEGDEFILE 105
Query: 533 LNKELELYKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVI 592
L K+ + P+IL++NK+D+ +E L + K +++
Sbjct: 106 LLKK--------SKTPVILVLNKIDLVKDKED----------LLPLLEKL------KELH 141
Query: 593 KFQSILPISAKTNSTDVNDAKLKIRSIL 620
F I PISA +V++ I L
Sbjct: 142 PFAEIFPISALKGE-NVDELLEYIVEYL 168
>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 = 55.5 bits (134), Expect = 4e-09
Identities = 44/182 (24%), Positives = 63/182 (34%), Gaps = 35/182 (19%)
Query: 180 GLVGFPNAGKSTFLKAISRARPKIAS-YPFTTIKPNVGVITFD-DFRKMSVADLPGLIEG 237
+VG GKS+ L A+ S P TT P+V V D K+ + D PGL E
Sbjct: 1 VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVKELDKGKVKLVLVDTPGLDEF 60
Query: 238 AHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLL 297
LG + LI ++VD S K L L ++
Sbjct: 61 GG--LGREELARLLLRGADLILLVVD-------------STDRESEEDAKLLILRRLRKE 105
Query: 298 EKPIILLVNKMD-VEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKT 356
PIIL+ NK+D +E + + L + + +SAKT
Sbjct: 106 GIPIILVGNKIDLLEEREVEELLRLEELAKILGV-----------------PVFEVSAKT 148
Query: 357 NS 358
Sbjct: 149 GE 150
Score = 55.5 bits (134), Expect = 4e-09
Identities = 44/182 (24%), Positives = 63/182 (34%), Gaps = 35/182 (19%)
Query: 428 GLVGFPNAGKSTFLKAISRARPKIAS-YPFTTIKPNVGVITFD-DFRKMSVADLPGLIEG 485
+VG GKS+ L A+ S P TT P+V V D K+ + D PGL E
Sbjct: 1 VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVKELDKGKVKLVLVDTPGLDEF 60
Query: 486 AHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLL 545
LG + LI ++VD S K L L ++
Sbjct: 61 GG--LGREELARLLLRGADLILLVVD-------------STDRESEEDAKLLILRRLRKE 105
Query: 546 EKPIILLVNKMD-VEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKT 604
PIIL+ NK+D +E + + L + + +SAKT
Sbjct: 106 GIPIILVGNKIDLLEEREVEELLRLEELAKILGV-----------------PVFEVSAKT 148
Query: 605 NS 606
Sbjct: 149 GE 150
>gnl|CDD|224082 COG1160, COG1160, Predicted GTPases [General function prediction
only].
Length = 444
Score = 54.9 bits (133), Expect = 7e-08
Identities = 94/442 (21%), Positives = 155/442 (35%), Gaps = 124/442 (28%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKI-ASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEG 237
+ +VG PN GKST ++ R I + P T G + R+ + D GL +G
Sbjct: 6 VAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLG-REFILIDTGGLDDG 64
Query: 238 AHRNLG--MGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKEL--ELYK 293
L + Q L +E +I +VD E + ++E+ L +
Sbjct: 65 DEDELQELIREQALIAIEEADVILFVVDGR--------------EGITPADEEIAKILRR 110
Query: 294 MNLLEKPIILLVNKMDVEGAQE-IYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPI 352
KP+IL+VNK+D A+E Y+ ++L F +PI
Sbjct: 111 SK---KPVILVVNKIDNLKAEELAYE-----FYSL-----------------GFGEPVPI 145
Query: 353 SA--KTNSTDVNDAKLKIRSILDLLAEEEQEMVDRELELDSIIIAHGGAGGNAQNGWLGR 410
SA D+ DA +L+LL +E+E E E I
Sbjct: 146 SAEHGRGIGDLLDA------VLELLPPDEEE---EEEEETDPI----------------- 179
Query: 411 KGEELAVRLELKLIADIGLVGFPNAGKSTFLKAISRARPKIAS-YPFTTIKPNVGVITFD 469
I ++G PN GKS+ + AI I S TT D
Sbjct: 180 ---------------KIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERD 224
Query: 470 DFRKMSVADLPGL-----IEGAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKR 524
RK + D G+ I + + L+ +ER ++ +++D G+
Sbjct: 225 G-RKYVLIDTAGIRRKGKITESVEKYSVART-LKAIERADVVLLVIDA---TEGISE--- 276
Query: 525 SCVETVLLLNKELELYKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPE 584
+ + + E + I+++VNK D + + T+ K +
Sbjct: 277 ---QDLRIAGLIEEAG------RGIVIVVNKWD------LVEEDEATMEEFKKKL---RR 318
Query: 585 EFQPEKVIKFQSILPISAKTNS 606
+ + F I+ ISA T
Sbjct: 319 KLP---FLDFAPIVFISALTGQ 337
Score = 48.0 bits (115), Expect = 1e-05
Identities = 61/239 (25%), Positives = 97/239 (40%), Gaps = 51/239 (21%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKI-ASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEG 485
+ +VG PN GKST ++ R I + P T G + R+ + D GL +G
Sbjct: 6 VAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLG-REFILIDTGGLDDG 64
Query: 486 AHRNLG--MGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKEL--ELYK 541
L + Q L +E +I +VD E + ++E+ L +
Sbjct: 65 DEDELQELIREQALIAIEEADVILFVVDGR--------------EGITPADEEIAKILRR 110
Query: 542 MNLLEKPIILLVNKMDVEGAQE-IYD----GIRD-----TLHN-----LKDHIHKY---P 583
KP+IL+VNK+D A+E Y+ G + H L D + +
Sbjct: 111 SK---KPVILVVNKIDNLKAEELAYEFYSLGFGEPVPISAEHGRGIGDLLDAVLELLPPD 167
Query: 584 EEFQPE---KVIKFQSIL--PISAKTNSTDVNDAKLK-IRSILDLLAEEEQEMVDRELE 636
EE + E IK +I+ P K S+ +N A L R I+ +A ++ +D E E
Sbjct: 168 EEEEEEEETDPIKI-AIIGRPNVGK--SSLIN-AILGEERVIVSDIAGTTRDSIDIEFE 222
Score = 33.7 bits (78), Expect = 0.33
Identities = 38/187 (20%), Positives = 68/187 (36%), Gaps = 35/187 (18%)
Query: 178 DIGLVGFPNAGKSTFLKAISRARPKIAS-YPFTTIKPNVGVITFDDFRKMSVADLPGL-- 234
I ++G PN GKS+ + AI I S TT D RK + D G+
Sbjct: 180 KIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDG-RKYVLIDTAGIRR 238
Query: 235 ---IEGAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELEL 291
I + + L+ +ER ++ +++D G+ + + + E
Sbjct: 239 KGKITESVEKYSVART-LKAIERADVVLLVIDA---TEGISE------QDLRIAGLIEEA 288
Query: 292 YKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILP 351
+ I+++VNK D + + T+ K + + + F I+
Sbjct: 289 GR------GIVIVVNKWD------LVEEDEATMEEFKKKL---RRKLP---FLDFAPIVF 330
Query: 352 ISAKTNS 358
ISA T
Sbjct: 331 ISALTGQ 337
>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 = 49.2 bits (118), Expect = 1e-06
Identities = 49/225 (21%), Positives = 79/225 (35%), Gaps = 68/225 (30%)
Query: 179 IGLVGFPNAGKSTFLKAIS-----RARPKIASYPFT-----------TIKPNVGVITFD- 221
+G++G + GK+T ++ R F TIK GV+ F+
Sbjct: 2 VGVIGHVDHGKTTLTGSLLYQTGAIDRRGTRKETFLDTLKEERERGITIK--TGVVEFEW 59
Query: 222 DFRKMSVADLPGLIEGAHRNLGMGHQFLRHVERTKLIA----MIVDVN-GFQLGLK-HPK 275
R+++ D PG H + F + R A ++VD N G + + H
Sbjct: 60 PKRRINFIDTPG-----HED------FSKETVRGLAQADGALLVVDANEGVEPQTREH-- 106
Query: 276 RSCVETVLLLNKELELYKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYP 335
L PII+ VNK+D G ++ + +R+ LK I
Sbjct: 107 ---------------LNIALAGGLPIIVAVNKIDRVGEEDFDEVLREIKELLK-LIGFTF 150
Query: 336 EEFQPEKVIKFQSILPISAKTNSTDVNDAKLKIRSILDLLAEEEQ 380
+ + +I PISA T I +LD + E
Sbjct: 151 LKGKDVPII------PISALTG--------EGIEELLDAIVEHLP 181
Score = 49.2 bits (118), Expect = 1e-06
Identities = 49/225 (21%), Positives = 79/225 (35%), Gaps = 68/225 (30%)
Query: 427 IGLVGFPNAGKSTFLKAIS-----RARPKIASYPFT-----------TIKPNVGVITFD- 469
+G++G + GK+T ++ R F TIK GV+ F+
Sbjct: 2 VGVIGHVDHGKTTLTGSLLYQTGAIDRRGTRKETFLDTLKEERERGITIK--TGVVEFEW 59
Query: 470 DFRKMSVADLPGLIEGAHRNLGMGHQFLRHVERTKLIA----MIVDVN-GFQLGLK-HPK 523
R+++ D PG H + F + R A ++VD N G + + H
Sbjct: 60 PKRRINFIDTPG-----HED------FSKETVRGLAQADGALLVVDANEGVEPQTREH-- 106
Query: 524 RSCVETVLLLNKELELYKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYP 583
L PII+ VNK+D G ++ + +R+ LK I
Sbjct: 107 ---------------LNIALAGGLPIIVAVNKIDRVGEEDFDEVLREIKELLK-LIGFTF 150
Query: 584 EEFQPEKVIKFQSILPISAKTNSTDVNDAKLKIRSILDLLAEEEQ 628
+ + +I PISA T I +LD + E
Sbjct: 151 LKGKDVPII------PISALTG--------EGIEELLDAIVEHLP 181
>gnl|CDD|224081 COG1159, Era, GTPase [General function prediction only].
Length = 298
Score = 48.3 bits (116), Expect = 5e-06
Identities = 46/182 (25%), Positives = 74/182 (40%), Gaps = 38/182 (20%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIA---SYPFTTIKPNVGVITFDDFRKMSVADLPGLI 235
+ ++G PN GKST L A+ KI+ P TT G++T D+ + + V D PG+
Sbjct: 9 VAIIGRPNVGKSTLLNALVGQ--KISIVSPKPQTTRNRIRGIVTTDNAQIIFV-DTPGIH 65
Query: 236 EGAHR-NLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKM 294
+ H M ++ LI +VD + E +L K+
Sbjct: 66 KPKHALGELMNKAARSALKDVDLILFVVDAD-------EGWGPGDEFILEQLKK------ 112
Query: 295 NLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISA 354
+ P+IL+VNK+D + L I +K++ F+ I+PISA
Sbjct: 113 --TKTPVILVVNKIDKVKPKT----------VLLKLIAFL------KKLLPFKEIVPISA 154
Query: 355 KT 356
Sbjct: 155 LK 156
Score = 48.3 bits (116), Expect = 5e-06
Identities = 46/182 (25%), Positives = 74/182 (40%), Gaps = 38/182 (20%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIA---SYPFTTIKPNVGVITFDDFRKMSVADLPGLI 483
+ ++G PN GKST L A+ KI+ P TT G++T D+ + + V D PG+
Sbjct: 9 VAIIGRPNVGKSTLLNALVGQ--KISIVSPKPQTTRNRIRGIVTTDNAQIIFV-DTPGIH 65
Query: 484 EGAHR-NLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKM 542
+ H M ++ LI +VD + E +L K+
Sbjct: 66 KPKHALGELMNKAARSALKDVDLILFVVDAD-------EGWGPGDEFILEQLKK------ 112
Query: 543 NLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISA 602
+ P+IL+VNK+D + L I +K++ F+ I+PISA
Sbjct: 113 --TKTPVILVVNKIDKVKPKT----------VLLKLIAFL------KKLLPFKEIVPISA 154
Query: 603 KT 604
Sbjct: 155 LK 156
>gnl|CDD|206667 cd01879, FeoB, Ferrous iron transport protein B (FeoB) family.
Ferrous iron transport protein B (FeoB) subfamily. E.
coli has an iron(II) transport system, known as feo,
which may make an important contribution to the iron
supply of the cell under anaerobic conditions. FeoB has
been identified as part of this transport system. FeoB
is a large 700-800 amino acid integral membrane protein.
The N terminus contains a P-loop motif suggesting that
iron transport may be ATP dependent.
Length = 159
Score = 46.3 bits (111), Expect = 7e-06
Identities = 19/53 (35%), Positives = 31/53 (58%), Gaps = 1/53 (1%)
Query: 181 LVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPG 233
LVG PN GK+T A++ AR K+ ++P T++ G +++ + DLPG
Sbjct: 2 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGEFKLGG-KEIEIVDLPG 53
Score = 46.3 bits (111), Expect = 7e-06
Identities = 19/53 (35%), Positives = 31/53 (58%), Gaps = 1/53 (1%)
Query: 429 LVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPG 481
LVG PN GK+T A++ AR K+ ++P T++ G +++ + DLPG
Sbjct: 2 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGEFKLGG-KEIEIVDLPG 53
>gnl|CDD|179790 PRK04213, PRK04213, GTP-binding protein; Provisional.
Length = 201
Score = 46.4 bits (111), Expect = 1e-05
Identities = 48/210 (22%), Positives = 83/210 (39%), Gaps = 40/210 (19%)
Query: 177 ADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGL-- 234
+I VG N GKST ++ ++ + ++ P T KPN D+ + DLPG
Sbjct: 10 PEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVTRKPN-----HYDWGDFILTDLPGFGF 64
Query: 235 IEGAHRNLG------MGHQFLRHVERTKLIAMIVDVNGF-QLGLKHPKRSCVETVLLLNK 287
+ G + + + + +R ++VD F ++ + R +
Sbjct: 65 MSGVPKEVQEKIKDEIVRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPI------ 118
Query: 288 ELELYK-MNLLEKPIILLVNKMD-VEGAQEIYDGIRDTLHNLKDHIHKYPEEFQP--EKV 343
++E++ + L P I+ VNKMD ++ E+ D I + L P +
Sbjct: 119 DVEMFDFLRELGIPPIVAVNKMDKIKNRDEVLDEIAERL------------GLYPPWRQW 166
Query: 344 IKFQSILPISAKTNSTDVNDAKLKIRSILD 373
I PISAK + + K IR L
Sbjct: 167 QDI--IAPISAKKG--GIEELKEAIRKRLH 192
Score = 46.4 bits (111), Expect = 1e-05
Identities = 48/210 (22%), Positives = 83/210 (39%), Gaps = 40/210 (19%)
Query: 425 ADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGL-- 482
+I VG N GKST ++ ++ + ++ P T KPN D+ + DLPG
Sbjct: 10 PEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVTRKPN-----HYDWGDFILTDLPGFGF 64
Query: 483 IEGAHRNLG------MGHQFLRHVERTKLIAMIVDVNGF-QLGLKHPKRSCVETVLLLNK 535
+ G + + + + +R ++VD F ++ + R +
Sbjct: 65 MSGVPKEVQEKIKDEIVRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPI------ 118
Query: 536 ELELYK-MNLLEKPIILLVNKMD-VEGAQEIYDGIRDTLHNLKDHIHKYPEEFQP--EKV 591
++E++ + L P I+ VNKMD ++ E+ D I + L P +
Sbjct: 119 DVEMFDFLRELGIPPIVAVNKMDKIKNRDEVLDEIAERL------------GLYPPWRQW 166
Query: 592 IKFQSILPISAKTNSTDVNDAKLKIRSILD 621
I PISAK + + K IR L
Sbjct: 167 QDI--IAPISAKKG--GIEELKEAIRKRLH 192
>gnl|CDD|129200 TIGR00092, TIGR00092, GTP-binding protein YchF. This predicted
GTP-binding protein is found in a single copy in every
complete bacterial genome, and is found in Eukaryotes. A
more distantly related protein, separated from this
model, is found in the archaea. It is known to bind GTP
and double-stranded nucleic acid. It is suggested to
belong to a nucleoprotein complex and act as a
translation factor [Unknown function, General].
Length = 368
Score = 47.1 bits (112), Expect = 2e-05
Identities = 34/100 (34%), Positives = 49/100 (49%), Gaps = 17/100 (17%)
Query: 180 GLVGFPNAGKSTFLKAI-SRARPKIASYPFTTIKPNVGVITFDDFR-------------- 224
G+VG PN GKST A + + A+ PFTTI+PN GV+ D R
Sbjct: 6 GIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVP 65
Query: 225 --KMSVADLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIV 262
D+ GL+ GA + G+G+QFL ++ +I +V
Sbjct: 66 PTTTEFVDIAGLVGGASKGEGLGNQFLANIREVDIIQHVV 105
Score = 47.1 bits (112), Expect = 2e-05
Identities = 34/100 (34%), Positives = 49/100 (49%), Gaps = 17/100 (17%)
Query: 428 GLVGFPNAGKSTFLKAI-SRARPKIASYPFTTIKPNVGVITFDDFR-------------- 472
G+VG PN GKST A + + A+ PFTTI+PN GV+ D R
Sbjct: 6 GIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVP 65
Query: 473 --KMSVADLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIV 510
D+ GL+ GA + G+G+QFL ++ +I +V
Sbjct: 66 PTTTEFVDIAGLVGGASKGEGLGNQFLANIREVDIIQHVV 105
>gnl|CDD|217025 pfam02421, FeoB_N, Ferrous iron transport protein B. Escherichia
coli has an iron(II) transport system (feo) which may
make an important contribution to the iron supply of the
cell under anaerobic conditions. FeoB has been
identified as part of this transport system. FeoB is a
large 700-800 amino acid integral membrane protein. The
N terminus contains a P-loop motif suggesting that iron
transport may be ATP dependent.
Length = 190
Score = 45.6 bits (109), Expect = 2e-05
Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPG 233
I LVG PN GK+T A++ AR + ++P T++ G + ++ + DLPG
Sbjct: 3 IALVGNPNVGKTTLFNALTGARQHVGNWPGVTVEKKEGTFKYKG-YEIEIVDLPG 56
Score = 45.6 bits (109), Expect = 2e-05
Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPG 481
I LVG PN GK+T A++ AR + ++P T++ G + ++ + DLPG
Sbjct: 3 IALVGNPNVGKTTLFNALTGARQHVGNWPGVTVEKKEGTFKYKG-YEIEIVDLPG 56
>gnl|CDD|223447 COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion
transport and metabolism].
Length = 653
Score = 46.5 bits (111), Expect = 3e-05
Identities = 46/199 (23%), Positives = 79/199 (39%), Gaps = 52/199 (26%)
Query: 178 DIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLI-- 235
+ LVG PN GK+T A++ A K+ ++P T++ G + + ++ + DLPG
Sbjct: 5 TVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKG-HEIEIVDLPGTYSL 63
Query: 236 ------EGAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKEL 289
E R+ FL + LI +VD + +E L L L
Sbjct: 64 TAYSEDEKVARD------FLLE-GKPDLIVNVVDA------------TNLERNLYLT--L 102
Query: 290 ELYKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSI 349
+L ++ P+IL +N +D + GIR + L K++ +
Sbjct: 103 QLLELG---IPMILALNMIDEAKKR----GIRIDIEKL-------------SKLLGVP-V 141
Query: 350 LPISAKTNSTDVNDAKLKI 368
+P AK + + K I
Sbjct: 142 VPTVAKRG-EGLEELKRAI 159
Score = 46.5 bits (111), Expect = 3e-05
Identities = 46/199 (23%), Positives = 79/199 (39%), Gaps = 52/199 (26%)
Query: 426 DIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLI-- 483
+ LVG PN GK+T A++ A K+ ++P T++ G + + ++ + DLPG
Sbjct: 5 TVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKG-HEIEIVDLPGTYSL 63
Query: 484 ------EGAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKEL 537
E R+ FL + LI +VD + +E L L L
Sbjct: 64 TAYSEDEKVARD------FLLE-GKPDLIVNVVDA------------TNLERNLYLT--L 102
Query: 538 ELYKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSI 597
+L ++ P+IL +N +D + GIR + L K++ +
Sbjct: 103 QLLELG---IPMILALNMIDEAKKR----GIRIDIEKL-------------SKLLGVP-V 141
Query: 598 LPISAKTNSTDVNDAKLKI 616
+P AK + + K I
Sbjct: 142 VPTVAKRG-EGLEELKRAI 159
>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 = 43.9 bits (104), Expect = 4e-05
Identities = 43/180 (23%), Positives = 65/180 (36%), Gaps = 36/180 (20%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKI-ASYPFTTIKPNVGVITFDDFR-KMSVADLPGLIE 236
I +VG PN GKST L + + I P TT VI D K ++ D G +
Sbjct: 4 IVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQED 63
Query: 237 GAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNL 296
+ + R VE + D+ L ++ + + E
Sbjct: 64 YDA----IRRLYYRAVES---SLRVFDIVILVLDVEEILEKQTKE---IIHHAE------ 107
Query: 297 LEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKT 356
PIIL+ NK+D L+D K F K + + I+P+SA+T
Sbjct: 108 SGVPIILVGNKID-----------------LRDAKLKTHVAFLFAK-LNGEPIIPLSAET 149
Score = 43.9 bits (104), Expect = 4e-05
Identities = 43/180 (23%), Positives = 65/180 (36%), Gaps = 36/180 (20%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKI-ASYPFTTIKPNVGVITFDDFR-KMSVADLPGLIE 484
I +VG PN GKST L + + I P TT VI D K ++ D G +
Sbjct: 4 IVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQED 63
Query: 485 GAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNL 544
+ + R VE + D+ L ++ + + E
Sbjct: 64 YDA----IRRLYYRAVES---SLRVFDIVILVLDVEEILEKQTKE---IIHHAE------ 107
Query: 545 LEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKT 604
PIIL+ NK+D L+D K F K + + I+P+SA+T
Sbjct: 108 SGVPIILVGNKID-----------------LRDAKLKTHVAFLFAK-LNGEPIIPLSAET 149
>gnl|CDD|234624 PRK00089, era, GTPase Era; Reviewed.
Length = 292
Score = 45.4 bits (109), Expect = 5e-05
Identities = 46/185 (24%), Positives = 74/185 (40%), Gaps = 40/185 (21%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIA---SYPFTTIKPNVGVITFDDFRKMSVADLPGLI 235
+ +VG PN GKST L A+ KI+ P TT G++T DD ++ D PG+
Sbjct: 8 VAIVGRPNVGKSTLLNALVGQ--KISIVSPKPQTTRHRIRGIVTEDDA-QIIFVDTPGIH 64
Query: 236 EGAHRNLG--MGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYK 293
+ R L M ++ L+ +VD + E +L K+
Sbjct: 65 K-PKRALNRAMNKAAWSSLKDVDLVLFVVDAD-------EKIGPGDEFILEKLKK----- 111
Query: 294 MNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPIS 353
++ P+IL++NK+D+ +E L + + E F I+PIS
Sbjct: 112 ---VKTPVILVLNKIDLVKDKEE----------LLPLLEELSELM------DFAEIVPIS 152
Query: 354 AKTNS 358
A
Sbjct: 153 ALKGD 157
Score = 45.4 bits (109), Expect = 5e-05
Identities = 46/185 (24%), Positives = 74/185 (40%), Gaps = 40/185 (21%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIA---SYPFTTIKPNVGVITFDDFRKMSVADLPGLI 483
+ +VG PN GKST L A+ KI+ P TT G++T DD ++ D PG+
Sbjct: 8 VAIVGRPNVGKSTLLNALVGQ--KISIVSPKPQTTRHRIRGIVTEDDA-QIIFVDTPGIH 64
Query: 484 EGAHRNLG--MGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYK 541
+ R L M ++ L+ +VD + E +L K+
Sbjct: 65 K-PKRALNRAMNKAAWSSLKDVDLVLFVVDAD-------EKIGPGDEFILEKLKK----- 111
Query: 542 MNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPIS 601
++ P+IL++NK+D+ +E L + + E F I+PIS
Sbjct: 112 ---VKTPVILVLNKIDLVKDKEE----------LLPLLEELSELM------DFAEIVPIS 152
Query: 602 AKTNS 606
A
Sbjct: 153 ALKGD 157
>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General
function prediction only].
Length = 219
Score = 42.6 bits (100), Expect = 3e-04
Identities = 43/219 (19%), Positives = 80/219 (36%), Gaps = 25/219 (11%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFR--KMSVADLPGLIE 484
I ++G GK+T L + YP T + R K+ + D G E
Sbjct: 8 IVVLGDGGVGKTTLLNRLVGDEFPE-GYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEE 66
Query: 485 GAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNL 544
+ ++ R I ++ D + S T EL ++
Sbjct: 67 YR----SLRPEYYRGAN---GILIVYDSTLR-------ESSDELT---EEWLEELRELAP 109
Query: 545 LEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAK- 603
+ PI+L+ NK+D+ Q + I + L+ + + ++L SAK
Sbjct: 110 DDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVL--APKAVLPEVANPALLETSAKS 167
Query: 604 TNSTDVNDAKLKIRSILDLLAEEEQEMVDRELELVKKLK 642
+VN+ ++ + LL E E+ ++ EL + +L
Sbjct: 168 LTGPNVNELFKEL--LRKLLEEIEKLVLKNELRQLDRLN 204
Score = 42.3 bits (99), Expect = 3e-04
Identities = 42/215 (19%), Positives = 77/215 (35%), Gaps = 25/215 (11%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFR--KMSVADLPGLIE 236
I ++G GK+T L + YP T + R K+ + D G E
Sbjct: 8 IVVLGDGGVGKTTLLNRLVGDEFPE-GYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEE 66
Query: 237 GAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNL 296
+ ++ R I ++ D + S T EL ++
Sbjct: 67 YR----SLRPEYYRGAN---GILIVYDSTLR-------ESSDELT---EEWLEELRELAP 109
Query: 297 LEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAK- 355
+ PI+L+ NK+D+ Q + I + L+ + + ++L SAK
Sbjct: 110 DDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVL--APKAVLPEVANPALLETSAKS 167
Query: 356 TNSTDVNDAKLKIRSILDLLAEEEQEMVDRELELD 390
+VN+ ++ + LL E E+ ++ EL
Sbjct: 168 LTGPNVNELFKEL--LRKLLEEIEKLVLKNELRQL 200
>gnl|CDD|234628 PRK00093, PRK00093, GTP-binding protein Der; Reviewed.
Length = 435
Score = 43.5 bits (104), Expect = 3e-04
Identities = 57/277 (20%), Positives = 93/277 (33%), Gaps = 89/277 (32%)
Query: 173 LKLIADIGLVGFPNAGKSTFLKAISRARPKI-ASYPFTTIKPNVGVITFDDFRKMSVADL 231
++A +VG PN GKST ++ R I A P T G + R+ + D
Sbjct: 1 KPVVA---IVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLG-REFILIDT 56
Query: 232 PGLIEGAHRNLG-MGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKEL- 289
G+ + Q +E +I +VD + ++E+
Sbjct: 57 GGIEPDDDGFEKQIREQAELAIEEADVILFVVDGR--------------AGLTPADEEIA 102
Query: 290 -ELYKMNLLEKPIILLVNKMD-VEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQ 347
L K KP+IL+VNK+D + + Y+ ++L
Sbjct: 103 KILRK---SNKPVILVVNKVDGPDEEADAYE-----FYSL-----------------GLG 137
Query: 348 SILPISAKTNSTDVNDAKLKIRSILDLLAEEEQEMVDRELELDSIIIAHGGAGGNAQNGW 407
PISA+ I +LD + EE E + + E + I IA
Sbjct: 138 EPYPISAEHG--------RGIGDLLDAILEELPEEEEEDEEDEPIKIA------------ 177
Query: 408 LGRKGEELAVRLELKLIADIGLVGFPNAGKSTFLKAI 444
++G PN GKS+ + A+
Sbjct: 178 ---------------------IIGRPNVGKSSLINAL 193
Score = 39.3 bits (93), Expect = 0.006
Identities = 43/197 (21%), Positives = 73/197 (37%), Gaps = 44/197 (22%)
Query: 421 LKLIADIGLVGFPNAGKSTFLKAISRARPKI-ASYPFTTIKPNVGVITFDDFRKMSVADL 479
++A +VG PN GKST ++ R I A P T G + R+ + D
Sbjct: 1 KPVVA---IVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLG-REFILIDT 56
Query: 480 PGLIEGAHRNLG-MGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKEL- 537
G+ + Q +E +I +VD + ++E+
Sbjct: 57 GGIEPDDDGFEKQIREQAELAIEEADVILFVVDGR--------------AGLTPADEEIA 102
Query: 538 -ELYKMNLLEKPIILLVNKMD-VEGAQEIYD------------------GIRDTLHNLKD 577
L K KP+IL+VNK+D + + Y+ GI D L + +
Sbjct: 103 KILRK---SNKPVILVVNKVDGPDEEADAYEFYSLGLGEPYPISAEHGRGIGDLLDAILE 159
Query: 578 HIHKYPEEFQPEKVIKF 594
+ + EE + ++ IK
Sbjct: 160 ELPEEEEEDEEDEPIKI 176
Score = 30.0 bits (69), Expect = 4.5
Identities = 11/61 (18%), Positives = 23/61 (37%), Gaps = 16/61 (26%)
Query: 299 KPIILLVNKMDVEGAQEIYDGIR-DTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKTN 357
+ ++++VNK +D + T+ K + + + I+ ISA T
Sbjct: 285 RALVIVVNK---------WDLVDEKTMEEFKKELR---RRLPF---LDYAPIVFISALTG 329
Query: 358 S 358
Sbjct: 330 Q 330
Score = 30.0 bits (69), Expect = 4.5
Identities = 11/61 (18%), Positives = 23/61 (37%), Gaps = 16/61 (26%)
Query: 547 KPIILLVNKMDVEGAQEIYDGIR-DTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKTN 605
+ ++++VNK +D + T+ K + + + I+ ISA T
Sbjct: 285 RALVIVVNK---------WDLVDEKTMEEFKKELR---RRLPF---LDYAPIVFISALTG 329
Query: 606 S 606
Sbjct: 330 Q 330
>gnl|CDD|225171 COG2262, HflX, GTPases [General function prediction only].
Length = 411
Score = 43.0 bits (102), Expect = 4e-04
Identities = 45/152 (29%), Positives = 68/152 (44%), Gaps = 26/152 (17%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 238
+ LVG+ NAGKST A++ A +A F T+ P I D RK+ + D G I
Sbjct: 195 VALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGDGRKVLLTDTVGFI--- 251
Query: 239 HRNLGMGHQ----FLRHVERTK---LIAMIVDVNGFQLGLKHP-KRSCVETVLLLNKELE 290
R+L H F +E K L+ +VD + P +E V +
Sbjct: 252 -RDL--PHPLVEAFKSTLEEVKEADLLLHVVDAS-------DPEILEKLEAVEDV----- 296
Query: 291 LYKMNLLEKPIILLVNKMDVEGAQEIYDGIRD 322
L ++ E PIIL++NK+D+ +EI +
Sbjct: 297 LAEIGADEIPIILVLNKIDLLEDEEILAELER 328
Score = 43.0 bits (102), Expect = 4e-04
Identities = 45/152 (29%), Positives = 68/152 (44%), Gaps = 26/152 (17%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 486
+ LVG+ NAGKST A++ A +A F T+ P I D RK+ + D G I
Sbjct: 195 VALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGDGRKVLLTDTVGFI--- 251
Query: 487 HRNLGMGHQ----FLRHVERTK---LIAMIVDVNGFQLGLKHP-KRSCVETVLLLNKELE 538
R+L H F +E K L+ +VD + P +E V +
Sbjct: 252 -RDL--PHPLVEAFKSTLEEVKEADLLLHVVDAS-------DPEILEKLEAVEDV----- 296
Query: 539 LYKMNLLEKPIILLVNKMDVEGAQEIYDGIRD 570
L ++ E PIIL++NK+D+ +EI +
Sbjct: 297 LAEIGADEIPIILVLNKIDLLEDEEILAELER 328
>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 = 41.0 bits (97), Expect = 5e-04
Identities = 39/205 (19%), Positives = 74/205 (36%), Gaps = 47/205 (22%)
Query: 179 IGLVGFPNAGKSTFLKAISRAR--PKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIE 236
+ G N GKS+ + A++ + + + P T N F+ K + DLPG
Sbjct: 2 VAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINF----FNVGDKFRLVDLPGY-- 55
Query: 237 GAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLL------NKELE 290
G+ + R K +I + L+ R ++ V+LL ++
Sbjct: 56 --------GYAKVSKEVREKWGKLIEEY------LE--NRENLKGVVLLIDARHGPTPID 99
Query: 291 LYKMNLLEK---PIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQ 347
L + LE+ P ++++ K D + L + K EE
Sbjct: 100 LEMLEFLEELGIPFLIVLTKAD-----------KLKKSELAKVLKKIKEEL--NLFNILP 146
Query: 348 SILPISAKTNSTDVNDAKLKIRSIL 372
++ S+K T +++ + I L
Sbjct: 147 PVILFSSKKG-TGIDELRALIAEWL 170
Score = 41.0 bits (97), Expect = 5e-04
Identities = 39/205 (19%), Positives = 74/205 (36%), Gaps = 47/205 (22%)
Query: 427 IGLVGFPNAGKSTFLKAISRAR--PKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIE 484
+ G N GKS+ + A++ + + + P T N F+ K + DLPG
Sbjct: 2 VAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINF----FNVGDKFRLVDLPGY-- 55
Query: 485 GAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLL------NKELE 538
G+ + R K +I + L+ R ++ V+LL ++
Sbjct: 56 --------GYAKVSKEVREKWGKLIEEY------LE--NRENLKGVVLLIDARHGPTPID 99
Query: 539 LYKMNLLEK---PIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQ 595
L + LE+ P ++++ K D + L + K EE
Sbjct: 100 LEMLEFLEELGIPFLIVLTKAD-----------KLKKSELAKVLKKIKEEL--NLFNILP 146
Query: 596 SILPISAKTNSTDVNDAKLKIRSIL 620
++ S+K T +++ + I L
Sbjct: 147 PVILFSSKKG-TGIDELRALIAEWL 170
>gnl|CDD|206666 cd01878, HflX, HflX GTPase family. HflX subfamily. A distinct
conserved domain with a glycine-rich segment N-terminal
of the GTPase domain characterizes the HflX subfamily.
The E. coli HflX has been implicated in the control of
the lambda cII repressor proteolysis, but the actual
biological functions of these GTPases remain unclear.
HflX is widespread, but not universally represented in
all three superkingdoms.
Length = 204
Score = 40.9 bits (97), Expect = 7e-04
Identities = 46/156 (29%), Positives = 70/156 (44%), Gaps = 26/156 (16%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 238
+ LVG+ NAGKST A++ A F T+ P I R++ + D G I
Sbjct: 44 VALVGYTNAGKSTLFNALTGADVLAEDQLFATLDPTTRRIKLPGGREVLLTDTVGFI--- 100
Query: 239 HRNLGMGHQ----F---LRHVERTKLIAMIVDVNGFQLGLKHPKR-SCVETVLLLNKELE 290
R+L HQ F L V L+ +VD + P R +ETV + KEL
Sbjct: 101 -RDL--PHQLVEAFRSTLEEVAEADLLLHVVDAS-------DPDREEQIETVEEVLKEL- 149
Query: 291 LYKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHN 326
+ PIIL++NK+D+ +E+ + +R +
Sbjct: 150 ----GADDIPIILVLNKIDLLDDEELEERLRAGRPD 181
Score = 40.9 bits (97), Expect = 7e-04
Identities = 46/156 (29%), Positives = 70/156 (44%), Gaps = 26/156 (16%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 486
+ LVG+ NAGKST A++ A F T+ P I R++ + D G I
Sbjct: 44 VALVGYTNAGKSTLFNALTGADVLAEDQLFATLDPTTRRIKLPGGREVLLTDTVGFI--- 100
Query: 487 HRNLGMGHQ----F---LRHVERTKLIAMIVDVNGFQLGLKHPKR-SCVETVLLLNKELE 538
R+L HQ F L V L+ +VD + P R +ETV + KEL
Sbjct: 101 -RDL--PHQLVEAFRSTLEEVAEADLLLHVVDAS-------DPDREEQIETVEEVLKEL- 149
Query: 539 LYKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHN 574
+ PIIL++NK+D+ +E+ + +R +
Sbjct: 150 ----GADDIPIILVLNKIDLLDDEELEERLRAGRPD 181
>gnl|CDD|234125 TIGR03156, GTP_HflX, GTP-binding protein HflX. This protein family
is one of a number of homologous small, well-conserved
GTP-binding proteins with pleiotropic effects. Bacterial
members are designated HflX, following the naming
convention in Escherichia coli where HflX is encoded
immediately downstream of the RNA chaperone Hfq, and
immediately upstream of HflKC, a membrane-associated
protease pair with an important housekeeping function.
Over large numbers of other bacterial genomes, the
pairing with hfq is more significant than with hflK and
hlfC. The gene from Homo sapiens in this family has been
named PGPL (pseudoautosomal GTP-binding protein-like)
[Unknown function, General].
Length = 351
Score = 40.5 bits (96), Expect = 0.002
Identities = 41/143 (28%), Positives = 61/143 (42%), Gaps = 32/143 (22%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 238
+ LVG+ NAGKST A++ A A F T+ P + D ++ + D G I
Sbjct: 192 VALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDGGEVLLTDTVGFI--- 248
Query: 239 HRNLGMGHQ----F---LRHVERTKLIAMIVDVNGFQLGLKHPKR----SCVETVLLLNK 287
R+L H+ F L V L+ +VD + P R VE VL +
Sbjct: 249 -RDL--PHELVAAFRATLEEVREADLLLHVVDAS-------DPDREEQIEAVEKVL---E 295
Query: 288 ELELYKMNLLEKPIILLVNKMDV 310
EL + P +L+ NK+D+
Sbjct: 296 EL-----GAEDIPQLLVYNKIDL 313
Score = 40.5 bits (96), Expect = 0.002
Identities = 41/143 (28%), Positives = 61/143 (42%), Gaps = 32/143 (22%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 486
+ LVG+ NAGKST A++ A A F T+ P + D ++ + D G I
Sbjct: 192 VALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDGGEVLLTDTVGFI--- 248
Query: 487 HRNLGMGHQ----F---LRHVERTKLIAMIVDVNGFQLGLKHPKR----SCVETVLLLNK 535
R+L H+ F L V L+ +VD + P R VE VL +
Sbjct: 249 -RDL--PHELVAAFRATLEEVREADLLLHVVDAS-------DPDREEQIEAVEKVL---E 295
Query: 536 ELELYKMNLLEKPIILLVNKMDV 558
EL + P +L+ NK+D+
Sbjct: 296 EL-----GAEDIPQLLVYNKIDL 313
>gnl|CDD|232975 TIGR00437, feoB, ferrous iron transporter FeoB. FeoB (773 amino
acids in E. coli), a cytoplasmic membrane protein
required for iron(II) update, is encoded in an operon
with FeoA (75 amino acids), which is also required, and
is regulated by Fur. There appear to be two copies in
Archaeoglobus fulgidus and Clostridium acetobutylicum
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 591
Score = 40.9 bits (96), Expect = 0.002
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 183 GFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPG 233
G PN GKST A++ A + ++P T++ G + F + + DLPG
Sbjct: 1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQG-EDIEIVDLPG 50
Score = 40.9 bits (96), Expect = 0.002
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 431 GFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPG 481
G PN GKST A++ A + ++P T++ G + F + + DLPG
Sbjct: 1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQG-EDIEIVDLPG 50
>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 = 40.1 bits (95), Expect = 0.003
Identities = 65/275 (23%), Positives = 94/275 (34%), Gaps = 93/275 (33%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKI-ASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEG 237
+ +VG PN GKST ++ R I + P T G + R+ + D G+ E
Sbjct: 2 VAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGG-REFILIDTGGIEED 60
Query: 238 AHRNLGMGHQFLRHVERT----KLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKEL--EL 291
G+ Q E +I +VD E + ++E+ L
Sbjct: 61 DD---GLDKQIREQAEIAIEEADVILFVVDGR--------------EGLTPEDEEIAKWL 103
Query: 292 YKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILP 351
K KP+IL+ NK+D K+ EF + F +P
Sbjct: 104 RK---SGKPVILVANKID----------------GKKEDAVAA--EFYS---LGFGEPIP 139
Query: 352 ISA--KTNSTDVNDAKLKIRSILDLLAEEEQEMVDRELELDSIIIAHGGAGGNAQNGWLG 409
ISA D+ DA IL+LL EEE + E E I IA
Sbjct: 140 ISAEHGRGIGDLLDA------ILELLPEEE---EEEEEEDGPIKIA-------------- 176
Query: 410 RKGEELAVRLELKLIADIGLVGFPNAGKSTFLKAI 444
++G PN GKST + A+
Sbjct: 177 -------------------IIGRPNVGKSTLVNAL 192
Score = 32.4 bits (75), Expect = 0.74
Identities = 45/195 (23%), Positives = 70/195 (35%), Gaps = 48/195 (24%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKI-ASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEG 485
+ +VG PN GKST ++ R I + P T G + R+ + D G+ E
Sbjct: 2 VAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGG-REFILIDTGGIEED 60
Query: 486 AHRNLGMGHQFLRHVER----TKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKEL--EL 539
G+ Q E +I +VD E + ++E+ L
Sbjct: 61 DD---GLDKQIREQAEIAIEEADVILFVVDGR--------------EGLTPEDEEIAKWL 103
Query: 540 YKMNLLEKPIILLVNKMD----VEGAQEIY---------------DGIRDTLHNLKDHIH 580
K KP+IL+ NK+D A E Y GI D L + + +
Sbjct: 104 RK---SGKPVILVANKIDGKKEDAVAAEFYSLGFGEPIPISAEHGRGIGDLLDAILELLP 160
Query: 581 KYPE-EFQPEKVIKF 594
+ E E + + IK
Sbjct: 161 EEEEEEEEEDGPIKI 175
>gnl|CDD|223556 COG0480, FusA, Translation elongation factors (GTPases)
[Translation, ribosomal structure and biogenesis].
Length = 697
Score = 39.5 bits (93), Expect = 0.005
Identities = 56/264 (21%), Positives = 94/264 (35%), Gaps = 70/264 (26%)
Query: 418 RLELKLIADIGLVGFPNAGKSTFL-------KAISRA---RPKIASYPFT--------TI 459
+ L+ I +IG+V +AGK+T IS+ A+ + TI
Sbjct: 4 LMPLERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITI 63
Query: 460 KPNVGVITFDDFRKMSVADLPGLIEGAHRNLGMGHQFLRHVERTKLIA----MIVDVN-G 514
+ + ++++ D PG ++ F VER+ + ++VD G
Sbjct: 64 TSAATTLFWKGDYRINLIDTPGHVD-----------FTIEVERSLRVLDGAVVVVDAVEG 112
Query: 515 FQLGLKHPKRSCVETVLLLNKELELYKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHN 574
+ ETV ++ + Y + P IL VNKMD GA +
Sbjct: 113 VEPQT--------ETVW---RQADKYGV-----PRILFVNKMDRLGA-----DFYLVVEQ 151
Query: 575 LKDHIHKYPEEFQPEKVIKFQSILPISAKTNSTDVNDAKLKIRSILDLLAEEE-----QE 629
LK+ + P Q LPI A+ V D A+ E +
Sbjct: 152 LKERLGANPVPVQ----------LPIGAEEEFEGVIDLVEMKAVAFGDGAKYEWIEIPAD 201
Query: 630 MVDRELELVKKLKSSLREHQGEMI 653
+ + E +KL +L E E++
Sbjct: 202 LKEIAEEAREKLLEALAEFDEELM 225
Score = 38.8 bits (91), Expect = 0.009
Identities = 54/260 (20%), Positives = 92/260 (35%), Gaps = 81/260 (31%)
Query: 170 RLELKLIADIGLVGFPNAGKSTFL-------KAISRA---RPKIASYPFT--------TI 211
+ L+ I +IG+V +AGK+T IS+ A+ + TI
Sbjct: 4 LMPLERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITI 63
Query: 212 KPNVGVITFDDFRKMSVADLPGLIEGAHRNLGMGHQFLRHVERTKLIA----MIVDVN-G 266
+ + ++++ D PG ++ F VER+ + ++VD G
Sbjct: 64 TSAATTLFWKGDYRINLIDTPGHVD-----------FTIEVERSLRVLDGAVVVVDAVEG 112
Query: 267 FQLGLKHPKRSCVETVLLLNKELELYKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHN 326
+ ETV ++ + Y + P IL VNKMD GA +
Sbjct: 113 VEPQT--------ETVW---RQADKYGV-----PRILFVNKMDRLGA-----DFYLVVEQ 151
Query: 327 LKDHIHKYPEEFQPEKVIKFQSILPISAKTNSTDVND------------AKLKIRSI--- 371
LK+ + P Q LPI A+ V D AK + I
Sbjct: 152 LKERLGANPVPVQ----------LPIGAEEEFEGVIDLVEMKAVAFGDGAKYEWIEIPAD 201
Query: 372 -LDLLAEEEQEMVDRELELD 390
++ E +++++ E D
Sbjct: 202 LKEIAEEAREKLLEALAEFD 221
>gnl|CDD|182934 PRK11058, PRK11058, GTPase HflX; Provisional.
Length = 426
Score = 38.9 bits (91), Expect = 0.006
Identities = 22/60 (36%), Positives = 30/60 (50%)
Query: 176 IADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLI 235
+ + LVG+ NAGKST I+ AR A F T+ P + I D + +AD G I
Sbjct: 197 VPTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADVGETVLADTVGFI 256
Score = 38.9 bits (91), Expect = 0.006
Identities = 22/60 (36%), Positives = 30/60 (50%)
Query: 424 IADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLI 483
+ + LVG+ NAGKST I+ AR A F T+ P + I D + +AD G I
Sbjct: 197 VPTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADVGETVLADTVGFI 256
>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 = 37.6 bits (88), Expect = 0.009
Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 16/69 (23%)
Query: 178 DIGLVGFPNAGKSTFLKAISR------------ARPKIASYPFTTIKPNVGVITFDDFRK 225
D+ +VG N GKST + A+ + R ++ P TT+ G+I
Sbjct: 127 DVYVVGATNVGKSTLINALLKSNGGKVQAQALVQRLTVSPIPGTTL----GLIKIPLGEG 182
Query: 226 MSVADLPGL 234
+ D PG+
Sbjct: 183 KKLYDTPGI 191
Score = 37.6 bits (88), Expect = 0.009
Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 16/69 (23%)
Query: 426 DIGLVGFPNAGKSTFLKAISR------------ARPKIASYPFTTIKPNVGVITFDDFRK 473
D+ +VG N GKST + A+ + R ++ P TT+ G+I
Sbjct: 127 DVYVVGATNVGKSTLINALLKSNGGKVQAQALVQRLTVSPIPGTTL----GLIKIPLGEG 182
Query: 474 MSVADLPGL 482
+ D PG+
Sbjct: 183 KKLYDTPGI 191
>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 = 36.7 bits (86), Expect = 0.014
Identities = 49/221 (22%), Positives = 82/221 (37%), Gaps = 72/221 (32%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFT----------------TIKPNVGVITFD- 221
IG++G + GK+T A+ I+ TIK + ++F+
Sbjct: 6 IGIIGHVDHGKTTLTDALLYVTGAISKESAKGARVLDKLKEERERGITIK--IAAVSFET 63
Query: 222 DFRKMSVADLPGLIEGAHRNLGMGHQFLRHVERTKLIA----MIVDVNGFQLGLKHPKRS 277
R +++ D PG H + F + + R A ++VD G+
Sbjct: 64 KKRLINIIDTPG-----HVD------FTKEMIRGASQADGAILVVDAVE---GVMPQ--- 106
Query: 278 CVETVLLLNKELELYKMNLLEKPIILLVNKMD-VEGA--QEIYDGIRDTLHNLKDHIHKY 334
LLL + + PII+ +NK+D V+ A +E+ + I L + KY
Sbjct: 107 -TREHLLL-----AKTLGV---PIIVFINKIDRVDDAELEEVVEEISREL------LEKY 151
Query: 335 PEEFQPEKVIKFQSILPISAKTNSTDVNDAKLKIRSILDLL 375
F E V ++P SA T I +L+ L
Sbjct: 152 --GFGGETVP----VVPGSALTG--------EGIDELLEAL 178
Score = 36.7 bits (86), Expect = 0.014
Identities = 49/221 (22%), Positives = 82/221 (37%), Gaps = 72/221 (32%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFT----------------TIKPNVGVITFD- 469
IG++G + GK+T A+ I+ TIK + ++F+
Sbjct: 6 IGIIGHVDHGKTTLTDALLYVTGAISKESAKGARVLDKLKEERERGITIK--IAAVSFET 63
Query: 470 DFRKMSVADLPGLIEGAHRNLGMGHQFLRHVERTKLIA----MIVDVNGFQLGLKHPKRS 525
R +++ D PG H + F + + R A ++VD G+
Sbjct: 64 KKRLINIIDTPG-----HVD------FTKEMIRGASQADGAILVVDAVE---GVMPQ--- 106
Query: 526 CVETVLLLNKELELYKMNLLEKPIILLVNKMD-VEGA--QEIYDGIRDTLHNLKDHIHKY 582
LLL + + PII+ +NK+D V+ A +E+ + I L + KY
Sbjct: 107 -TREHLLL-----AKTLGV---PIIVFINKIDRVDDAELEEVVEEISREL------LEKY 151
Query: 583 PEEFQPEKVIKFQSILPISAKTNSTDVNDAKLKIRSILDLL 623
F E V ++P SA T I +L+ L
Sbjct: 152 --GFGGETVP----VVPGSALTG--------EGIDELLEAL 178
>gnl|CDD|206644 cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf-like (Arl) small
GTPases. Arf (ADP-ribosylation factor)/Arl (Arf-like)
small GTPases. Arf proteins are activators of
phospholipase D isoforms. Unlike Ras proteins they lack
cysteine residues at their C-termini and therefore are
unlikely to be prenylated. Arfs are N-terminally
myristoylated. Members of the Arf family are regulators
of vesicle formation in intracellular traffic that
interact reversibly with membranes of the secretory and
endocytic compartments in a GTP-dependent manner. They
depart from other small GTP-binding proteins by a unique
structural device, interswitch toggle, that implements
front-back communication from N-terminus to the
nucleotide binding site. Arf-like (Arl) proteins are
close relatives of the Arf, but only Arl1 has been shown
to function in membrane traffic like the Arf proteins.
Arl2 has an unrelated function in the folding of native
tubulin, and Arl4 may function in the nucleus. Most
other Arf family proteins are so far relatively poorly
characterized. Thus, despite their significant sequence
homologies, Arf family proteins may regulate unrelated
functions.
Length = 158
Score = 36.4 bits (85), Expect = 0.016
Identities = 35/160 (21%), Positives = 61/160 (38%), Gaps = 40/160 (25%)
Query: 181 LVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGV----ITFDDFRKMSVADLPGLIE 236
++G AGK+T L K+ T P +G + + + K +V D+
Sbjct: 4 MLGLDGAGKTTILY-------KLKLGEVVTTIPTIGFNVETVEYKNV-KFTVWDV----- 50
Query: 237 GAHRNLGMGHQFLRH-VERTKLIAMIVDVNGFQLGLKHPKR-SCVETVLL-LNKELELYK 293
G + +H E T + +VD + +R + L L E EL
Sbjct: 51 GGQDKI---RPLWKHYYENTDGLIFVVDSS-------DRERIEEAKNELHKLLNEEELKG 100
Query: 294 MNLLEKPIILLVNKMDVEGA---QEIYDGIRDTLHNLKDH 330
P+++L NK D+ GA E+ + + L ++K
Sbjct: 101 A-----PLLILANKQDLPGALTESELIELLG--LESIKGR 133
Score = 36.4 bits (85), Expect = 0.016
Identities = 35/160 (21%), Positives = 61/160 (38%), Gaps = 40/160 (25%)
Query: 429 LVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGV----ITFDDFRKMSVADLPGLIE 484
++G AGK+T L K+ T P +G + + + K +V D+
Sbjct: 4 MLGLDGAGKTTILY-------KLKLGEVVTTIPTIGFNVETVEYKNV-KFTVWDV----- 50
Query: 485 GAHRNLGMGHQFLRH-VERTKLIAMIVDVNGFQLGLKHPKR-SCVETVLL-LNKELELYK 541
G + +H E T + +VD + +R + L L E EL
Sbjct: 51 GGQDKI---RPLWKHYYENTDGLIFVVDSS-------DRERIEEAKNELHKLLNEEELKG 100
Query: 542 MNLLEKPIILLVNKMDVEGA---QEIYDGIRDTLHNLKDH 578
P+++L NK D+ GA E+ + + L ++K
Sbjct: 101 A-----PLLILANKQDLPGALTESELIELLG--LESIKGR 133
>gnl|CDD|236563 PRK09554, feoB, ferrous iron transport protein B; Reviewed.
Length = 772
Score = 37.8 bits (88), Expect = 0.019
Identities = 18/55 (32%), Positives = 34/55 (61%), Gaps = 1/55 (1%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPG 233
IGL+G PN+GK+T ++ AR ++ ++ T++ G + D ++++ DLPG
Sbjct: 6 IGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTVERKEGQFSTTDH-QVTLVDLPG 59
Score = 37.8 bits (88), Expect = 0.019
Identities = 18/55 (32%), Positives = 34/55 (61%), Gaps = 1/55 (1%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPG 481
IGL+G PN+GK+T ++ AR ++ ++ T++ G + D ++++ DLPG
Sbjct: 6 IGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTVERKEGQFSTTDH-QVTLVDLPG 59
>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 = 36.2 bits (84), Expect = 0.035
Identities = 40/182 (21%), Positives = 64/182 (35%), Gaps = 40/182 (21%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 238
+ ++G PN GKST L + + I S T + + I ++ D PG E
Sbjct: 3 VAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTGASQIIFIDTPGFHEKK 62
Query: 239 HRN----LGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKM 294
H + + V+ LI +VD + E L K+
Sbjct: 63 HSLNRLMMKEARSAIGGVD---LILFVVD------SDQWNGDG----------EFVLTKL 103
Query: 295 NLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISA 354
L++P++L NK+D K P + + F+ I+PISA
Sbjct: 104 QNLKRPVVLTRNKLD-----------------NKFKDKLLPLIDKYAILEDFKDIVPISA 146
Query: 355 KT 356
T
Sbjct: 147 LT 148
Score = 36.2 bits (84), Expect = 0.035
Identities = 40/182 (21%), Positives = 64/182 (35%), Gaps = 40/182 (21%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 486
+ ++G PN GKST L + + I S T + + I ++ D PG E
Sbjct: 3 VAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTGASQIIFIDTPGFHEKK 62
Query: 487 HRN----LGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKM 542
H + + V+ LI +VD + E L K+
Sbjct: 63 HSLNRLMMKEARSAIGGVD---LILFVVD------SDQWNGDG----------EFVLTKL 103
Query: 543 NLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISA 602
L++P++L NK+D K P + + F+ I+PISA
Sbjct: 104 QNLKRPVVLTRNKLD-----------------NKFKDKLLPLIDKYAILEDFKDIVPISA 146
Query: 603 KT 604
T
Sbjct: 147 LT 148
>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 = 35.5 bits (83), Expect = 0.039
Identities = 40/188 (21%), Positives = 72/188 (38%), Gaps = 41/188 (21%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIAS-YPFTTIKPNVGVITFDDFRKMSVADLPGLIEG 237
I ++G PN GKS+ L A+ I S TT +D +K ++ D G+ +
Sbjct: 5 IAIIGRPNVGKSSLLNALLGEERVIVSDIAGTTRDSIDVPFEYDG-QKYTLIDTAGIRKK 63
Query: 238 AHRNLGM----GHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYK 293
G+ + L+ +ER ++ +++D G+ E +L
Sbjct: 64 GKVTEGIEKYSVLRTLKAIERADVVLLVLDA---SEGIT---------------EQDLRI 105
Query: 294 MNLLE---KPIILLVNKMD-VEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSI 349
L+ K +I++VNK D VE ++ L+ + + + I
Sbjct: 106 AGLILEEGKALIIVVNKWDLVEKDEKTMKEFEK---ELRRKLPF----------LDYAPI 152
Query: 350 LPISAKTN 357
+ ISA T
Sbjct: 153 VFISALTG 160
Score = 35.5 bits (83), Expect = 0.039
Identities = 40/188 (21%), Positives = 72/188 (38%), Gaps = 41/188 (21%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIAS-YPFTTIKPNVGVITFDDFRKMSVADLPGLIEG 485
I ++G PN GKS+ L A+ I S TT +D +K ++ D G+ +
Sbjct: 5 IAIIGRPNVGKSSLLNALLGEERVIVSDIAGTTRDSIDVPFEYDG-QKYTLIDTAGIRKK 63
Query: 486 AHRNLGM----GHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYK 541
G+ + L+ +ER ++ +++D G+ E +L
Sbjct: 64 GKVTEGIEKYSVLRTLKAIERADVVLLVLDA---SEGIT---------------EQDLRI 105
Query: 542 MNLLE---KPIILLVNKMD-VEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSI 597
L+ K +I++VNK D VE ++ L+ + + + I
Sbjct: 106 AGLILEEGKALIIVVNKWDLVEKDEKTMKEFEK---ELRRKLPF----------LDYAPI 152
Query: 598 LPISAKTN 605
+ ISA T
Sbjct: 153 VFISALTG 160
>gnl|CDD|133353 cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8) GTPases.
Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like
Arl4 and Arl7, are localized to the nucleus and
nucleolus. Arl5 is developmentally regulated during
embryogenesis in mice. Human Arl5 interacts with the
heterochromatin protein 1-alpha (HP1alpha), a nonhistone
chromosomal protein that is associated with
heterochromatin and telomeres, and prevents telomere
fusion. Arl5 may also play a role in embryonic nuclear
dynamics and/or signaling cascades. Arl8 was identified
from a fetal cartilage cDNA library. It is found in
brain, heart, lung, cartilage, and kidney. No function
has been assigned for Arl8 to date.
Length = 174
Score = 35.0 bits (81), Expect = 0.051
Identities = 47/173 (27%), Positives = 74/173 (42%), Gaps = 48/173 (27%)
Query: 170 RLELKLIADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVA 229
R E K+I +VG NAGK+T L + + P TI NV I + + R +
Sbjct: 13 RKEYKVI----IVGLDNAGKTTILYQFL-LGEVVHTSP--TIGSNVEEIVYKNIR-FLMW 64
Query: 230 DLPGLIEGAHRNLGMGHQFLR-----HVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLL 284
D+ G + LR + T + +++D S L
Sbjct: 65 DIGG------------QESLRSSWNTYYTNTDAVILVID-------------STDRERLP 99
Query: 285 LNKELELYKM----NLLEKPIILLVNKMDVEGAQ---EIYDGIRDTLHNLKDH 330
L KE ELYKM +L + +++L NK D++GA EI + + L +++DH
Sbjct: 100 LTKE-ELYKMLAHEDLRKAVLLVLANKQDLKGAMTPAEISESL--GLTSIRDH 149
Score = 35.0 bits (81), Expect = 0.051
Identities = 47/173 (27%), Positives = 74/173 (42%), Gaps = 48/173 (27%)
Query: 418 RLELKLIADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVA 477
R E K+I +VG NAGK+T L + + P TI NV I + + R +
Sbjct: 13 RKEYKVI----IVGLDNAGKTTILYQFL-LGEVVHTSP--TIGSNVEEIVYKNIR-FLMW 64
Query: 478 DLPGLIEGAHRNLGMGHQFLR-----HVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLL 532
D+ G + LR + T + +++D S L
Sbjct: 65 DIGG------------QESLRSSWNTYYTNTDAVILVID-------------STDRERLP 99
Query: 533 LNKELELYKM----NLLEKPIILLVNKMDVEGAQ---EIYDGIRDTLHNLKDH 578
L KE ELYKM +L + +++L NK D++GA EI + + L +++DH
Sbjct: 100 LTKE-ELYKMLAHEDLRKAVLLVLANKQDLKGAMTPAEISESL--GLTSIRDH 149
>gnl|CDD|206750 cd01857, HSR1_MMR1, A circularly permuted subfamily of the Ras
GTPases. Human HSR1 is localized to the human MHC class
I region and is highly homologous to a putative
GTP-binding protein, MMR1 from mouse. These proteins
represent a new subfamily of GTP-binding proteins that
has only eukaryote members. This subfamily shows a
circular permutation of the GTPase signature motifs so
that the C-terminal strands 5, 6, and 7 (strand 6
contains the G4 box with sequence NKXD) are relocated to
the N-terminus.
Length = 140
Score = 34.5 bits (80), Expect = 0.054
Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 15/64 (23%)
Query: 247 QFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLLE-KPIILLV 305
Q R +ER+ ++ IVD ++P + +LE Y + K +LL+
Sbjct: 4 QLWRVIERSDVVVQIVDA-------RNP-------LFFRCPDLEKYVKEVDPSKENVLLL 49
Query: 306 NKMD 309
NK D
Sbjct: 50 NKAD 53
Score = 34.5 bits (80), Expect = 0.054
Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 15/64 (23%)
Query: 495 QFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLLE-KPIILLV 553
Q R +ER+ ++ IVD ++P + +LE Y + K +LL+
Sbjct: 4 QLWRVIERSDVVVQIVDA-------RNP-------LFFRCPDLEKYVKEVDPSKENVLLL 49
Query: 554 NKMD 557
NK D
Sbjct: 50 NKAD 53
Score = 33.4 bits (77), Expect = 0.14
Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 15/63 (23%)
Query: 179 IGLVGFPNAGKSTFLKAI-SRARPKIASYP-----FTTIKPNVGVITFDDFRKMSVADLP 232
IGLVG+PN GKS+ + A+ + ++S P F TI G+ + D P
Sbjct: 85 IGLVGYPNVGKSSLINALVGSKKVSVSSTPGKTKHFQTIFLEPGIT---------LCDCP 135
Query: 233 GLI 235
GL+
Sbjct: 136 GLV 138
Score = 33.4 bits (77), Expect = 0.14
Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 15/63 (23%)
Query: 427 IGLVGFPNAGKSTFLKAI-SRARPKIASYP-----FTTIKPNVGVITFDDFRKMSVADLP 480
IGLVG+PN GKS+ + A+ + ++S P F TI G+ + D P
Sbjct: 85 IGLVGYPNVGKSSLINALVGSKKVSVSSTPGKTKHFQTIFLEPGIT---------LCDCP 135
Query: 481 GLI 483
GL+
Sbjct: 136 GLV 138
>gnl|CDD|206746 cd01849, YlqF_related_GTPase, Circularly permuted YlqF-related
GTPases. These proteins are found in bacteria,
eukaryotes, and archaea. They all exhibit a circular
permutation of the GTPase signature motifs so that the
order of the conserved G box motifs is G4-G5-G1-G2-G3,
with G4 and G5 being permuted from the C-terminal region
of proteins in the Ras superfamily to the N-terminus of
YlqF-related GTPases.
Length = 146
Score = 34.3 bits (79), Expect = 0.079
Identities = 14/57 (24%), Positives = 22/57 (38%), Gaps = 3/57 (5%)
Query: 178 DIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGL 234
+G+VG PN GKS+F+ A+ + D + D PG+
Sbjct: 93 RVGVVGLPNVGKSSFINALLNKFKLKVGS-IPGTTKLQQDVKLDKEIYL--YDTPGI 146
Score = 34.3 bits (79), Expect = 0.079
Identities = 14/57 (24%), Positives = 22/57 (38%), Gaps = 3/57 (5%)
Query: 426 DIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGL 482
+G+VG PN GKS+F+ A+ + D + D PG+
Sbjct: 93 RVGVVGLPNVGKSSFINALLNKFKLKVGS-IPGTTKLQQDVKLDKEIYL--YDTPGI 146
>gnl|CDD|206731 cd04168, TetM_like, Tet(M)-like family includes Tet(M), Tet(O),
Tet(W), and OtrA, containing tetracycline resistant
proteins. Tet(M), Tet(O), Tet(W), and OtrA are
tetracycline resistance genes found in Gram-positive and
Gram-negative bacteria. Tetracyclines inhibit protein
synthesis by preventing aminoacyl-tRNA from binding to
the ribosomal acceptor site. This subfamily contains
tetracycline resistance proteins that function through
ribosomal protection and are typically found on mobile
genetic elements, such as transposons or plasmids, and
are often conjugative. Ribosomal protection proteins are
homologous to the elongation factors EF-Tu and EF-G.
EF-G and Tet(M) compete for binding on the ribosomes.
Tet(M) has a higher affinity than EF-G, suggesting these
two proteins may have overlapping binding sites and that
Tet(M) must be released before EF-G can bind. Tet(M) and
Tet(O) have been shown to have ribosome-dependent GTPase
activity. These proteins are part of the GTP translation
factor family, which includes EF-G, EF-Tu, EF2, LepA,
and SelB.
Length = 237
Score = 34.5 bits (80), Expect = 0.11
Identities = 25/106 (23%), Positives = 41/106 (38%), Gaps = 11/106 (10%)
Query: 542 MNLLEK---PIILLVNKMDVEGA--QEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQS 596
LL K P I+ VNK+D GA +++Y I++ L D + P I +
Sbjct: 109 FRLLRKLNIPTIIFVNKIDRAGADLEKVYQEIKEKLSP--DIVPMQKVGLYPN--ICDTN 164
Query: 597 ILPISAKTNSTDVNDAKLKIRSILDLLAEEEQEMVDRELELVKKLK 642
+ + ND L+ L EE E+ + ++K
Sbjct: 165 NIDDEQIETVAEGNDELLEK--YLSGGPLEELELDNELSARIQKAS 208
Score = 33.4 bits (77), Expect = 0.28
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 5/36 (13%)
Query: 294 MNLLEK---PIILLVNKMDVEGA--QEIYDGIRDTL 324
LL K P I+ VNK+D GA +++Y I++ L
Sbjct: 109 FRLLRKLNIPTIIFVNKIDRAGADLEKVYQEIKEKL 144
>gnl|CDD|225438 COG2884, FtsE, Predicted ATPase involved in cell division [Cell
division and chromosome partitioning].
Length = 223
Score = 34.1 bits (79), Expect = 0.15
Identities = 18/69 (26%), Positives = 26/69 (37%), Gaps = 17/69 (24%)
Query: 181 LVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFR--KMSVADLPGLIEGA 238
L G AGKST LK I +P G I + ++ ++P L
Sbjct: 33 LTGPSGAGKSTLLKLIYGE-----------ERPTRGKILVNGHDLSRLKGREIPFL---- 77
Query: 239 HRNLGMGHQ 247
R +G+ Q
Sbjct: 78 RRQIGVVFQ 86
Score = 34.1 bits (79), Expect = 0.15
Identities = 18/69 (26%), Positives = 26/69 (37%), Gaps = 17/69 (24%)
Query: 429 LVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFR--KMSVADLPGLIEGA 486
L G AGKST LK I +P G I + ++ ++P L
Sbjct: 33 LTGPSGAGKSTLLKLIYGE-----------ERPTRGKILVNGHDLSRLKGREIPFL---- 77
Query: 487 HRNLGMGHQ 495
R +G+ Q
Sbjct: 78 RRQIGVVFQ 86
>gnl|CDD|206681 cd01894, EngA1, EngA1 GTPase contains the first domain of EngA.
This EngA1 subfamily CD represents the first 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 = 157
Score = 33.2 bits (77), Expect = 0.16
Identities = 34/143 (23%), Positives = 58/143 (40%), Gaps = 23/143 (16%)
Query: 181 LVGFPNAGKSTFLKAISRARPKI-ASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAH 239
+VG PN GKST ++ R I + P T G + R+ + D G+
Sbjct: 2 IVGRPNVGKSTLFNRLTGRRDAIVSDTPGVTRDRKYGEAEWGG-REFILIDTGGIEPDDE 60
Query: 240 RNLG-MGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKEL--ELYKMNL 296
+ Q +E +I +VD E + ++E+ L K
Sbjct: 61 GISKEIREQAEIAIEEADVILFVVDGR--------------EGLTPADEEIAKYLRK--- 103
Query: 297 LEKPIILLVNKMD-VEGAQEIYD 318
+KP+IL+VNK+D ++ +E +
Sbjct: 104 SKKPVILVVNKIDNIKEEEEAAE 126
Score = 33.2 bits (77), Expect = 0.16
Identities = 34/143 (23%), Positives = 58/143 (40%), Gaps = 23/143 (16%)
Query: 429 LVGFPNAGKSTFLKAISRARPKI-ASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAH 487
+VG PN GKST ++ R I + P T G + R+ + D G+
Sbjct: 2 IVGRPNVGKSTLFNRLTGRRDAIVSDTPGVTRDRKYGEAEWGG-REFILIDTGGIEPDDE 60
Query: 488 RNLG-MGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKEL--ELYKMNL 544
+ Q +E +I +VD E + ++E+ L K
Sbjct: 61 GISKEIREQAEIAIEEADVILFVVDGR--------------EGLTPADEEIAKYLRK--- 103
Query: 545 LEKPIILLVNKMD-VEGAQEIYD 566
+KP+IL+VNK+D ++ +E +
Sbjct: 104 SKKPVILVVNKIDNIKEEEEAAE 126
>gnl|CDD|224083 COG1161, COG1161, Predicted GTPases [General function prediction
only].
Length = 322
Score = 34.3 bits (79), Expect = 0.20
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 165 EELAVRLELKLIADIGLVGFPNAGKSTFLKAI-SRARPKIASYPFTT 210
+ L + LK +G+VG+PN GKST + + + K ++ P TT
Sbjct: 121 KRLKKKGLLKRKIRVGVVGYPNVGKSTLINRLLGKKVAKTSNRPGTT 167
Score = 34.3 bits (79), Expect = 0.20
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 413 EELAVRLELKLIADIGLVGFPNAGKSTFLKAI-SRARPKIASYPFTT 458
+ L + LK +G+VG+PN GKST + + + K ++ P TT
Sbjct: 121 KRLKKKGLLKRKIRVGVVGYPNVGKSTLINRLLGKKVAKTSNRPGTT 167
>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 = 34.0 bits (78), Expect = 0.27
Identities = 49/221 (22%), Positives = 89/221 (40%), Gaps = 56/221 (25%)
Query: 179 IGLVGFPNAGKSTFLKAISRA-RPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEG 237
+ +VG PN GKS+ L A+ + R ++ TT G + + + D G+ E
Sbjct: 206 LAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNGI-LIKLLDTAGIREH 264
Query: 238 AHR--NLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELY-KM 294
A LG+ F + +++ L+ ++D + P L K+ L +
Sbjct: 265 ADFVERLGIEKSF-KAIKQADLVIYVLDAS-------QP----------LTKDDFLIIDL 306
Query: 295 NLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISA 354
N +KP IL++NK+D+ I S
Sbjct: 307 NKSKKPFILVLNKIDL--------------------------------KINSLEFFVSSK 334
Query: 355 KTNSTDVNDAKLKIRSILDLLAEEEQEMVDREL-ELDSIII 394
NS++++ +LKI++++DLL ++ +E ELD +I
Sbjct: 335 VLNSSNLSAKQLKIKALVDLLTQKINAFYSKERVELDDYLI 375
Score = 31.3 bits (71), Expect = 1.5
Identities = 56/263 (21%), Positives = 105/263 (39%), Gaps = 65/263 (24%)
Query: 370 SILDLLAEEEQEMVDRELELDSIIIAHGGAGGNAQNGWLGRKGEELAVRLELKLIAD--- 426
S+L LLA+ E +D E + D N + + +++ +L+ + D
Sbjct: 153 SLLQLLAQVEV-NIDYEEDDDEQDSL------NQLLLSIIAELKDILNSYKLEKLDDGFK 205
Query: 427 IGLVGFPNAGKSTFLKAISRA-RPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEG 485
+ +VG PN GKS+ L A+ + R ++ TT G + + + D G+ E
Sbjct: 206 LAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNGI-LIKLLDTAGIREH 264
Query: 486 AHR--NLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELY-KM 542
A LG+ F + +++ L+ ++D + P L K+ L +
Sbjct: 265 ADFVERLGIEKSF-KAIKQADLVIYVLDAS-------QP----------LTKDDFLIIDL 306
Query: 543 NLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISA 602
N +KP IL++NK+D+ I S
Sbjct: 307 NKSKKPFILVLNKIDL--------------------------------KINSLEFFVSSK 334
Query: 603 KTNSTDVNDAKLKIRSILDLLAE 625
NS++++ +LKI++++DLL +
Sbjct: 335 VLNSSNLSAKQLKIKALVDLLTQ 357
>gnl|CDD|224045 COG1120, FepC, ABC-type cobalamin/Fe3+-siderophores transport
systems, ATPase components [Inorganic ion transport and
metabolism / Coenzyme metabolism].
Length = 258
Score = 33.3 bits (77), Expect = 0.29
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 15/56 (26%)
Query: 179 IGLVGFPN-AGKSTFLKAISRARPKIASYPFTTIKPNVGVITFD--DFRKMSVADL 231
G++G PN +GKST LK ++ +KP G + D D +S +L
Sbjct: 31 TGILG-PNGSGKSTLLKCLAG-----------LLKPKSGEVLLDGKDIASLSPKEL 74
Score = 33.3 bits (77), Expect = 0.29
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 15/56 (26%)
Query: 427 IGLVGFPN-AGKSTFLKAISRARPKIASYPFTTIKPNVGVITFD--DFRKMSVADL 479
G++G PN +GKST LK ++ +KP G + D D +S +L
Sbjct: 31 TGILG-PNGSGKSTLLKCLAG-----------LLKPKSGEVLLDGKDIASLSPKEL 74
>gnl|CDD|213181 cd03214, ABC_Iron-Siderophores_B12_Hemin, ATP-binding component of
iron-siderophores, vitamin B12 and hemin transporters
and related proteins. ABC transporters, involved in the
uptake of siderophores, heme, and vitamin B12, are
widely conserved in bacteria and archaea. Only very few
species lack representatives of the siderophore family
transporters. The E. coli BtuCD protein is an ABC
transporter mediating vitamin B12 uptake. The two
ATP-binding cassettes (BtuD) are in close contact with
each other, as are the two membrane-spanning subunits
(BtuC); this arrangement is distinct from that observed
for the E. coli lipid flippase MsbA. The BtuC subunits
provide 20 transmembrane helices grouped around a
translocation pathway that is closed to the cytoplasm by
a gate region, whereas the dimer arrangement of the BtuD
subunits resembles the ATP-bound form of the Rad50 DNA
repair enzyme. A prominent cytoplasmic loop of BtuC
forms the contact region with the ATP-binding cassette
and represent a conserved motif among the ABC
transporters.
Length = 180
Score = 32.8 bits (76), Expect = 0.31
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 13/45 (28%)
Query: 179 IGLVGFPN-AGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDD 222
+G++G PN AGKST LK ++ +KP+ G I D
Sbjct: 28 VGILG-PNGAGKSTLLKTLAG-----------LLKPSSGEILLDG 60
Score = 32.8 bits (76), Expect = 0.31
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 13/45 (28%)
Query: 427 IGLVGFPN-AGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDD 470
+G++G PN AGKST LK ++ +KP+ G I D
Sbjct: 28 VGILG-PNGAGKSTLLKTLAG-----------LLKPSSGEILLDG 60
>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 = 32.9 bits (76), Expect = 0.41
Identities = 19/77 (24%), Positives = 30/77 (38%), Gaps = 15/77 (19%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 238
+ L+G AGKST L+ ++ ++P G + D + L G
Sbjct: 30 VALIGPSGAGKSTLLRCLNG-----------LVEPTSGSVLIDG---TDINKLKGKALRQ 75
Query: 239 HR-NLGMGHQFLRHVER 254
R +GM Q +ER
Sbjct: 76 LRRQIGMIFQQFNLIER 92
Score = 32.9 bits (76), Expect = 0.41
Identities = 19/77 (24%), Positives = 30/77 (38%), Gaps = 15/77 (19%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 486
+ L+G AGKST L+ ++ ++P G + D + L G
Sbjct: 30 VALIGPSGAGKSTLLRCLNG-----------LVEPTSGSVLIDG---TDINKLKGKALRQ 75
Query: 487 HR-NLGMGHQFLRHVER 502
R +GM Q +ER
Sbjct: 76 LRRQIGMIFQQFNLIER 92
>gnl|CDD|206753 cd04178, Nucleostemin_like, A circularly permuted subfamily of the
Ras GTPases. Nucleostemin (NS) is a nucleolar protein
that functions as a regulator of cell growth and
proliferation in stem cells and in several types of
cancer cells, but is not expressed in the differentiated
cells of most mammalian adult tissues. NS shuttles
between the nucleolus and nucleoplasm bidirectionally at
a rate that is fast and independent of cell type.
Lowering GTP levels decreases the nucleolar retention of
NS, and expression of NS is abruptly down-regulated
during differentiation prior to terminal cell division.
Found only in eukaryotes, NS consists of an N-terminal
basic domain, a coiled-coil domain, a GTP-binding
domain, an intermediate domain, and a C-terminal acidic
domain. Experimental evidence indicates that NS uses its
GTP-binding property as a molecular switch to control
the transition between the nucleolus and nucleoplasm,
and this process involves interaction between the basic,
GTP-binding, and intermediate domains of the protein.
Length = 171
Score = 32.2 bits (74), Expect = 0.43
Identities = 10/22 (45%), Positives = 18/22 (81%)
Query: 179 IGLVGFPNAGKSTFLKAISRAR 200
+G+VG+PN GKS+ + ++ R+R
Sbjct: 119 VGVVGYPNVGKSSVINSLKRSR 140
Score = 32.2 bits (74), Expect = 0.43
Identities = 10/22 (45%), Positives = 18/22 (81%)
Query: 427 IGLVGFPNAGKSTFLKAISRAR 448
+G+VG+PN GKS+ + ++ R+R
Sbjct: 119 VGVVGYPNVGKSSVINSLKRSR 140
>gnl|CDD|199819 cd00050, MH2, C-terminal Mad Homology 2 (MH2) domain. The MH2
domain is found in the SMAD (small mothers against
decapentaplegic) family of proteins and is responsible
for type I receptor interactions,
phosphorylation-triggered homo- and
hetero-oligomerization, and transactivation. It is
negatively regulated by the N-terminal MH1 domain which
prevents it from forming a complex with SMAD4. The MH2
domain is multifunctional and provides SMADs with their
specificity and selectivity, as well as transcriptional
activity. Several transcriptional co-activators and
repressors have also been reported to regulate SMAD
signaling by interacting with the MH2 domain. Mutations
in the MH2 domains of SMAD2 and especially SMAD4 have
been detected in colorectal and other human cancers.
Length = 170
Score = 32.2 bits (73), Expect = 0.44
Identities = 21/84 (25%), Positives = 32/84 (38%), Gaps = 22/84 (26%)
Query: 4 EARGETVSPNMEALGAEVAMLCVKSK---QTLSEKSIFTKSRFLDSLSLYVKGGSGGNGQ 60
R ET+ +G V + V + + LS+ +IF +SR LD
Sbjct: 46 VNRNETIERTRRHIGKGVHLYYVGGEVWAECLSDHAIFVQSRNLDYP------------- 92
Query: 61 PKYGGLGGRGGNVVCKVKAGASLE 84
GR VCK+ G S++
Sbjct: 93 ------HGRHPLTVCKIPPGCSIK 110
>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 = 31.5 bits (72), Expect = 0.54
Identities = 26/86 (30%), Positives = 36/86 (41%), Gaps = 16/86 (18%)
Query: 181 LVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAHR 240
+VG P +GKSTF + + R + V++ D RK D P I R
Sbjct: 4 MVGLPGSGKSTFARRLLRELGAV-------------VLSSDTLRKRLRGDGPPDISYYAR 50
Query: 241 NLGMGHQFLRHVERTKLIA---MIVD 263
G +Q L + R L A +IVD
Sbjct: 51 ASGRVYQRLLELAREALRAGRPVIVD 76
Score = 31.5 bits (72), Expect = 0.54
Identities = 26/86 (30%), Positives = 36/86 (41%), Gaps = 16/86 (18%)
Query: 429 LVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGAHR 488
+VG P +GKSTF + + R + V++ D RK D P I R
Sbjct: 4 MVGLPGSGKSTFARRLLRELGAV-------------VLSSDTLRKRLRGDGPPDISYYAR 50
Query: 489 NLGMGHQFLRHVERTKLIA---MIVD 511
G +Q L + R L A +IVD
Sbjct: 51 ASGRVYQRLLELAREALRAGRPVIVD 76
>gnl|CDD|215710 pfam00091, Tubulin, Tubulin/FtsZ family, GTPase domain. This
family includes the tubulin alpha, beta and gamma
chains, as well as the bacterial FtsZ family of
proteins. Members of this family are involved in polymer
formation. FtsZ is the polymer-forming protein of
bacterial cell division. It is part of a ring in the
middle of the dividing cell that is required for
constriction of cell membrane and cell envelope to yield
two daughter cells. FtsZ and tubulin are GTPases. FtsZ
can polymerise into tubes, sheets, and rings in vitro
and is ubiquitous in eubacteria and archaea. Tubulin is
the major component of microtubules.
Length = 210
Score = 32.3 bits (74), Expect = 0.62
Identities = 13/37 (35%), Positives = 15/37 (40%), Gaps = 4/37 (10%)
Query: 369 RSILDLLAEEEQEMVDRELE----LDSIIIAHGGAGG 401
AEE E + +ELE LD I G GG
Sbjct: 95 YYTHKEAAEESLEEIRKELEKCDGLDGFFITAGLGGG 131
>gnl|CDD|234755 PRK00419, PRK00419, DNA primase small subunit; Reviewed.
Length = 376
Score = 32.3 bits (74), Expect = 0.71
Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 5/84 (5%)
Query: 370 SILDLLAEEEQEMVD----RELELDSIIIAHGGAGGNAQNGWLGRKGEEL-AVRLELKLI 424
+L+L ++E +E+VD L + +I G +GW R L L+ +
Sbjct: 159 DVLELDSDERREIVDYVSGAGLPFEELIREEAVRGTGRPSGWGRRFARRLGYFIDHLREL 218
Query: 425 ADIGLVGFPNAGKSTFLKAISRAR 448
A L F G+ T K + AR
Sbjct: 219 ALERLEEFDGIGEGTAKKILKAAR 242
>gnl|CDD|226592 COG4107, PhnK, ABC-type phosphonate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 258
Score = 31.6 bits (72), Expect = 0.91
Identities = 22/74 (29%), Positives = 31/74 (41%), Gaps = 17/74 (22%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 238
+G+VG +GK+T LK IS + P+ G +T+ R DL + E
Sbjct: 35 LGIVGESGSGKTTLLKCIS-----------GRLTPDAGTVTYRM-RDGQPRDLYTMSEAE 82
Query: 239 HRNL-----GMGHQ 247
R L G HQ
Sbjct: 83 RRRLLRTEWGFVHQ 96
Score = 31.6 bits (72), Expect = 0.91
Identities = 22/74 (29%), Positives = 31/74 (41%), Gaps = 17/74 (22%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 486
+G+VG +GK+T LK IS + P+ G +T+ R DL + E
Sbjct: 35 LGIVGESGSGKTTLLKCIS-----------GRLTPDAGTVTYRM-RDGQPRDLYTMSEAE 82
Query: 487 HRNL-----GMGHQ 495
R L G HQ
Sbjct: 83 RRRLLRTEWGFVHQ 96
>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 = 0.94
Identities = 17/59 (28%), Positives = 23/59 (38%), Gaps = 13/59 (22%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFD--DFRKMSVADLPGLI 235
+ +VG +GKST LK + R P G I D D R + + L I
Sbjct: 31 VAIVGPSGSGKSTLLKLLLR-----------LYDPTSGEILIDGVDLRDLDLESLRKNI 78
Score = 31.2 bits (72), Expect = 0.94
Identities = 17/59 (28%), Positives = 23/59 (38%), Gaps = 13/59 (22%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFD--DFRKMSVADLPGLI 483
+ +VG +GKST LK + R P G I D D R + + L I
Sbjct: 31 VAIVGPSGSGKSTLLKLLLR-----------LYDPTSGEILIDGVDLRDLDLESLRKNI 78
>gnl|CDD|213188 cd03221, ABCF_EF-3, ATP-binding cassette domain of elongation
factor 3, subfamily F. Elongation factor 3 (EF-3) is a
cytosolic protein required by fungal ribosomes for in
vitro protein synthesis and for in vivo growth. EF-3
stimulates the binding of the EF-1: GTP: aa-tRNA ternary
complex to the ribosomal A site by facilitated release
of the deacylated tRNA from the E site. The reaction
requires ATP hydrolysis. EF-3 contains two ATP
nucleotide binding sequence (NBS) motifs. NBSI is
sufficient for the intrinsic ATPase activity. NBSII is
essential for the ribosome-stimulated functions.
Length = 144
Score = 30.9 bits (71), Expect = 0.98
Identities = 13/19 (68%), Positives = 14/19 (73%)
Query: 179 IGLVGFPNAGKSTFLKAIS 197
IGLVG AGKST LK I+
Sbjct: 29 IGLVGRNGAGKSTLLKLIA 47
Score = 30.9 bits (71), Expect = 0.98
Identities = 13/19 (68%), Positives = 14/19 (73%)
Query: 427 IGLVGFPNAGKSTFLKAIS 445
IGLVG AGKST LK I+
Sbjct: 29 IGLVGRNGAGKSTLLKLIA 47
>gnl|CDD|223562 COG0488, Uup, ATPase components of ABC transporters with duplicated
ATPase domains [General function prediction only].
Length = 530
Score = 31.8 bits (73), Expect = 1.1
Identities = 13/20 (65%), Positives = 15/20 (75%), Gaps = 2/20 (10%)
Query: 179 IGLVGFPN-AGKSTFLKAIS 197
IGLVG N AGKST LK ++
Sbjct: 32 IGLVG-RNGAGKSTLLKILA 50
Score = 31.8 bits (73), Expect = 1.1
Identities = 13/20 (65%), Positives = 15/20 (75%), Gaps = 2/20 (10%)
Query: 427 IGLVGFPN-AGKSTFLKAIS 445
IGLVG N AGKST LK ++
Sbjct: 32 IGLVG-RNGAGKSTLLKILA 50
>gnl|CDD|213187 cd03220, ABC_KpsT_Wzt, ATP-binding cassette component of
polysaccharide transport system. The KpsT/Wzt ABC
transporter subfamily is involved in extracellular
polysaccharide export. Among the variety of
membrane-linked or extracellular polysaccharides
excreted by bacteria, only capsular polysaccharides,
lipopolysaccharides, and teichoic acids have been shown
to be exported by ABC transporters. A typical system is
made of a conserved integral membrane and an ABC. In
addition to these proteins, capsular polysaccharide
exporter systems require two 'accessory' proteins to
perform their function: a periplasmic (E.coli) or a
lipid-anchored outer membrane protein called OMA
(Neisseria meningitidis and Haemophilus influenza) and a
cytoplasmic membrane protein MPA2.
Length = 224
Score = 31.3 bits (72), Expect = 1.1
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 179 IGLVGFPNAGKSTFLKAISR 198
IGL+G AGKST L+ ++
Sbjct: 51 IGLIGRNGAGKSTLLRLLAG 70
Score = 31.3 bits (72), Expect = 1.1
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 427 IGLVGFPNAGKSTFLKAISR 446
IGL+G AGKST L+ ++
Sbjct: 51 IGLIGRNGAGKSTLLRLLAG 70
>gnl|CDD|237422 PRK13548, hmuV, hemin importer ATP-binding subunit; Provisional.
Length = 258
Score = 31.3 bits (72), Expect = 1.3
Identities = 11/20 (55%), Positives = 16/20 (80%), Gaps = 2/20 (10%)
Query: 179 IGLVGFPN-AGKSTFLKAIS 197
+ ++G PN AGKST L+A+S
Sbjct: 31 VAILG-PNGAGKSTLLRALS 49
Score = 31.3 bits (72), Expect = 1.3
Identities = 11/20 (55%), Positives = 16/20 (80%), Gaps = 2/20 (10%)
Query: 427 IGLVGFPN-AGKSTFLKAIS 445
+ ++G PN AGKST L+A+S
Sbjct: 31 VAILG-PNGAGKSTLLRALS 49
>gnl|CDD|224057 COG1134, TagH, ABC-type polysaccharide/polyol phosphate transport
system, ATPase component [Carbohydrate transport and
metabolism / Cell envelope biogenesis, outer membrane].
Length = 249
Score = 31.4 bits (72), Expect = 1.3
Identities = 18/60 (30%), Positives = 24/60 (40%), Gaps = 17/60 (28%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 238
+G++G AGKST LK I+ KP G + VA P + GA
Sbjct: 56 VGIIGHNGAGKSTLLKLIAGI-----------YKPTSGKVK----VTGKVA--PLIELGA 98
Score = 31.4 bits (72), Expect = 1.3
Identities = 18/60 (30%), Positives = 24/60 (40%), Gaps = 17/60 (28%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 486
+G++G AGKST LK I+ KP G + VA P + GA
Sbjct: 56 VGIIGHNGAGKSTLLKLIAGI-----------YKPTSGKVK----VTGKVA--PLIELGA 98
>gnl|CDD|235766 PRK06276, PRK06276, acetolactate synthase catalytic subunit;
Reviewed.
Length = 586
Score = 31.6 bits (72), Expect = 1.3
Identities = 23/72 (31%), Positives = 28/72 (38%), Gaps = 4/72 (5%)
Query: 577 DHIHKYPEEFQPEKVIKFQSILPISAKTN-STD---VNDAKLKIRSILDLLAEEEQEMVD 632
D F P I I P N D V DAK +R +L L ++E +
Sbjct: 282 DRTTGDISSFAPNAKIIHIDIDPAEIGKNVRVDVPIVGDAKNVLRDLLAELMKKEIKNKS 341
Query: 633 RELELVKKLKSS 644
LE VKKLK
Sbjct: 342 EWLERVKKLKKE 353
>gnl|CDD|206725 cd04160, Arfrp1, Arf-related protein 1 (Arfrp1). Arfrp1
(Arf-related protein 1), formerly known as ARP, is a
membrane-associated Arf family member that lacks the
N-terminal myristoylation motif. Arfrp1 is mainly
associated with the trans-Golgi compartment and the
trans-Golgi network, where it regulates the targeting of
Arl1 and the GRIP domain-containing proteins, golgin-97
and golgin-245, onto Golgi membranes. It is also
involved in the anterograde transport of the vesicular
stomatitis virus G protein from the Golgi to the plasma
membrane, and in the retrograde transport of TGN38 and
Shiga toxin from endosomes to the trans-Golgi network.
Arfrp1 also inhibits Arf/Sec7-dependent activation of
phospholipase D. Deletion of Arfrp1 in mice causes
embryonic lethality at the gastrulation stage and
apoptosis of mesodermal cells, indicating its importance
in development.
Length = 168
Score = 30.8 bits (70), Expect = 1.4
Identities = 33/182 (18%), Positives = 63/182 (34%), Gaps = 54/182 (29%)
Query: 179 IGLVGFPNAGKSTFLKAI-SRARPKIASYPFTTIKP----NVGVITFDDFRKMSVADLPG 233
+ ++G NAGK+TFL+ ++ + I P N+G I R M
Sbjct: 2 VLILGLDNAGKTTFLEQTKTKFSKNYKGLNPSKITPTVGLNIGTIEVGKARLM------- 54
Query: 234 LIEGAHRNLGMGHQFLRHV-----ERTKLIAMIVDV----------NGFQLGLKHPKRSC 278
+LG G + LR + + + ++D + F+ + +
Sbjct: 55 -----FWDLG-GQEELRSLWDKYYAESHGVIYVIDSTDRERFNESKSAFEKVINNEA--- 105
Query: 279 VETVLLLNKELELYKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEF 338
L P+++L NK D+ A + + I++ + I +
Sbjct: 106 -----------------LEGVPLLVLANKQDLPDALSVAE-IKEVFDDCIALIGRRDCLV 147
Query: 339 QP 340
QP
Sbjct: 148 QP 149
Score = 30.8 bits (70), Expect = 1.4
Identities = 33/182 (18%), Positives = 63/182 (34%), Gaps = 54/182 (29%)
Query: 427 IGLVGFPNAGKSTFLKAI-SRARPKIASYPFTTIKP----NVGVITFDDFRKMSVADLPG 481
+ ++G NAGK+TFL+ ++ + I P N+G I R M
Sbjct: 2 VLILGLDNAGKTTFLEQTKTKFSKNYKGLNPSKITPTVGLNIGTIEVGKARLM------- 54
Query: 482 LIEGAHRNLGMGHQFLRHV-----ERTKLIAMIVDV----------NGFQLGLKHPKRSC 526
+LG G + LR + + + ++D + F+ + +
Sbjct: 55 -----FWDLG-GQEELRSLWDKYYAESHGVIYVIDSTDRERFNESKSAFEKVINNEA--- 105
Query: 527 VETVLLLNKELELYKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEF 586
L P+++L NK D+ A + + I++ + I +
Sbjct: 106 -----------------LEGVPLLVLANKQDLPDALSVAE-IKEVFDDCIALIGRRDCLV 147
Query: 587 QP 588
QP
Sbjct: 148 QP 149
>gnl|CDD|206691 cd04105, SR_beta, Signal recognition particle receptor, beta
subunit (SR-beta), together with SR-alpha, forms the
heterodimeric signal recognition particle (SRP). Signal
recognition particle receptor, beta subunit (SR-beta).
SR-beta and SR-alpha form the heterodimeric signal
recognition particle (SRP or SR) receptor that binds SRP
to regulate protein translocation across the ER
membrane. Nascent polypeptide chains are synthesized
with an N-terminal hydrophobic signal sequence that
binds SRP54, a component of the SRP. SRP directs
targeting of the ribosome-nascent chain complex (RNC) to
the ER membrane via interaction with the SR, which is
localized to the ER membrane. The RNC is then
transferred to the protein-conducting channel, or
translocon, which facilitates polypeptide translation
across the ER membrane or integration into the ER
membrane. SR-beta is found only in eukaryotes; it is
believed to control the release of the signal sequence
from SRP54 upon binding of the ribosome to the
translocon. High expression of SR-beta has been observed
in human colon cancer, suggesting it may play a role in
the development of this type of cancer.
Length = 202
Score = 30.8 bits (70), Expect = 1.5
Identities = 28/134 (20%), Positives = 52/134 (38%), Gaps = 22/134 (16%)
Query: 181 LVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVA--DLPGLIEGA 238
L+G ++GK+ ++ T+I+PNV + + + D+PG
Sbjct: 5 LLGPSDSGKTALF---TKLTTGKVRSTVTSIEPNVASFYSNSSKGKKLTLVDVPG----- 56
Query: 239 HRNL-GMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLL 297
H L ++L+ K I +VD FQ ++ + L ++ +
Sbjct: 57 HEKLRDKLLEYLKA--SLKAIVFVVDSATFQ-------KNIRDVAEFL-YDILTDLEKIK 106
Query: 298 EKPIILLV-NKMDV 310
K IL+ NK D+
Sbjct: 107 NKIPILIACNKQDL 120
Score = 30.8 bits (70), Expect = 1.5
Identities = 28/134 (20%), Positives = 52/134 (38%), Gaps = 22/134 (16%)
Query: 429 LVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVA--DLPGLIEGA 486
L+G ++GK+ ++ T+I+PNV + + + D+PG
Sbjct: 5 LLGPSDSGKTALF---TKLTTGKVRSTVTSIEPNVASFYSNSSKGKKLTLVDVPG----- 56
Query: 487 HRNL-GMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELELYKMNLL 545
H L ++L+ K I +VD FQ ++ + L ++ +
Sbjct: 57 HEKLRDKLLEYLKA--SLKAIVFVVDSATFQ-------KNIRDVAEFL-YDILTDLEKIK 106
Query: 546 EKPIILLV-NKMDV 558
K IL+ NK D+
Sbjct: 107 NKIPILIACNKQDL 120
>gnl|CDD|206724 cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl10) GTPases.
Arl10-like subfamily. Arl9/Arl10 was identified from a
human cancer-derived EST dataset. No functional
information about the subfamily is available at the
current time, but crystal structures of human Arl10b and
Arl10c have been solved.
Length = 159
Score = 30.4 bits (69), Expect = 1.6
Identities = 36/144 (25%), Positives = 58/144 (40%), Gaps = 36/144 (25%)
Query: 178 DIGLVGFPNAGKSTFLKAISRARPKIASYPFTTI--------KPNVGVITFDDFRKMSVA 229
+I LVG N+GK+T + I+ + + P T+ K NV + +D
Sbjct: 1 EITLVGLQNSGKTTLVNVIASGQFSEDTIP--TVGFNMRKVTKGNVTIKVWD-------- 50
Query: 230 DLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKEL 289
+ G R M ++ R V I +VD + L+ K + LL K
Sbjct: 51 -----LGGQPRFRSMWERYCRGVN---AIVYVVDAADRE-KLEVAKNELHD---LLEKP- 97
Query: 290 ELYKMNLLEKPIILLVNKMDVEGA 313
+L P+++L NK D+ GA
Sbjct: 98 -----SLEGIPLLVLGNKNDLPGA 116
Score = 30.4 bits (69), Expect = 1.6
Identities = 36/144 (25%), Positives = 58/144 (40%), Gaps = 36/144 (25%)
Query: 426 DIGLVGFPNAGKSTFLKAISRARPKIASYPFTTI--------KPNVGVITFDDFRKMSVA 477
+I LVG N+GK+T + I+ + + P T+ K NV + +D
Sbjct: 1 EITLVGLQNSGKTTLVNVIASGQFSEDTIP--TVGFNMRKVTKGNVTIKVWD-------- 50
Query: 478 DLPGLIEGAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKEL 537
+ G R M ++ R V I +VD + L+ K + LL K
Sbjct: 51 -----LGGQPRFRSMWERYCRGVN---AIVYVVDAADRE-KLEVAKNELHD---LLEKP- 97
Query: 538 ELYKMNLLEKPIILLVNKMDVEGA 561
+L P+++L NK D+ GA
Sbjct: 98 -----SLEGIPLLVLGNKNDLPGA 116
>gnl|CDD|188954 cd09555, SAM_EPH-B6, SAM domain of EPH-B6 subfamily of tyrosine
kinase receptors. SAM (sterile alpha motif) domain of
EPH-B6 subfamily of receptor tyrosine kinases is a
C-terminal potential protein-protein interaction domain.
This domain is located in the cytoplasmic region of
EPH-B6 receptors and appears to mediate cell-cell
initiated signal transduction. Receptors of this type
are highly expressed in embryo and adult nervous system,
in thymus and also in T-cells. They are involved in
regulation of cell adhesion and migration. (EPH-B6
receptor is unusual; it fails to show catalytic activity
due to alteration in kinase domain). EPH-B6 may be
considered as a biomarker in some types of tumors;
EPH-B6 activates MAP kinase signaling in lung
adenocarcinoma, suppresses metastasis formation in
non-small cell lung cancer, and slows invasiveness in
some breast cancer cell lines.
Length = 69
Score = 28.7 bits (64), Expect = 1.6
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 216 GVITFDDFRKMSVADLPGL 234
G+ TF D ++S+ DLP L
Sbjct: 29 GLCTFSDVAQLSLEDLPAL 47
Score = 28.7 bits (64), Expect = 1.6
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 464 GVITFDDFRKMSVADLPGL 482
G+ TF D ++S+ DLP L
Sbjct: 29 GLCTFSDVAQLSLEDLPAL 47
>gnl|CDD|223296 COG0218, COG0218, Predicted GTPase [General function prediction
only].
Length = 200
Score = 30.7 bits (70), Expect = 1.9
Identities = 27/140 (19%), Positives = 56/140 (40%), Gaps = 29/140 (20%)
Query: 179 IGLVGFPNAGKSTFLKAISRARP--KIASYPFTTIKPNVGVITFDDFRKMSVADLPG--- 233
I G N GKS+ + A++ + + + P T N F+ ++ + DLPG
Sbjct: 27 IAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINF----FEVDDELRLVDLPGYGY 82
Query: 234 ---LIEGAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELE 290
E + + ++L K + +++D +HP + + E
Sbjct: 83 AKVPKEVKEKWKKLIEEYLEKRANLKGVVLLID-------ARHP---------PKDLDRE 126
Query: 291 LYK-MNLLEKPIILLVNKMD 309
+ + + L P+I+++ K D
Sbjct: 127 MIEFLLELGIPVIVVLTKAD 146
Score = 30.7 bits (70), Expect = 1.9
Identities = 27/140 (19%), Positives = 56/140 (40%), Gaps = 29/140 (20%)
Query: 427 IGLVGFPNAGKSTFLKAISRARP--KIASYPFTTIKPNVGVITFDDFRKMSVADLPG--- 481
I G N GKS+ + A++ + + + P T N F+ ++ + DLPG
Sbjct: 27 IAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINF----FEVDDELRLVDLPGYGY 82
Query: 482 ---LIEGAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELE 538
E + + ++L K + +++D +HP + + E
Sbjct: 83 AKVPKEVKEKWKKLIEEYLEKRANLKGVVLLID-------ARHP---------PKDLDRE 126
Query: 539 LYK-MNLLEKPIILLVNKMD 557
+ + + L P+I+++ K D
Sbjct: 127 MIEFLLELGIPVIVVLTKAD 146
>gnl|CDD|213202 cd03235, ABC_Metallic_Cations, ATP-binding cassette domain of the
metal-type transporters. This family includes
transporters involved in the uptake of various metallic
cations such as iron, manganese, and zinc. The ATPases
of this group of transporters are very similar to
members of iron-siderophore uptake family suggesting
that they share a common ancestor. The best
characterized metal-type ABC transporters are the
YfeABCD system of Y. pestis, the SitABCD system of
Salmonella enterica serovar Typhimurium, and the SitABCD
transporter of Shigella flexneri. Moreover other
uncharacterized homologs of these metal-type
transporters are mainly found in pathogens like
Haemophilus or enteroinvasive E. coli isolates.
Length = 213
Score = 30.6 bits (70), Expect = 2.0
Identities = 13/19 (68%), Positives = 15/19 (78%), Gaps = 2/19 (10%)
Query: 179 IGLVGFPN-AGKSTFLKAI 196
+ +VG PN AGKST LKAI
Sbjct: 28 LAIVG-PNGAGKSTLLKAI 45
Score = 30.6 bits (70), Expect = 2.0
Identities = 13/19 (68%), Positives = 15/19 (78%), Gaps = 2/19 (10%)
Query: 427 IGLVGFPN-AGKSTFLKAI 444
+ +VG PN AGKST LKAI
Sbjct: 28 LAIVG-PNGAGKSTLLKAI 45
>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 = 30.9 bits (71), Expect = 2.1
Identities = 52/222 (23%), Positives = 82/222 (36%), Gaps = 75/222 (33%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIAS-YPFTTIKPN--------VGVITFDDFRKMSVA 229
IG+ G NAGKS+ + A++ I S P TT P +G +
Sbjct: 9 IGIFGRRNAGKSSLINALTGQDIAIVSDVPGTTTDPVYKAMELLPLGPVVL--------I 60
Query: 230 DLPGLI-EGAHRNLGMGHQFLRHVERTK-------LIAMIVDVNGFQLGLKHPKRSCVET 281
D GL EG LG LR VE+T+ L ++VD
Sbjct: 61 DTAGLDDEGE---LGE----LR-VEKTREVLDKTDLALLVVD----------------AG 96
Query: 282 VLLLNKELELY-KMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQP 340
V ELEL ++ + P I+++NK+D + + E +
Sbjct: 97 VGPGEYELELIEELKERKIPYIVVINKID---------------------LGEESAELEK 135
Query: 341 EKVIKFQSILPISAKTNSTDVNDAKLKIRSILDLLAEEEQEM 382
+ + +SA T +LK +I++LL E+ +E
Sbjct: 136 LEKKFGLPPIFVSALTGE---GIDELK-EAIIELLPEDFEEP 173
Score = 30.9 bits (71), Expect = 2.1
Identities = 52/222 (23%), Positives = 82/222 (36%), Gaps = 75/222 (33%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIAS-YPFTTIKPN--------VGVITFDDFRKMSVA 477
IG+ G NAGKS+ + A++ I S P TT P +G +
Sbjct: 9 IGIFGRRNAGKSSLINALTGQDIAIVSDVPGTTTDPVYKAMELLPLGPVVL--------I 60
Query: 478 DLPGLI-EGAHRNLGMGHQFLRHVERTK-------LIAMIVDVNGFQLGLKHPKRSCVET 529
D GL EG LG LR VE+T+ L ++VD
Sbjct: 61 DTAGLDDEGE---LGE----LR-VEKTREVLDKTDLALLVVD----------------AG 96
Query: 530 VLLLNKELELY-KMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQP 588
V ELEL ++ + P I+++NK+D + + E +
Sbjct: 97 VGPGEYELELIEELKERKIPYIVVINKID---------------------LGEESAELEK 135
Query: 589 EKVIKFQSILPISAKTNSTDVNDAKLKIRSILDLLAEEEQEM 630
+ + +SA T +LK +I++LL E+ +E
Sbjct: 136 LEKKFGLPPIFVSALTGE---GIDELK-EAIIELLPEDFEEP 173
>gnl|CDD|237358 PRK13351, PRK13351, elongation factor G; Reviewed.
Length = 687
Score = 31.1 bits (71), Expect = 2.2
Identities = 23/112 (20%), Positives = 41/112 (36%), Gaps = 34/112 (30%)
Query: 298 EKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKTN 357
P ++ +NKMD GA + L ++++ K P Q LPI ++
Sbjct: 125 GIPRLIFINKMDRVGAD-----LFKVLEDIEERFGKRPLPLQ----------LPIGSEDG 169
Query: 358 STDVND---------------AKLKIRSILDLLAEEEQE----MVDRELELD 390
V D + ++ I + L EE +E +++ E D
Sbjct: 170 FEGVVDLITEPELHFSEGDGGSTVEEGPIPEELLEEVEEAREKLIEALAEFD 221
Score = 30.3 bits (69), Expect = 3.4
Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 5/38 (13%)
Query: 546 EKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYP 583
P ++ +NKMD GA + L ++++ K P
Sbjct: 125 GIPRLIFINKMDRVGAD-----LFKVLEDIEERFGKRP 157
>gnl|CDD|212103 cd10791, GH38N_AMII_like_1, N-terminal catalytic domain of mainly
uncharacterized eukaryotic proteins similar to
alpha-mannosidases; glycoside hydrolase family 38
(GH38). The subfamily of mainly uncharacterized
eukaryotic proteins shows sequence homology with class
II alpha-mannosidases (AlphaAMIIs). AlphaAMIIs possess
a-1,3, a-1,6, and a-1,2 hydrolytic activity, and
catalyze the degradation of N-linked oligosaccharides.
The N-terminal catalytic domain of alphaMII adopts a
structure consisting of parallel 7-stranded beta/alpha
barrel. This subfamily belongs to the GH38 family of
retaining glycosyl hydrolases, which employ a two-step
mechanism involving the formation of a covalent glycosyl
enzyme complex; two carboxylic acids positioned within
the active site act in concert: one as a catalytic
nucleophile and the other as a general acid/base
catalyst.
Length = 254
Score = 30.4 bits (69), Expect = 2.4
Identities = 11/36 (30%), Positives = 15/36 (41%)
Query: 236 EGAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGL 271
E R L + + R ++AM DV G GL
Sbjct: 99 ELLRRGLYLSKELDRRFGLPIIVAMQTDVPGHTWGL 134
Score = 30.4 bits (69), Expect = 2.4
Identities = 11/36 (30%), Positives = 15/36 (41%)
Query: 484 EGAHRNLGMGHQFLRHVERTKLIAMIVDVNGFQLGL 519
E R L + + R ++AM DV G GL
Sbjct: 99 ELLRRGLYLSKELDRRFGLPIIVAMQTDVPGHTWGL 134
>gnl|CDD|235246 PRK04184, PRK04184, DNA topoisomerase VI subunit B; Validated.
Length = 535
Score = 30.6 bits (70), Expect = 2.5
Identities = 17/87 (19%), Positives = 35/87 (40%), Gaps = 1/87 (1%)
Query: 563 EIYDGIRDTLHNLKDHI-HKYPEEFQPEKVIKFQSILPISAKTNSTDVNDAKLKIRSILD 621
EI +++ LK ++ K EE +K F+ +P A+ + + + I +L
Sbjct: 443 EIRLALQEVARKLKKYLSRKRKEEEAKKKAKTFEKYIPEIARKLAEILEKEEPDIEEVLA 502
Query: 622 LLAEEEQEMVDRELELVKKLKSSLREH 648
L ++ E + E E ++
Sbjct: 503 KLIGKKLEEEEVEEEEEEEAVVVESAK 529
Score = 29.9 bits (68), Expect = 5.2
Identities = 17/77 (22%), Positives = 34/77 (44%), Gaps = 1/77 (1%)
Query: 315 EIYDGIRDTLHNLKDHI-HKYPEEFQPEKVIKFQSILPISAKTNSTDVNDAKLKIRSILD 373
EI +++ LK ++ K EE +K F+ +P A+ + + + I +L
Sbjct: 443 EIRLALQEVARKLKKYLSRKRKEEEAKKKAKTFEKYIPEIARKLAEILEKEEPDIEEVLA 502
Query: 374 LLAEEEQEMVDRELELD 390
L ++ E + E E +
Sbjct: 503 KLIGKKLEEEEVEEEEE 519
>gnl|CDD|185391 PRK15494, era, GTPase Era; Provisional.
Length = 339
Score = 30.4 bits (68), Expect = 2.7
Identities = 19/59 (32%), Positives = 32/59 (54%), Gaps = 2/59 (3%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNV-GVITFDDFRKMSVADLPGLIE 236
+ ++G PN+GKST L I + I + T + + G+IT D ++ + D PG+ E
Sbjct: 55 VCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKD-TQVILYDTPGIFE 112
Score = 30.4 bits (68), Expect = 2.7
Identities = 19/59 (32%), Positives = 32/59 (54%), Gaps = 2/59 (3%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNV-GVITFDDFRKMSVADLPGLIE 484
+ ++G PN+GKST L I + I + T + + G+IT D ++ + D PG+ E
Sbjct: 55 VCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKD-TQVILYDTPGIFE 112
>gnl|CDD|233415 TIGR01444, fkbM_fam, methyltransferase, FkbM family. Members of
this family are characterized by two well-conserved
short regions separated by a variable in both sequence
and length. The first of the two regions is found in a
large number of proteins outside this subfamily, a
number of which have been characterized as
methyltransferases. One member of the present family,
FkbM, was shown to be required for a specific
methylation in the biosynthesis of the immunosuppressant
FK506 in Streptomyces strain MA6548.
Length = 144
Score = 29.6 bits (67), Expect = 2.7
Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 8/54 (14%)
Query: 279 VETVLLLNKELELYKMNLLEKPIILLVNKMDVEGAQ-EIYDGIRDTLHNLKDHI 331
VE V L +L + L+K +L K+DVEGA+ E+ G +TL + I
Sbjct: 93 VEVVTLD----DLVEEFGLDKVDLL---KIDVEGAELEVLRGAAETLLRKRPGI 139
Score = 29.6 bits (67), Expect = 2.7
Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 8/54 (14%)
Query: 527 VETVLLLNKELELYKMNLLEKPIILLVNKMDVEGAQ-EIYDGIRDTLHNLKDHI 579
VE V L +L + L+K +L K+DVEGA+ E+ G +TL + I
Sbjct: 93 VEVVTLD----DLVEEFGLDKVDLL---KIDVEGAELEVLRGAAETLLRKRPGI 139
>gnl|CDD|239388 cd03114, ArgK-like, The function of this protein family is unkown.
The protein sequences are similar to the ArgK protein in
E. coli. ArgK protein is a membrane ATPase which is
required for transporting arginine, ornithine and lysine
into the cells by the arginine and ornithine (AO system)
and lysine, arginine and ornithine (LAO) transport
systems.
Length = 148
Score = 29.2 bits (66), Expect = 3.3
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 179 IGLVGFPNAGKSTFLKAISRA 199
IG+ G P AGKST + A+ A
Sbjct: 2 IGITGVPGAGKSTLIDALITA 22
Score = 29.2 bits (66), Expect = 3.3
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 427 IGLVGFPNAGKSTFLKAISRA 447
IG+ G P AGKST + A+ A
Sbjct: 2 IGITGVPGAGKSTLIDALITA 22
>gnl|CDD|206722 cd04157, Arl6, Arf-like 6 (Arl6) GTPase. Arl6 (Arf-like 6) forms a
subfamily of the Arf family of small GTPases. Arl6
expression is limited to the brain and kidney in adult
mice, but it is expressed in the neural plate and
somites during embryogenesis, suggesting a possible role
for Arl6 in early development. Arl6 is also believed to
have a role in cilia or flagella function. Several
proteins have been identified that bind Arl6, including
Arl6 interacting protein (Arl6ip), and SEC61beta, a
subunit of the heterotrimeric conducting channel SEC61p.
Based on Arl6 binding to these effectors, Arl6 is also
proposed to play a role in protein transport, membrane
trafficking, or cell signaling during hematopoietic
maturation. At least three specific homozygous Arl6
mutations in humans have been found to cause
Bardet-Biedl syndrome, a disorder characterized by
obesity, retinopathy, polydactyly, renal and cardiac
malformations, learning disabilities, and
hypogenitalism. Older literature suggests that Arl6 is a
part of the Arl4/Arl7 subfamily, but analyses based on
more recent sequence data place Arl6 in its own
subfamily.
Length = 162
Score = 29.3 bits (66), Expect = 3.4
Identities = 36/163 (22%), Positives = 68/163 (41%), Gaps = 44/163 (26%)
Query: 182 VGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVA----DLPGLIEG 237
+G N+GK+T + + + + I P VG + F+K +++ D+ G +G
Sbjct: 5 LGLDNSGKTTIINQLKPSNAQSQ-----NIVPTVG-FNVESFKKGNLSFTAFDMSG--QG 56
Query: 238 AHRNL-------GMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELE 290
+R L G F+ ++ + + M+V + +L L HP + ++ +
Sbjct: 57 KYRGLWEHYYKNIQGIIFV--IDSSDRLRMVVAKDELELLLNHPD--------IKHRRI- 105
Query: 291 LYKMNLLEKPIILLVNKMDVEGAQ---EIYDGIRDTLHNLKDH 330
PI+ NKMD+ A +I + L N+KD
Sbjct: 106 ---------PILFYANKMDLPDALTAVKITQLLC--LENIKDK 137
Score = 29.3 bits (66), Expect = 3.4
Identities = 36/163 (22%), Positives = 68/163 (41%), Gaps = 44/163 (26%)
Query: 430 VGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVA----DLPGLIEG 485
+G N+GK+T + + + + I P VG + F+K +++ D+ G +G
Sbjct: 5 LGLDNSGKTTIINQLKPSNAQSQ-----NIVPTVG-FNVESFKKGNLSFTAFDMSG--QG 56
Query: 486 AHRNL-------GMGHQFLRHVERTKLIAMIVDVNGFQLGLKHPKRSCVETVLLLNKELE 538
+R L G F+ ++ + + M+V + +L L HP + ++ +
Sbjct: 57 KYRGLWEHYYKNIQGIIFV--IDSSDRLRMVVAKDELELLLNHPD--------IKHRRI- 105
Query: 539 LYKMNLLEKPIILLVNKMDVEGAQ---EIYDGIRDTLHNLKDH 578
PI+ NKMD+ A +I + L N+KD
Sbjct: 106 ---------PILFYANKMDLPDALTAVKITQLLC--LENIKDK 137
>gnl|CDD|213179 cd00267, ABC_ATPase, ATP-binding cassette transporter
nucleotide-binding domain. 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 = 157
Score = 29.1 bits (66), Expect = 3.7
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 179 IGLVGFPNAGKSTFLKAISR 198
+ LVG +GKST L+AI+
Sbjct: 28 VALVGPNGSGKSTLLRAIAG 47
Score = 29.1 bits (66), Expect = 3.7
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 427 IGLVGFPNAGKSTFLKAISR 446
+ LVG +GKST L+AI+
Sbjct: 28 VALVGPNGSGKSTLLRAIAG 47
>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 = 29.9 bits (68), Expect = 3.8
Identities = 10/34 (29%), Positives = 15/34 (44%), Gaps = 5/34 (14%)
Query: 297 LEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDH 330
+ P I+ +NKMD A TL L++
Sbjct: 115 AKLPRIIFINKMDRARAD-----FDKTLAALREA 143
Score = 29.9 bits (68), Expect = 3.8
Identities = 10/34 (29%), Positives = 15/34 (44%), Gaps = 5/34 (14%)
Query: 545 LEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDH 578
+ P I+ +NKMD A TL L++
Sbjct: 115 AKLPRIIFINKMDRARAD-----FDKTLAALREA 143
>gnl|CDD|235392 PRK05291, trmE, tRNA modification GTPase TrmE; Reviewed.
Length = 449
Score = 30.1 bits (69), Expect = 3.8
Identities = 20/105 (19%), Positives = 40/105 (38%), Gaps = 30/105 (28%)
Query: 547 KPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKTNS 606
KP+I+++NK D+ G ++ + + ++ ISAKT
Sbjct: 322 KPVIVVLNKADLTGEIDLEE-------------------------ENGKPVIRISAKTG- 355
Query: 607 TDVNDAKLKIRSILDLLAEEEQEMV----DRELELVKKLKSSLRE 647
+++ + I+ + QE V R LE +++ L
Sbjct: 356 EGIDELREAIKELAFGGFGGNQEGVFLTNARHLEALERALEHLER 400
>gnl|CDD|206727 cd04164, trmE, trmE is a tRNA modification GTPase. TrmE (MnmE,
ThdF, MSS1) is a 3-domain protein found in bacteria and
eukaryotes. It controls modification of the uridine at
the wobble position (U34) of tRNAs that read codons
ending with A or G in the mixed codon family boxes. TrmE
contains a GTPase domain that forms a canonical Ras-like
fold. It functions a molecular switch GTPase, and
apparently uses a conformational change associated with
GTP hydrolysis to promote the tRNA modification
reaction, in which the conserved cysteine in the
C-terminal domain is thought to function as a catalytic
residue. In bacteria that are able to survive in
extremely low pH conditions, TrmE regulates
glutamate-dependent acid resistance.
Length = 159
Score = 29.4 bits (67), Expect = 3.9
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 181 LVGFPNAGKSTFLKAISR 198
+ G PN GKS+ L A++
Sbjct: 8 IAGKPNVGKSSLLNALAG 25
Score = 29.4 bits (67), Expect = 3.9
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 429 LVGFPNAGKSTFLKAISR 446
+ G PN GKS+ L A++
Sbjct: 8 IAGKPNVGKSSLLNALAG 25
>gnl|CDD|224046 COG1121, ZnuC, ABC-type Mn/Zn transport systems, ATPase component
[Inorganic ion transport and metabolism].
Length = 254
Score = 29.9 bits (68), Expect = 4.0
Identities = 13/19 (68%), Positives = 14/19 (73%), Gaps = 2/19 (10%)
Query: 179 IGLVGFPN-AGKSTFLKAI 196
L+G PN AGKST LKAI
Sbjct: 33 TALIG-PNGAGKSTLLKAI 50
Score = 29.9 bits (68), Expect = 4.0
Identities = 13/19 (68%), Positives = 14/19 (73%), Gaps = 2/19 (10%)
Query: 427 IGLVGFPN-AGKSTFLKAI 444
L+G PN AGKST LKAI
Sbjct: 33 TALIG-PNGAGKSTLLKAI 50
>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 = 4.0
Identities = 10/43 (23%), Positives = 18/43 (41%), Gaps = 8/43 (18%)
Query: 181 LVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDF 223
++G P +G ST LKA++ + G I ++
Sbjct: 38 VLGRPGSGCSTLLKALANRTEG-------NVSVE-GDIHYNGI 72
Score = 29.5 bits (67), Expect = 4.0
Identities = 10/43 (23%), Positives = 18/43 (41%), Gaps = 8/43 (18%)
Query: 429 LVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDF 471
++G P +G ST LKA++ + G I ++
Sbjct: 38 VLGRPGSGCSTLLKALANRTEG-------NVSVE-GDIHYNGI 72
>gnl|CDD|227581 COG5256, TEF1, Translation elongation factor EF-1alpha (GTPase)
[Translation, ribosomal structure and biogenesis].
Length = 428
Score = 30.0 bits (68), Expect = 4.0
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 10/55 (18%)
Query: 301 IILLVNKMD-VEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISA 354
+I+ VNKMD V +E ++ I + L + P++ +PIS
Sbjct: 148 LIVAVNKMDLVSWDEERFEEIVSEVSKLLKMVGYNPKDVP---------FIPISG 193
Score = 30.0 bits (68), Expect = 4.0
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 10/55 (18%)
Query: 549 IILLVNKMD-VEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISA 602
+I+ VNKMD V +E ++ I + L + P++ +PIS
Sbjct: 148 LIVAVNKMDLVSWDEERFEEIVSEVSKLLKMVGYNPKDVP---------FIPISG 193
>gnl|CDD|223561 COG0486, ThdF, Predicted GTPase [General function prediction only].
Length = 454
Score = 30.2 bits (69), Expect = 4.0
Identities = 42/206 (20%), Positives = 69/206 (33%), Gaps = 91/206 (44%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPG----L 234
+ ++G PN GKS+ L A+ I V D+ G +
Sbjct: 220 VVIIGRPNVGKSSLLNALLGRDRAI------------------------VTDIAGTTRDV 255
Query: 235 IEGAHRNLGMGHQF-------LRH---------VERTK-------LIAMIVDVNGFQLGL 271
IE NL G +R +ER K L+ ++D +
Sbjct: 256 IE-EDINLN-GIPVRLVDTAGIRETDDVVERIGIERAKKAIEEADLVLFVLDASQ----- 308
Query: 272 KHPKRSCVETVLLLNKELELYKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHI 331
L ++L L ++ +KPII+++NK D+ E+
Sbjct: 309 -----------PLDKEDLALIELLPKKKPIIVVLNKADLVSKIEL--------------- 342
Query: 332 HKYPEEFQPEKVIKFQSILPISAKTN 357
+ EK+ +I+ ISAKT
Sbjct: 343 -------ESEKLANGDAIISISAKTG 361
Score = 30.2 bits (69), Expect = 4.0
Identities = 42/206 (20%), Positives = 69/206 (33%), Gaps = 91/206 (44%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPG----L 482
+ ++G PN GKS+ L A+ I V D+ G +
Sbjct: 220 VVIIGRPNVGKSSLLNALLGRDRAI------------------------VTDIAGTTRDV 255
Query: 483 IEGAHRNLGMGHQF-------LRH---------VERTK-------LIAMIVDVNGFQLGL 519
IE NL G +R +ER K L+ ++D +
Sbjct: 256 IE-EDINLN-GIPVRLVDTAGIRETDDVVERIGIERAKKAIEEADLVLFVLDASQ----- 308
Query: 520 KHPKRSCVETVLLLNKELELYKMNLLEKPIILLVNKMDVEGAQEIYDGIRDTLHNLKDHI 579
L ++L L ++ +KPII+++NK D+ E+
Sbjct: 309 -----------PLDKEDLALIELLPKKKPIIVVLNKADLVSKIEL--------------- 342
Query: 580 HKYPEEFQPEKVIKFQSILPISAKTN 605
+ EK+ +I+ ISAKT
Sbjct: 343 -------ESEKLANGDAIISISAKTG 361
>gnl|CDD|225448 COG2895, CysN, GTPases - Sulfate adenylate transferase subunit 1
[Inorganic ion transport and metabolism].
Length = 431
Score = 30.0 bits (68), Expect = 4.0
Identities = 10/43 (23%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 299 KPIILLVNKMD-VEGAQEIYDGIRDTLHNLKDHIHKYPEEFQP 340
+ +++ VNKMD V+ ++E+++ I + F P
Sbjct: 140 RHVVVAVNKMDLVDYSEEVFEAIVADYLAFAAQLGLKDVRFIP 182
Score = 30.0 bits (68), Expect = 4.0
Identities = 10/43 (23%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 547 KPIILLVNKMD-VEGAQEIYDGIRDTLHNLKDHIHKYPEEFQP 588
+ +++ VNKMD V+ ++E+++ I + F P
Sbjct: 140 RHVVVAVNKMDLVDYSEEVFEAIVADYLAFAAQLGLKDVRFIP 182
>gnl|CDD|215595 PLN03130, PLN03130, ABC transporter C family member; Provisional.
Length = 1622
Score = 30.5 bits (69), Expect = 4.1
Identities = 17/55 (30%), Positives = 24/55 (43%), Gaps = 13/55 (23%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFD--DFRKMSVADL 231
+G+VG AGKS+ L A+ F ++ G I D D K + DL
Sbjct: 1268 VGIVGRTGAGKSSMLNAL-----------FRIVELERGRILIDGCDISKFGLMDL 1311
Score = 30.5 bits (69), Expect = 4.1
Identities = 17/55 (30%), Positives = 24/55 (43%), Gaps = 13/55 (23%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFD--DFRKMSVADL 479
+G+VG AGKS+ L A+ F ++ G I D D K + DL
Sbjct: 1268 VGIVGRTGAGKSSMLNAL-----------FRIVELERGRILIDGCDISKFGLMDL 1311
>gnl|CDD|206729 cd04166, CysN_ATPS, CysN, together with protein CysD, forms the ATP
sulfurylase (ATPS) complex. CysN_ATPS subfamily. CysN,
together with protein CysD, form the ATP sulfurylase
(ATPS) complex in some bacteria and lower eukaryotes.
ATPS catalyzes the production of ATP sulfurylase (APS)
and pyrophosphate (PPi) from ATP and sulfate. CysD,
which catalyzes ATP hydrolysis, is a member of the ATP
pyrophosphatase (ATP PPase) family. CysN hydrolysis of
GTP is required for CysD hydrolysis of ATP; however,
CysN hydrolysis of GTP is not dependent on CysD
hydrolysis of ATP. CysN is an example of lateral gene
transfer followed by acquisition of new function. In
many organisms, an ATPS exists which is not
GTP-dependent and shares no sequence or structural
similarity to CysN.
Length = 209
Score = 29.5 bits (67), Expect = 4.2
Identities = 13/57 (22%), Positives = 25/57 (43%), Gaps = 12/57 (21%)
Query: 299 KPIILLVNKMD-VEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISA 354
+ +++ VNKMD V+ +E+++ I+ + F +PISA
Sbjct: 132 RHVVVAVNKMDLVDYDEEVFEEIKADYLAFAASLGIEDITF-----------IPISA 177
Score = 29.5 bits (67), Expect = 4.2
Identities = 13/57 (22%), Positives = 25/57 (43%), Gaps = 12/57 (21%)
Query: 547 KPIILLVNKMD-VEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISA 602
+ +++ VNKMD V+ +E+++ I+ + F +PISA
Sbjct: 132 RHVVVAVNKMDLVDYDEEVFEEIKADYLAFAASLGIEDITF-----------IPISA 177
>gnl|CDD|226164 COG3638, COG3638, ABC-type phosphate/phosphonate transport system,
ATPase component [Inorganic ion transport and
metabolism].
Length = 258
Score = 29.9 bits (68), Expect = 4.2
Identities = 26/92 (28%), Positives = 39/92 (42%), Gaps = 23/92 (25%)
Query: 168 AVRLELK---LIADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFD--D 222
V LE+ ++A IG G AGKST L++++ + P G I F+
Sbjct: 22 DVNLEINQGEMVAIIGPSG---AGKSTLLRSLNG-----------LVDPTSGEILFNGVQ 67
Query: 223 FRKMSVADLPGLIEGAHRNLGMGHQFLRHVER 254
K+ +L L R++GM Q V R
Sbjct: 68 ITKLKGKELRKL----RRDIGMIFQQFNLVPR 95
Score = 29.9 bits (68), Expect = 4.2
Identities = 26/92 (28%), Positives = 39/92 (42%), Gaps = 23/92 (25%)
Query: 416 AVRLELK---LIADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFD--D 470
V LE+ ++A IG G AGKST L++++ + P G I F+
Sbjct: 22 DVNLEINQGEMVAIIGPSG---AGKSTLLRSLNG-----------LVDPTSGEILFNGVQ 67
Query: 471 FRKMSVADLPGLIEGAHRNLGMGHQFLRHVER 502
K+ +L L R++GM Q V R
Sbjct: 68 ITKLKGKELRKL----RRDIGMIFQQFNLVPR 95
>gnl|CDD|131368 TIGR02315, ABC_phnC, phosphonate ABC transporter, ATP-binding
protein. Phosphonates are a class of
phosphorus-containing organic compound with a stable
direct C-P bond rather than a C-O-P linkage. A number of
bacterial species have operons, typically about 14 genes
in size, with genes for ATP-dependent transport of
phosphonates, degradation, and regulation of the
expression of the system. Members of this protein family
are the ATP-binding cassette component of tripartite ABC
transporters of phosphonates [Transport and binding
proteins, Anions].
Length = 243
Score = 29.6 bits (67), Expect = 4.4
Identities = 21/78 (26%), Positives = 33/78 (42%), Gaps = 17/78 (21%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFD--DFRKMSVADLPGLIE 236
+ ++G AGKST L+ I+R ++P+ G I + D K+ L
Sbjct: 31 VAIIGPSGAGKSTLLRCINR-----------LVEPSSGSILLEGTDITKLRGKKL----R 75
Query: 237 GAHRNLGMGHQFLRHVER 254
R +GM Q +ER
Sbjct: 76 KLRRRIGMIFQHYNLIER 93
Score = 29.6 bits (67), Expect = 4.4
Identities = 21/78 (26%), Positives = 33/78 (42%), Gaps = 17/78 (21%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFD--DFRKMSVADLPGLIE 484
+ ++G AGKST L+ I+R ++P+ G I + D K+ L
Sbjct: 31 VAIIGPSGAGKSTLLRCINR-----------LVEPSSGSILLEGTDITKLRGKKL----R 75
Query: 485 GAHRNLGMGHQFLRHVER 502
R +GM Q +ER
Sbjct: 76 KLRRRIGMIFQHYNLIER 93
>gnl|CDD|183044 PRK11231, fecE, iron-dicitrate transporter ATP-binding subunit;
Provisional.
Length = 255
Score = 29.6 bits (67), Expect = 4.7
Identities = 16/50 (32%), Positives = 20/50 (40%), Gaps = 16/50 (32%)
Query: 174 KLIADIGLVGFPNA-GKSTFLKAISRARPKIASYPFTTIKPNVGVITFDD 222
K+ A IG PN GKST LK +R + P G + D
Sbjct: 29 KITALIG----PNGCGKSTLLKCFAR-----------LLTPQSGTVFLGD 63
Score = 29.6 bits (67), Expect = 4.7
Identities = 16/50 (32%), Positives = 20/50 (40%), Gaps = 16/50 (32%)
Query: 422 KLIADIGLVGFPNA-GKSTFLKAISRARPKIASYPFTTIKPNVGVITFDD 470
K+ A IG PN GKST LK +R + P G + D
Sbjct: 29 KITALIG----PNGCGKSTLLKCFAR-----------LLTPQSGTVFLGD 63
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 28.4 bits (63), Expect = 4.9
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 179 IGLVGFPNAGKSTFLKAISRA 199
I + G P +GKST K ++
Sbjct: 2 ILITGPPGSGKSTLAKKLAEK 22
Score = 28.4 bits (63), Expect = 4.9
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 427 IGLVGFPNAGKSTFLKAISRA 447
I + G P +GKST K ++
Sbjct: 2 ILITGPPGSGKSTLAKKLAEK 22
>gnl|CDD|217899 pfam04108, APG17, Autophagy protein Apg17. Apg17 is required for
activating Apg1 protein kinases.
Length = 408
Score = 29.6 bits (67), Expect = 5.2
Identities = 11/79 (13%), Positives = 25/79 (31%), Gaps = 6/79 (7%)
Query: 306 NKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKTNSTDVNDAK 365
+V + D I + + + E+ +++ S ++ +
Sbjct: 134 YIKEVPAIRAQLDNILNQFDSDLRSLK---EQLINKRLKDVTLPFQSSFGADT---TSSN 187
Query: 366 LKIRSILDLLAEEEQEMVD 384
I +I L E E+ D
Sbjct: 188 PLISTIPSELNSLEHELAD 206
Score = 29.6 bits (67), Expect = 5.2
Identities = 11/79 (13%), Positives = 25/79 (31%), Gaps = 6/79 (7%)
Query: 554 NKMDVEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISAKTNSTDVNDAK 613
+V + D I + + + E+ +++ S ++ +
Sbjct: 134 YIKEVPAIRAQLDNILNQFDSDLRSLK---EQLINKRLKDVTLPFQSSFGADT---TSSN 187
Query: 614 LKIRSILDLLAEEEQEMVD 632
I +I L E E+ D
Sbjct: 188 PLISTIPSELNSLEHELAD 206
>gnl|CDD|213186 cd03219, ABC_Mj1267_LivG_branched, ATP-binding cassette component
of branched chain amino acids transport system. The
Mj1267/LivG ABC transporter subfamily is involved in the
transport of the hydrophobic amino acids leucine,
isoleucine and valine. MJ1267 is a branched-chain amino
acid transporter with 29% similarity to both the LivF
and LivG components of the E. coli branched-chain amino
acid transporter. MJ1267 contains an insertion from
residues 114 to 123 characteristic of LivG
(Leucine-Isoleucine-Valine) homologs. The branched-chain
amino acid transporter from E. coli comprises a
heterodimer of ABCs (LivF and LivG), a heterodimer of
six-helix TM domains (LivM and LivH), and one of two
alternative soluble periplasmic substrate binding
proteins (LivK or LivJ).
Length = 236
Score = 29.3 bits (67), Expect = 5.2
Identities = 23/72 (31%), Positives = 30/72 (41%), Gaps = 23/72 (31%)
Query: 180 GLVGFPN-AGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 238
GL+G PN AGK+T IS ++P G + FD D+ GL
Sbjct: 30 GLIG-PNGAGKTTLFNLISGF-----------LRPTSGSVLFDG------EDITGL--PP 69
Query: 239 HR--NLGMGHQF 248
H LG+G F
Sbjct: 70 HEIARLGIGRTF 81
Score = 29.3 bits (67), Expect = 5.2
Identities = 23/72 (31%), Positives = 30/72 (41%), Gaps = 23/72 (31%)
Query: 428 GLVGFPN-AGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 486
GL+G PN AGK+T IS ++P G + FD D+ GL
Sbjct: 30 GLIG-PNGAGKTTLFNLISGF-----------LRPTSGSVLFDG------EDITGL--PP 69
Query: 487 HR--NLGMGHQF 496
H LG+G F
Sbjct: 70 HEIARLGIGRTF 81
>gnl|CDD|188340 TIGR03575, selen_PSTK_euk, L-seryl-tRNA(Sec) kinase, eukaryotic.
Members of this protein are L-seryl-tRNA(Sec) kinase.
This enzyme is part of a two-step pathway in Eukaryota
and Archaea for performing selenocysteine biosynthesis
by changing serine misacylated on selenocysteine-tRNA to
selenocysteine. This enzyme performs the first step,
phosphorylation of the OH group of the serine side
chain. This family represents eukaryotic proteins with
this activity.
Length = 340
Score = 29.5 bits (66), Expect = 6.1
Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 9/43 (20%)
Query: 181 LVGFPNAGKSTFLKAIS-RARPKIASYPFTTIKPNVGVITFDD 222
L G P AGKST +++S R + V VIT+DD
Sbjct: 4 LCGLPAAGKSTLARSLSATLRRERGW--------AVAVITYDD 38
Score = 29.5 bits (66), Expect = 6.1
Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 9/43 (20%)
Query: 429 LVGFPNAGKSTFLKAIS-RARPKIASYPFTTIKPNVGVITFDD 470
L G P AGKST +++S R + V VIT+DD
Sbjct: 4 LCGLPAAGKSTLARSLSATLRRERGW--------AVAVITYDD 38
>gnl|CDD|226929 COG4559, COG4559, ABC-type hemin transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 259
Score = 29.2 bits (66), Expect = 6.3
Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 155 AQNGWLGRKGEEL--AVRLELKLIADIGLVGFPN-AGKSTFLKAIS 197
A+N G L V L+L+ + ++G PN AGKST LKA+S
Sbjct: 4 AENLSYSLAGRRLLDGVSLDLRPGEVLAILG-PNGAGKSTLLKALS 48
Score = 29.2 bits (66), Expect = 6.3
Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 403 AQNGWLGRKGEEL--AVRLELKLIADIGLVGFPN-AGKSTFLKAIS 445
A+N G L V L+L+ + ++G PN AGKST LKA+S
Sbjct: 4 AENLSYSLAGRRLLDGVSLDLRPGEVLAILG-PNGAGKSTLLKALS 48
>gnl|CDD|222856 PHA02530, pseT, polynucleotide kinase; Provisional.
Length = 300
Score = 29.2 bits (66), Expect = 7.1
Identities = 16/55 (29%), Positives = 21/55 (38%), Gaps = 15/55 (27%)
Query: 172 ELKLIADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKM 226
+K+I VG P +GKST AR A P + DD R+
Sbjct: 1 MMKIIL---TVGVPGSGKST------WAREFAAK------NPKAVNVNRDDLRQS 40
Score = 29.2 bits (66), Expect = 7.1
Identities = 16/55 (29%), Positives = 21/55 (38%), Gaps = 15/55 (27%)
Query: 420 ELKLIADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKM 474
+K+I VG P +GKST AR A P + DD R+
Sbjct: 1 MMKIIL---TVGVPGSGKST------WAREFAAK------NPKAVNVNRDDLRQS 40
>gnl|CDD|200938 pfam00025, Arf, ADP-ribosylation factor family. Pfam combines a
number of different Prosite families together.
Length = 174
Score = 28.3 bits (64), Expect = 7.6
Identities = 45/163 (27%), Positives = 68/163 (41%), Gaps = 42/163 (25%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 238
I ++G NAGK+T L + + TI NV +T+ + K +V D+ G
Sbjct: 17 ILILGLDNAGKTTILY---KLKLGEIVTTIPTIGFNVETVTYKNV-KFTVWDV-G----- 66
Query: 239 HRNLGMGHQFLRHVER-----TKLIAMIVDVNGFQLGLKHPKR---SCVETVLLLNKELE 290
G + LR + R T + +VD R + E LLN+E
Sbjct: 67 ------GQESLRPLWRNYFPNTDAVIFVVDSA-------DRDRIEEAKEELHALLNEE-- 111
Query: 291 LYKMNLLEKPIILLVNKMDVEGA---QEIYDGIRDTLHNLKDH 330
L + P+++L NK D+ GA EI + + LH LKD
Sbjct: 112 ----ELADAPLLILANKQDLPGAMSEAEIRELL--GLHELKDR 148
Score = 28.3 bits (64), Expect = 7.6
Identities = 45/163 (27%), Positives = 68/163 (41%), Gaps = 42/163 (25%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDFRKMSVADLPGLIEGA 486
I ++G NAGK+T L + + TI NV +T+ + K +V D+ G
Sbjct: 17 ILILGLDNAGKTTILY---KLKLGEIVTTIPTIGFNVETVTYKNV-KFTVWDV-G----- 66
Query: 487 HRNLGMGHQFLRHVER-----TKLIAMIVDVNGFQLGLKHPKR---SCVETVLLLNKELE 538
G + LR + R T + +VD R + E LLN+E
Sbjct: 67 ------GQESLRPLWRNYFPNTDAVIFVVDSA-------DRDRIEEAKEELHALLNEE-- 111
Query: 539 LYKMNLLEKPIILLVNKMDVEGA---QEIYDGIRDTLHNLKDH 578
L + P+++L NK D+ GA EI + + LH LKD
Sbjct: 112 ----ELADAPLLILANKQDLPGAMSEAEIRELL--GLHELKDR 148
>gnl|CDD|223775 COG0703, AroK, Shikimate kinase [Amino acid transport and
metabolism].
Length = 172
Score = 28.3 bits (64), Expect = 7.6
Identities = 13/30 (43%), Positives = 19/30 (63%), Gaps = 4/30 (13%)
Query: 179 IGLVGFPNAGKSTFLKAISRARPKIASYPF 208
I L+GF AGKST +A+++A + PF
Sbjct: 5 IVLIGFMGAGKSTIGRALAKA----LNLPF 30
Score = 28.3 bits (64), Expect = 7.6
Identities = 13/30 (43%), Positives = 19/30 (63%), Gaps = 4/30 (13%)
Query: 427 IGLVGFPNAGKSTFLKAISRARPKIASYPF 456
I L+GF AGKST +A+++A + PF
Sbjct: 5 IVLIGFMGAGKSTIGRALAKA----LNLPF 30
>gnl|CDD|214371 CHL00122, secA, preprotein translocase subunit SecA; Validated.
Length = 870
Score = 29.6 bits (67), Expect = 7.7
Identities = 23/95 (24%), Positives = 46/95 (48%), Gaps = 8/95 (8%)
Query: 549 IILLVNKMDVEGAQEIYDGIRDTLHNLKDHIHKYP-EEFQPEKVIKFQSILPISAKTNST 607
LL++ E I + L++LK+ + +F+ K++ S IS NS
Sbjct: 505 YDLLLSYKSNEKISTISQNFLNILNSLKNDLKFLSLSDFENLKILNEASE--ISIPKNSY 562
Query: 608 DVNDAKLKIRSILDLLAEEEQEMVDRELELVKKLK 642
+L +R + + L E+ +++ ++E ++VKKL
Sbjct: 563 -----QLSLRFLYNELLEKYKKLQEKEKKIVKKLG 592
>gnl|CDD|213214 cd03247, ABCC_cytochrome_bd, ATP-binding cassette domain of CydCD,
subfamily C. The CYD subfamily implicated in cytochrome
bd biogenesis. The CydC and CydD proteins are important
for the formation of cytochrome bd terminal oxidase of
E. coli and it has been proposed that they were
necessary for biosynthesis of the cytochrome bd quinol
oxidase and for periplasmic c-type cytochromes. CydCD
were proposed to determine a heterooligomeric complex
important for heme export into the periplasm or to be
involved in the maintenance of the proper redox state of
the periplasmic space. In Bacillus subtilis, the absence
of CydCD does not affect the presence of halo-cytochrome
c in the membrane and this observation suggests that
CydCD proteins are not involved in the export of heme in
this organism.
Length = 178
Score = 28.4 bits (64), Expect = 7.8
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 11/53 (20%)
Query: 171 LELKLIADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDF 223
LELK I L+G +GKST L+ ++ +KP G IT D
Sbjct: 23 LELKQGEKIALLGRSGSGKSTLLQLLTGD-----------LKPQQGEITLDGV 64
Score = 28.4 bits (64), Expect = 7.8
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 11/53 (20%)
Query: 419 LELKLIADIGLVGFPNAGKSTFLKAISRARPKIASYPFTTIKPNVGVITFDDF 471
LELK I L+G +GKST L+ ++ +KP G IT D
Sbjct: 23 LELKQGEKIALLGRSGSGKSTLLQLLTGD-----------LKPQQGEITLDGV 64
>gnl|CDD|129833 TIGR00750, lao, LAO/AO transport system ATPase. In E. coli,
mutation of this kinase blocks phosphorylation of two
transporter system periplasmic binding proteins and
consequently inhibits those transporters. This kinase is
also found in Gram-positive bacteria, archaea, and the
roundworm C. elegans. It may have a more general, but
still unknown function. Mutations have also been found
that do not phosphorylate the periplasmic binding
proteins, yet still allow transport. The ATPase activity
of this protein seems to be necessary, however
[Transport and binding proteins, Amino acids, peptides
and amines, Regulatory functions, Protein interactions].
Length = 300
Score = 29.0 bits (65), Expect = 8.2
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 179 IGLVGFPNAGKSTFLKAI 196
+G+ G P AGKST L+A+
Sbjct: 37 VGITGTPGAGKSTLLEAL 54
Score = 29.0 bits (65), Expect = 8.2
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 427 IGLVGFPNAGKSTFLKAI 444
+G+ G P AGKST L+A+
Sbjct: 37 VGITGTPGAGKSTLLEAL 54
>gnl|CDD|222867 PHA02546, 47, endonuclease subunit; Provisional.
Length = 340
Score = 28.8 bits (65), Expect = 8.4
Identities = 19/64 (29%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 585 EFQPEKVIKFQSILPISAKTNSTDVNDAKLKIRSILDLLAE--EEQEMVDRELELVKKLK 642
E + EKV+ I + +S+DV+D + +++S L LL E +E ++ D + VK +
Sbjct: 273 ESELEKVVHDLKI--VEKVDDSSDVDDDEEEVKSTLTLLNEYIDEIDITDEDKSAVKAIM 330
Query: 643 SSLR 646
+ L
Sbjct: 331 NELY 334
>gnl|CDD|172757 PRK14269, PRK14269, phosphate ABC transporter ATP-binding protein;
Provisional.
Length = 246
Score = 28.8 bits (64), Expect = 8.7
Identities = 15/48 (31%), Positives = 25/48 (52%)
Query: 157 NGWLGRKGEELAVRLELKLIADIGLVGFPNAGKSTFLKAISRARPKIA 204
N + G+K + ++++ L+G GKSTFL+ +R KIA
Sbjct: 9 NLFYGKKQALFDINMQIEQNKITALIGASGCGKSTFLRCFNRMNDKIA 56
Score = 28.8 bits (64), Expect = 8.7
Identities = 15/48 (31%), Positives = 25/48 (52%)
Query: 405 NGWLGRKGEELAVRLELKLIADIGLVGFPNAGKSTFLKAISRARPKIA 452
N + G+K + ++++ L+G GKSTFL+ +R KIA
Sbjct: 9 NLFYGKKQALFDINMQIEQNKITALIGASGCGKSTFLRCFNRMNDKIA 56
>gnl|CDD|112137 pfam03308, ArgK, ArgK protein. The ArgK protein acts as an ATPase
enzyme and as a kinase, and phosphorylates periplasmic
binding proteins involved in the LAO (lysine, arginine,
ornithine)/AO transport systems.
Length = 267
Score = 28.9 bits (65), Expect = 9.1
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 179 IGLVGFPNAGKSTFLKAI 196
+G+ G P AGKST ++A+
Sbjct: 32 VGITGVPGAGKSTLIEAL 49
Score = 28.9 bits (65), Expect = 9.1
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 427 IGLVGFPNAGKSTFLKAI 444
+G+ G P AGKST ++A+
Sbjct: 32 VGITGVPGAGKSTLIEAL 49
>gnl|CDD|236546 PRK09518, PRK09518, bifunctional cytidylate kinase/GTPase Der;
Reviewed.
Length = 712
Score = 29.0 bits (65), Expect = 9.3
Identities = 28/100 (28%), Positives = 41/100 (41%), Gaps = 11/100 (11%)
Query: 351 PISAKTNSTDVNDAKLKIRSILDLLAE------EEQEMVDRELELDSIIIAHGGAGGNAQ 404
+SA T ++++ L LDLL EEQE L+ + G
Sbjct: 201 FLSAADGVTTLDNSDLDFDETLDLLIGLVEDAIEEQEYDQYAANLEGYELDEGDEDLLEG 260
Query: 405 NGWLGRKGEELAVRLELKLIADIGLVGFPNAGKSTFLKAI 444
+G G+E A K + + +VG PN GKST + I
Sbjct: 261 SG--FVAGDEKAGP---KAVGVVAIVGRPNVGKSTLVNRI 295
>gnl|CDD|236515 PRK09435, PRK09435, membrane ATPase/protein kinase; Provisional.
Length = 332
Score = 28.6 bits (65), Expect = 9.3
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 179 IGLVGFPNAGKSTFLKA 195
IG+ G P GKSTF++A
Sbjct: 59 IGITGVPGVGKSTFIEA 75
Score = 28.6 bits (65), Expect = 9.3
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 427 IGLVGFPNAGKSTFLKA 443
IG+ G P GKSTF++A
Sbjct: 59 IGITGVPGVGKSTFIEA 75
>gnl|CDD|180120 PRK05506, PRK05506, bifunctional sulfate adenylyltransferase
subunit 1/adenylylsulfate kinase protein; Provisional.
Length = 632
Score = 29.1 bits (66), Expect = 10.0
Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 12/55 (21%)
Query: 301 IILLVNKMD-VEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISA 354
++L VNKMD V+ QE++D I + + I PISA
Sbjct: 160 VVLAVNKMDLVDYDQEVFDEIVADYRAFAAKL----------GLHDVTFI-PISA 203
Score = 29.1 bits (66), Expect = 10.0
Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 12/55 (21%)
Query: 549 IILLVNKMD-VEGAQEIYDGIRDTLHNLKDHIHKYPEEFQPEKVIKFQSILPISA 602
++L VNKMD V+ QE++D I + + I PISA
Sbjct: 160 VVLAVNKMDLVDYDQEVFDEIVADYRAFAAKL----------GLHDVTFI-PISA 203
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
0.317 0.137 0.386
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: 33,653,446
Number of extensions: 3462807
Number of successful extensions: 5259
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5109
Number of HSP's successfully gapped: 389
Length of query: 654
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 551
Effective length of database: 6,369,140
Effective search space: 3509396140
Effective search space used: 3509396140
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: 62 (28.1 bits)