RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15936
(665 letters)
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 584 bits (1509), Expect = 0.0
Identities = 225/424 (53%), Positives = 292/424 (68%), Gaps = 34/424 (8%)
Query: 245 KSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQR-----NELNAKVRMLREELQLLQEQ 299
Y+ K+E+ +L + EKE+ L L+ QR L +V LREE++ L+E
Sbjct: 12 DLESYEPQEYLNKLEDTKLKLLEKEKRLLLLEEQRLEAEGLRLKREVDRLREEIERLKEP 71
Query: 300 GSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPN 359
VG V++ +D + +VK KFVV+I +D + + P RVAL +SY++ ++LP
Sbjct: 72 PLIVGTVLEVLDDGRAIVKSSTGPKFVVNILSFVDRDLLEPGMRVALNRDSYSIVRVLPP 131
Query: 360 KVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLY 419
+VDP VS+M VE+ PD TYE +GGLD QI+EI+EV+ELP+K+PELF+ LGI PKGVLLY
Sbjct: 132 EVDPRVSVMEVEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLY 191
Query: 420 GPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMD 479
GPPGTGKTLLA+AVA+ T+ TFIRV GSELVQK+IGEG+R+VRELF +ARE APSIIF+D
Sbjct: 192 GPPGTGKTLLAKAVANQTDATFIRVVGSELVQKYIGEGARLVRELFELAREKAPSIIFID 251
Query: 480 EIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVT 539
EID+IG+ R +SG+ GD EVQRTMLELLNQLDGF+ N+
Sbjct: 252 EIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNV-------------------- 291
Query: 540 QEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTR 599
KVIMATNR DILDPALLRPGR DRKIEFP P+EE R +IL+IH+RKMNL
Sbjct: 292 ---------KVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLAD 342
Query: 600 GINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVMQKDSEKNMS 659
++L +A L G SGA++K +CTEAGM+A+RERR VT EDF AV KV++K + + +
Sbjct: 343 DVDLELLARLTEGFSGADLKAICTEAGMFAIRERRDEVTMEDFLKAVEKVVKKKKKLSST 402
Query: 660 IKKL 663
+ L
Sbjct: 403 ARYL 406
Score = 100 bits (252), Expect = 8e-23
Identities = 41/124 (33%), Positives = 68/124 (54%), Gaps = 5/124 (4%)
Query: 122 KSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQR-----NELNAKVRMLREELQLLQEQ 176
Y+ K+E+ +L + EKE+ L L+ QR L +V LREE++ L+E
Sbjct: 12 DLESYEPQEYLNKLEDTKLKLLEKEKRLLLLEEQRLEAEGLRLKREVDRLREEIERLKEP 71
Query: 177 GSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPN 236
VG V++ +D + +VK KFVV+I +D + + P RVAL +SY++ ++LP
Sbjct: 72 PLIVGTVLEVLDDGRAIVKSSTGPKFVVNILSFVDRDLLEPGMRVALNRDSYSIVRVLPP 131
Query: 237 KMDV 240
++D
Sbjct: 132 EVDP 135
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 495 bits (1277), Expect = e-172
Identities = 199/403 (49%), Positives = 274/403 (67%), Gaps = 29/403 (7%)
Query: 257 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVL 316
+ EL+ + + E LR L+A+ +L ++ L+ EL+ L+ V V++ +D +V+
Sbjct: 9 RNSELEEQIRQLELKLRDLEAENEKLERELERLKSELEKLKSPPLIVATVLEVLDDGRVV 68
Query: 317 VKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMVEKVPDS 376
VK +F+V++ ID + P RVAL +S + ++LP++ DP V M V + P+
Sbjct: 69 VKSSGGPQFLVNVSPFIDREKLKPGARVALNQQSLAIVEVLPSEKDPRVQAMEVIESPNV 128
Query: 377 TYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHH 436
TYE +GGL+ QI+E++E +ELP+K PELF+ +GI PKGVLLYGPPGTGKTLLA+AVAH
Sbjct: 129 TYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE 188
Query: 437 TECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGD 496
T TFIRV GSELVQKFIGEG+R+VRELF +ARE APSIIF+DEID+I + R +SG+ GD
Sbjct: 189 TNATFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGD 248
Query: 497 SEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATNR 556
EVQRT+++LL ++DGF+ N+ K+I ATNR
Sbjct: 249 REVQRTLMQLLAEMDGFDPRGNV-----------------------------KIIAATNR 279
Query: 557 IDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIAELMPGASGA 616
IDILDPA+LRPGR DR IE P P+EE RL+IL+IH+RKMNL ++L ++AEL GASGA
Sbjct: 280 IDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGA 339
Query: 617 EVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVMQKDSEKNMS 659
++K +CTEAGM+A+R+ R VT EDF A+ KVM K+ + +M
Sbjct: 340 DLKAICTEAGMFAIRDDRTEVTMEDFLKAIEKVMGKEEKDSME 382
Score = 66.8 bits (164), Expect = 1e-11
Identities = 31/107 (28%), Positives = 59/107 (55%)
Query: 134 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVL 193
+ EL+ + + E LR L+A+ +L ++ L+ EL+ L+ V V++ +D +V+
Sbjct: 9 RNSELEEQIRQLELKLRDLEAENEKLERELERLKSELEKLKSPPLIVATVLEVLDDGRVV 68
Query: 194 VKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDV 240
VK +F+V++ ID + P RVAL +S + ++LP++ D
Sbjct: 69 VKSSGGPQFLVNVSPFIDREKLKPGARVALNQQSLAIVEVLPSEKDP 115
Score = 55.6 bits (135), Expect = 4e-08
Identities = 19/44 (43%), Positives = 29/44 (65%)
Query: 519 IKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATNRIDILDP 562
+K +CTEAGM+A+R+ R VT EDF A+ KV+ + + +P
Sbjct: 341 LKAICTEAGMFAIRDDRTEVTMEDFLKAIEKVMGKEEKDSMEEP 384
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 402 bits (1035), Expect = e-136
Identities = 196/393 (49%), Positives = 265/393 (67%), Gaps = 29/393 (7%)
Query: 258 IEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLV 317
I EL + + + E R L+ ++ L ++ LR E++ L+ VG V++ +D +V+V
Sbjct: 1 ISELDVRIRKLEDEKRSLEKEKIRLERELERLRSEIERLRSPPLIVGTVLEVLDDNRVVV 60
Query: 318 KVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMVEKVPDST 377
K FVV++ ID + P RVAL ++ T+ +LP DPLV M VE+ P+ +
Sbjct: 61 KSSTGPNFVVNVSAFIDRKSLKPGARVALNQQTLTIVDVLPTSKDPLVKGMEVEERPNVS 120
Query: 378 YEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHT 437
YE +GGL+ QI+EI+E +ELP+KHPELF+ +GI PKGVLLYGPPGTGKTLLA+AVAH T
Sbjct: 121 YEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET 180
Query: 438 ECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGDS 497
TFIRV GSELV+K+IGEG+R+VRE+F +A+E APSIIF+DEID+I + R +SG+ GD
Sbjct: 181 NATFIRVVGSELVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDR 240
Query: 498 EVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATNRI 557
EVQRT+++LL +LDGF+ N+ KVI ATNR
Sbjct: 241 EVQRTLMQLLAELDGFDPRGNV-----------------------------KVIAATNRP 271
Query: 558 DILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIAELMPGASGAE 617
DILDPALLRPGR DR IE P P+ E RL+IL+IH+RKM L ++L IA++ GASGA+
Sbjct: 272 DILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEGASGAD 331
Query: 618 VKGVCTEAGMYALRERRVHVTQEDFEMAVAKVM 650
+K +CTEAGM+A+RE R +VT +DF AV KV+
Sbjct: 332 LKAICTEAGMFAIREERDYVTMDDFIKAVEKVL 364
Score = 52.5 bits (126), Expect = 4e-07
Identities = 32/105 (30%), Positives = 55/105 (52%)
Query: 135 IEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLV 194
I EL + + + E R L+ ++ L ++ LR E++ L+ VG V++ +D +V+V
Sbjct: 1 ISELDVRIRKLEDEKRSLEKEKIRLERELERLRSEIERLRSPPLIVGTVLEVLDDNRVVV 60
Query: 195 KVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMD 239
K FVV++ ID + P RVAL ++ T+ +LP D
Sbjct: 61 KSSTGPNFVVNVSAFIDRKSLKPGARVALNQQTLTIVDVLPTSKD 105
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 364 bits (935), Expect = e-120
Identities = 172/350 (49%), Positives = 239/350 (68%), Gaps = 29/350 (8%)
Query: 303 VGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVD 362
VG + + +D+ +V ++ V+I +D + P C V L N+++++ IL ++VD
Sbjct: 107 VGTLEEIIDENHAIVSSSVGPEYYVNILSFVDKEQLEPGCSVLLHNKTHSVVGILLDEVD 166
Query: 363 PLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPP 422
PLVS+M V+K P +Y +GGL+ QI+EIKE +ELP+ HPEL+D +GI PKGV+LYGPP
Sbjct: 167 PLVSVMKVDKAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPP 226
Query: 423 GTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEID 482
GTGKTLLA+AVA+ T TF+RV GSEL+QK++G+G ++VRELF +A E+APSI+F+DEID
Sbjct: 227 GTGKTLLAKAVANETSATFLRVVGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEID 286
Query: 483 SIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQED 542
+IG+ R ++ SGG+ E+QRTMLELLNQLDGF++ ++
Sbjct: 287 AIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDV----------------------- 323
Query: 543 FEMAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGIN 602
KVIMATNRI+ LDPAL+RPGRIDRKIEFP P+E+ + I IH+ KM L ++
Sbjct: 324 ------KVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVD 377
Query: 603 LRKIAELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVMQK 652
L + SGA++K +CTEAG+ ALRERR+ VTQ DF A KV+ +
Sbjct: 378 LEEFIMAKDELSGADIKAICTEAGLLALRERRMKVTQADFRKAKEKVLYR 427
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 345 bits (887), Expect = e-113
Identities = 168/402 (41%), Positives = 241/402 (59%), Gaps = 42/402 (10%)
Query: 257 KIEELQL---IVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKK 313
++E L + + E+++NL+R EL +EE++ +Q +G+ ++ +D
Sbjct: 30 ELEFLDIQEEYIKEEQKNLKR------ELIRA----KEEVKRIQSVPLVIGQFLEMIDSN 79
Query: 314 KVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMVEKV 373
+V + V I ++ + PN VAL S+ + ILP + D + L+ + +
Sbjct: 80 YGIVSSTSGSNYYVRILSTLNRELLKPNASVALHRHSHAVVDILPPEADSSIQLLQMSEK 139
Query: 374 PDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAV 433
PD TY +GGLD Q +EI+E +ELP+ PEL++ +GI P+GVLLYGPPGTGKT+LA+AV
Sbjct: 140 PDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAV 199
Query: 434 AHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGS 493
AHHT TFIRV GSE VQK++GEG RMVR++F +ARE+APSIIF+DE+DSI + R ++ +
Sbjct: 200 AHHTTATFIRVVGSEFVQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQT 259
Query: 494 GGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMA 553
G D EVQR +LELLNQ+DGF+ T N+ KVIMA
Sbjct: 260 GADREVQRILLELLNQMDGFDQTTNV-----------------------------KVIMA 290
Query: 554 TNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIAELMPGA 613
TNR D LDPALLRPGR+DRKIEFP P+ + I + + KMNL+ ++L
Sbjct: 291 TNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKI 350
Query: 614 SGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVMQKDSE 655
S A++ +C EAGM A+R+ R + +DFE V++K
Sbjct: 351 SAADIAAICQEAGMQAVRKNRYVILPKDFEKGYKTVVRKTDR 392
Score = 36.3 bits (84), Expect = 0.053
Identities = 26/109 (23%), Positives = 51/109 (46%), Gaps = 13/109 (11%)
Query: 134 KIEELQL---IVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKK 190
++E L + + E+++NL+R EL +EE++ +Q +G+ ++ +D
Sbjct: 30 ELEFLDIQEEYIKEEQKNLKR------ELIRA----KEEVKRIQSVPLVIGQFLEMIDSN 79
Query: 191 KVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMD 239
+V + V I ++ + PN VAL S+ + ILP + D
Sbjct: 80 YGIVSSTSGSNYYVRILSTLNRELLKPNASVALHRHSHAVVDILPPEAD 128
>gnl|CDD|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH.
HflB(FtsH) is a pleiotropic protein required for correct
cell division in bacteria. It has ATP-dependent zinc
metalloprotease activity. It was formerly designated
cell division protein FtsH [Cellular processes, Cell
division, Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 495
Score = 244 bits (625), Expect = 2e-73
Identities = 109/297 (36%), Positives = 171/297 (57%), Gaps = 30/297 (10%)
Query: 366 SLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTG 425
+ ++ E+ P T++ V G+D +E+ E+++ +K+P F LG PKGVLL GPPGTG
Sbjct: 42 AKLLNEEKPKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTG 100
Query: 426 KTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIG 485
KTLLA+AVA F +SGS+ V+ F+G G+ VR+LF A+++AP IIF+DEID++G
Sbjct: 101 KTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVG 160
Query: 486 SSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEM 545
R GG+ E ++T+ +LL ++DGF +
Sbjct: 161 RQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGV-------------------------- 194
Query: 546 AVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRK 605
VI ATNR D+LDPALLRPGR DR++ P+ + R +IL++H++ L ++L+
Sbjct: 195 ---IVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKA 251
Query: 606 IAELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVMQKDSEKNMSIKK 662
+A PG SGA++ + EA + A R+ + +T D E A+ +V+ +K+ I +
Sbjct: 252 VARRTPGFSGADLANLLNEAALLAARKNKTEITMNDIEEAIDRVIAGPEKKSRVISE 308
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 240 bits (615), Expect = 5e-72
Identities = 135/319 (42%), Positives = 181/319 (56%), Gaps = 42/319 (13%)
Query: 334 DINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKE 393
I+ V V + L K+LP++ ++ + D T + +GGL+ +E+KE
Sbjct: 204 AIDLVGEYIGVTEDDFEEALKKVLPSRG-------VLFEDEDVTLDDIGGLEEAKEELKE 256
Query: 394 VIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKF 453
IE P+K PELF LG+ PKGVLLYGPPGTGKTLLA+AVA + FI V GSEL+ K+
Sbjct: 257 AIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKW 316
Query: 454 IGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGF 513
+GE + +RELF AR+ APSIIF+DEIDS+ S R G D +R + +LL +LDG
Sbjct: 317 VGESEKNIRELFEKARKLAPSIIFIDEIDSLASGR---GPSEDGSGRRVVGQLLTELDGI 373
Query: 514 EATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATNRIDILDPALLRPGRIDRK 573
E + + VI ATNR D LDPALLRPGR DR
Sbjct: 374 EKAEGV-----------------------------LVIAATNRPDDLDPALLRPGRFDRL 404
Query: 574 IEFPPPNEEARLDILRIHSRKMN--LTRGINLRKIAELMPGASGAEVKGVCTEAGMYALR 631
I P P+ E RL+I +IH R L ++L ++AE+ G SGA++ + EA + ALR
Sbjct: 405 IYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAALEALR 464
Query: 632 E-RRVHVTQEDFEMAVAKV 649
E RR VT +DF A+ K+
Sbjct: 465 EARRREVTLDDFLDALKKI 483
Score = 147 bits (372), Expect = 7e-38
Identities = 106/262 (40%), Positives = 141/262 (53%), Gaps = 40/262 (15%)
Query: 396 ELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIG 455
ELP+K PELF LGI PKGVLL+GPPGTGKTLLARA+A + F+ ++G E++ K++G
Sbjct: 1 ELPLKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALA-NEGAEFLSINGPEILSKYVG 59
Query: 456 EGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEA 515
E +RELF A + APSIIF+DEID++ R + V LL +DG +
Sbjct: 60 ESELRLRELFEEAEKLAPSIIFIDEIDALAPKRSSDQGEVERRVVAQ---LLALMDGLKR 116
Query: 516 TKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKIE 575
+ I VI ATNR D LDPA RPGR DR+IE
Sbjct: 117 GQVI------------------------------VIGATNRPDGLDPAKRRPGRFDREIE 146
Query: 576 FPPPNEEARLDILRIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRV 635
P+E RL+IL+IH+R M L + +A G SGA++ + EA + LR
Sbjct: 147 VNLPDEAGRLEILQIHTRLMFLGPPGTGKTLAARTVGKSGADLGALAKEAALRELRRAID 206
Query: 636 H------VTQEDFEMAVAKVMQ 651
VT++DFE A+ KV+
Sbjct: 207 LVGEYIGVTEDDFEEALKKVLP 228
>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily. This
subfamily of the AAA family ATPases includes two members
each from three archaeal species. It also includes yeast
CDC48 (cell division control protein 48) and the human
ortholog, transitional endoplasmic reticulum ATPase
(valosin-containing protein). These proteins in
eukaryotes are involved in the budding and transfer of
membrane from the transitional endoplasmic reticulum to
the Golgi apparatus.
Length = 733
Score = 231 bits (591), Expect = 2e-66
Identities = 133/362 (36%), Positives = 198/362 (54%), Gaps = 56/362 (15%)
Query: 315 VLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMVEKVP 374
L + EGK ++ + +V +V +++ L + P+ + ++VE VP
Sbjct: 396 ALRRFIREGK--INFEAEEIPAEVLKELKVTMKDFMEALKMVEPS----AIREVLVE-VP 448
Query: 375 DSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVA 434
+ + +GGL+ +E++E +E P+KHPE+F+ +GI PKGVLL+GPPGTGKTLLA+AVA
Sbjct: 449 NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVA 508
Query: 435 HHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSG 494
+ FI V G E++ K++GE + +RE+F AR+ AP+IIF DEID+I +R
Sbjct: 509 TESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPAR--GARF 566
Query: 495 GDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMAT 554
S R + +LL ++DG + N+ VI AT
Sbjct: 567 DTSVTDRIVNQLLTEMDGIQELSNV-----------------------------VVIAAT 597
Query: 555 NRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIAELMPGAS 614
NR DILDPALLRPGR DR I PPP+EEAR +I +IH+R M L ++L ++AE+ G +
Sbjct: 598 NRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYT 657
Query: 615 GAEVKGVCTEAGMYALRE------------------RRVHVTQEDFEMAVAKVMQKDSEK 656
GA+++ VC EA M ALRE + + V F A+ KV S++
Sbjct: 658 GADIEAVCREAAMAALRESIGSPAKEKLEVGEEEFLKDLKVEMRHFLEALKKVKPSVSKE 717
Query: 657 NM 658
+M
Sbjct: 718 DM 719
Score = 213 bits (543), Expect = 1e-59
Identities = 120/267 (44%), Positives = 162/267 (60%), Gaps = 32/267 (11%)
Query: 365 VSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGT 424
V + KVP TYE +GGL ++I+E++ELP+KHPELF+ LGI PKGVLLYGPPGT
Sbjct: 164 VREEIERKVPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGT 223
Query: 425 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSI 484
GKTLLA+AVA+ FI ++G E++ K+ GE +RE+F A E+APSIIF+DEID+I
Sbjct: 224 GKTLLAKAVANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAI 283
Query: 485 GSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFE 544
R E G+ E +R + +LL +DG L+ R +
Sbjct: 284 APKREE--VTGEVE-KRVVAQLLTLMDG------------------LKGRGRVI------ 316
Query: 545 MAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLR 604
VI ATNR D LDPAL RPGR DR+I P++ AR +IL++H+R M L ++L
Sbjct: 317 -----VIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLD 371
Query: 605 KIAELMPGASGAEVKGVCTEAGMYALR 631
K+AE+ G GA++ + EA M ALR
Sbjct: 372 KLAEVTHGFVGADLAALAKEAAMAALR 398
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 222 bits (568), Expect = 4e-64
Identities = 110/285 (38%), Positives = 164/285 (57%), Gaps = 30/285 (10%)
Query: 376 STYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAH 435
T+ V G+D +E+ E+++ +K+P+ + ALG PKGVLL GPPGTGKTLLA+AVA
Sbjct: 147 VTFADVAGVDEAKEELSELVD-FLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAG 205
Query: 436 HTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSGG 495
F +SGS+ V+ F+G G+ VR+LF A+++AP IIF+DEID++G R GG
Sbjct: 206 EAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGG 265
Query: 496 DSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATN 555
+ E ++T+ +LL ++DGF + + VI ATN
Sbjct: 266 NDEREQTLNQLLVEMDGFGGNEGV-----------------------------IVIAATN 296
Query: 556 RIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIAELMPGASG 615
R D+LDPALLRPGR DR+I P+ + R IL++H++ L ++L+KIA PG SG
Sbjct: 297 RPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKKIARGTPGFSG 356
Query: 616 AEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVMQKDSEKNMSI 660
A++ + EA + A R + +T D E A+ +V+ K+ I
Sbjct: 357 ADLANLLNEAALLAARRNKKEITMRDIEEAIDRVIAGPERKSRVI 401
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 216 bits (553), Expect = 9e-62
Identities = 110/282 (39%), Positives = 165/282 (58%), Gaps = 32/282 (11%)
Query: 370 VEKVPDS--TYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKT 427
+ D+ T+ + G++ +E +EV+ +K PE F A+G PKGVLL GPPGTGKT
Sbjct: 172 FQMEADTGITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKT 230
Query: 428 LLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSS 487
LLA+A+A E F +SGSE V+ F+G G+ VR+LF A+E++P I+F+DEID++G
Sbjct: 231 LLAKAIAGEAEVPFFSISGSEFVEMFVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQ 290
Query: 488 RIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAV 547
R GG+ E ++T+ +LL ++DGF+ K +
Sbjct: 291 RGAGIGGGNDEREQTLNQLLTEMDGFKGNKGV---------------------------- 322
Query: 548 AKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIA 607
VI ATNR+DILD ALLRPGR DR+I P+ E RLDIL++H+R L+ ++L IA
Sbjct: 323 -IVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIA 381
Query: 608 ELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKV 649
PG SGA++ + EA + R ++ +T ++ + A+ +V
Sbjct: 382 RRTPGFSGADLANLLNEAAILTARRKKATITMKEIDTAIDRV 423
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 191 bits (486), Expect = 2e-52
Identities = 109/291 (37%), Positives = 162/291 (55%), Gaps = 30/291 (10%)
Query: 368 MMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKT 427
M+ E +T+ V G D +E+ E++E ++ P F LG PKGVL+ GPPGTGKT
Sbjct: 141 MLTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKT 199
Query: 428 LLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSS 487
LLA+A+A + F +SGS+ V+ F+G G+ VR++F A++ AP IIF+DEID++G
Sbjct: 200 LLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQ 259
Query: 488 RIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAV 547
R GG E ++T+ ++L ++DGFE + I
Sbjct: 260 RGAGLGGGHDEREQTLNQMLVEMDGFEGNEGI---------------------------- 291
Query: 548 AKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIA 607
VI ATNR D+LDPALLRPGR DR++ P+ R IL++H R++ L I+ IA
Sbjct: 292 -IVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIA 350
Query: 608 ELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVMQKDSEKNM 658
PG SGA++ + EA ++A R + V+ +FE A K+M ++M
Sbjct: 351 RGTPGFSGADLANLVNEAALFAARGNKRVVSMVEFEKAKDKIMMGAERRSM 401
>gnl|CDD|200312 TIGR03689, pup_AAA, proteasome ATPase. In the Actinobacteria, as
shown for Mycobacterium tuberculosis, some proteins are
modified by ligation between an epsilon-amino group of a
lysine side chain and the C-terminal carboxylate of the
ubiquitin-like protein Pup. This modification leads to
protein degradation by the archaeal-like proteasome
found in the Actinobacteria. Members of this protein
family belong to the AAA family of ATPases and tend to
be clustered with the genes for Pup, the Pup ligase
PafA, and structural components of the proteasome. This
protein forms hexameric rings with ATPase activity
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 512
Score = 183 bits (466), Expect = 1e-50
Identities = 107/296 (36%), Positives = 156/296 (52%), Gaps = 56/296 (18%)
Query: 365 VSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGT 424
V +++E+VPD TY +GGL +QI++I++ +ELP HPEL+ G+ PKGVLLYGPPG
Sbjct: 168 VEDLVLEEVPDVTYADIGGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLLYGPPGC 227
Query: 425 GKTLLARAVAH----------HTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHA-- 472
GKTL+A+AVA+ + F+ + G EL+ K++GE R +R +F ARE A
Sbjct: 228 GKTLIAKAVANSLAARIGAEGGGKSYFLNIKGPELLNKYVGETERQIRLIFQRAREKASE 287
Query: 473 --PSIIFMDEIDSIGSSRIESGSGGDSEVQRTML-ELLNQLDGFEATKNIKGVCTEAGMY 529
P I+F DE+DS+ +R GSG S+V+ T++ +LL ++DG E+ N+
Sbjct: 288 GRPVIVFFDEMDSLFRTR---GSGVSSDVETTVVPQLLAEIDGVESLDNV---------- 334
Query: 530 ALRERRVHVTQEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILR 589
VI A+NR D++DPA+LRPGR+D KI P+ EA DI
Sbjct: 335 -------------------IVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFA 375
Query: 590 IHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEA--GMYALRERR--VHVTQED 641
+ LT + L + G A + +YA E V VT +
Sbjct: 376 KY-----LTDDLPLPEDLAAHDGDREATAAALIQRVVDALYARSEANRYVEVTYAN 426
>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular
activities (AAA). AAA family proteins often perform
chaperone-like functions that assist in the assembly,
operation, or disassembly of protein complexes.
Length = 131
Score = 164 bits (417), Expect = 7e-48
Identities = 79/162 (48%), Positives = 97/162 (59%), Gaps = 32/162 (19%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSI 475
+LLYGPPGTGKT LA+AVA FI +SGSELV K++GE + +RELF A++ AP +
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCV 60
Query: 476 IFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERR 535
IF+DEID++ SR GSGGDSE +R + +LL +LDGF +
Sbjct: 61 IFIDEIDALAGSR---GSGGDSESRRVVNQLLTELDGFT----------------SSLSK 101
Query: 536 VHVTQEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKIEFP 577
V VI ATNR D LDPALLR GR DR IEFP
Sbjct: 102 VI------------VIAATNRPDKLDPALLR-GRFDRIIEFP 130
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 156 bits (396), Expect = 4e-42
Identities = 97/286 (33%), Positives = 150/286 (52%), Gaps = 38/286 (13%)
Query: 371 EKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLA 430
E + D T + V G + ++ + +I +++PE F G PK VL YGPPGTGKT++A
Sbjct: 113 EIISDITLDDVIGQEEAKRKCR-LIMEYLENPERF---GDWAPKNVLFYGPPGTGKTMMA 168
Query: 431 RAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIE 490
+A+A+ + + V +EL+ + +G+G+R + EL+ AR+ AP I+F+DE+D+I R
Sbjct: 169 KALANEAKVPLLLVKATELIGEHVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRY 228
Query: 491 SGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKV 550
GD V + LL +LDG K +GV T
Sbjct: 229 QELRGD--VSEIVNALLTELDG---IKENEGVVT-------------------------- 257
Query: 551 IMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIAELM 610
I ATNR ++LDPA+ R + +IEF PN+E RL+IL +++K L +LR +A
Sbjct: 258 IAATNRPELLDPAI--RSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDADLRYLAAKT 315
Query: 611 PGASGAEVK-GVCTEAGMYALRERRVHVTQEDFEMAVAKVMQKDSE 655
G SG ++K V A A+ E R V +ED E A+ K ++ +
Sbjct: 316 KGMSGRDIKEKVLKTALHRAIAEDREKVEREDIEKALKKERKRRAP 361
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase fold.
The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons, ATPase
subunits of proteases, helicases, or nucleic-acid
stimulated ATPases. The AAA+ proteins contain several
distinct features in addition to the conserved
alpha-beta-alpha core domain structure and the Walker A
and B motifs of the P-loop NTPases.
Length = 151
Score = 95.3 bits (237), Expect = 5e-23
Identities = 58/203 (28%), Positives = 88/203 (43%), Gaps = 58/203 (28%)
Query: 382 GGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHT---E 438
G + I+ ++E +ELP PK +LLYGPPGTGKT LARA+A+
Sbjct: 1 VGQEEAIEALREALELP-------------PPKNLLLYGPPGTGKTTLARAIANELFRPG 47
Query: 439 CTFIRVSGSELVQKFIGE---GSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSGG 495
F+ ++ S+L++ + G +VR LF +A + P ++F+DEIDS+
Sbjct: 48 APFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSLSR--------- 98
Query: 496 DSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATN 555
Q +L +L L+ R R +V +VI ATN
Sbjct: 99 --GAQNALLRVLETLNDL------------------RIDRENV----------RVIGATN 128
Query: 556 RIDILDPALLRPGRIDRKIEFPP 578
R + D R+D +I P
Sbjct: 129 RPLLGDLDRALYDRLDIRIVIPL 151
>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional.
Length = 489
Score = 78.1 bits (193), Expect = 4e-15
Identities = 69/259 (26%), Positives = 123/259 (47%), Gaps = 41/259 (15%)
Query: 409 GIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMA 468
G+ P+G+LL G GTGK+L A+A+A+ + +R+ +L +GE +R++ +A
Sbjct: 255 GLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVGESESRMRQMIRIA 314
Query: 469 REHAPSIIFMDEID-SIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAG 527
+P I+++DEID + +S + SG + V T + L+
Sbjct: 315 EALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLS------------------- 355
Query: 528 MYALRERRVHVTQEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDI 587
E++ V F +A A N ID+L +LR GR D P+ E R I
Sbjct: 356 -----EKKSPV----FVVATA------NNIDLLPLEILRKGRFDEIFFLDLPSLEEREKI 400
Query: 588 LRIHSRKM--NLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMA 645
+IH +K + +++K+++L SGAE++ EA A E+R T +D +A
Sbjct: 401 FKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIAFYEKR-EFTTDDILLA 459
Query: 646 VAKVM---QKDSEKNMSIK 661
+ + + Q + E+ +++
Sbjct: 460 LKQFIPLAQTEKEQIEALQ 478
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only detects
a fraction of this vast family. The poorly conserved
N-terminal helix is missing from the alignment.
Length = 148
Score = 70.1 bits (171), Expect = 3e-14
Identities = 47/186 (25%), Positives = 70/186 (37%), Gaps = 55/186 (29%)
Query: 412 QPKGVLLYGPPGTGKTLLARAVAHHTECT---FIRVSGSEL--------------VQKFI 454
+ +L+ GPPG+GKT LARA+A I + G ++ +K
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS 60
Query: 455 GEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFE 514
G G +R +AR+ P ++ +DEI S+ + E +LE L L +
Sbjct: 61 GSGELRLRLALALARKLKPDVLILDEITSLLDAE--------QEALLLLLEELRLLLLLK 112
Query: 515 ATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKI 574
+ KN+ VI+ TN L PALLR R DR+I
Sbjct: 113 SEKNL-----------------------------TVILTTNDEKDLGPALLRR-RFDRRI 142
Query: 575 EFPPPN 580
Sbjct: 143 VLLLIL 148
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 55.1 bits (134), Expect = 5e-08
Identities = 26/70 (37%), Positives = 39/70 (55%), Gaps = 11/70 (15%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPS- 474
++L+GPPGTGKT LAR +A T+ F +S G + +RE+ AR+ +
Sbjct: 39 MILWGPPGTGKTTLARIIAGATDAPFEALSAVT-------SGVKDLREVIEEARQRRSAG 91
Query: 475 ---IIFMDEI 481
I+F+DEI
Sbjct: 92 RRTILFIDEI 101
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 53.6 bits (129), Expect = 1e-07
Identities = 48/192 (25%), Positives = 63/192 (32%), Gaps = 56/192 (29%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSE--LVQKFIGEGSRMVRELFVMARE--- 470
VLL GPPG GKTLLARA+A F+R+ + L +G + L
Sbjct: 46 VLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVP 105
Query: 471 -----HAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTE 525
I+ +DEI+ EVQ +LE L
Sbjct: 106 GPLFAAVRVILLLDEINRA-----------PPEVQNALLEALE----------------- 137
Query: 526 AGMYALRERRVHV---TQEDFEMAVAKVIMATNRIDI-----LDPALLRPGRIDRKIEFP 577
ER+V V T VI N + L ALL R +I
Sbjct: 138 -------ERQVTVPGLTTIRLPPPF-IVIATQNPGEYEGTYPLPEALLD--RFLLRIYVD 187
Query: 578 PPNEEARLDILR 589
P+ E I+
Sbjct: 188 YPDSEEEERIIL 199
>gnl|CDD|219536 pfam07724, AAA_2, AAA domain (Cdc48 subfamily). This Pfam entry
includes some of the AAA proteins not detected by the
pfam00004 model.
Length = 168
Score = 49.1 bits (118), Expect = 8e-07
Identities = 44/184 (23%), Positives = 66/184 (35%), Gaps = 44/184 (23%)
Query: 413 PKGV-LLYGPPGTGKTLLARAVA---HHTECTFIRVSGSEL-----VQKFIGEGSRMVR- 462
P G L GP G GKT LA+A+A E IR+ SE V + IG V
Sbjct: 2 PIGSFLFLGPTGVGKTELAKALAELLFGDERALIRIDMSEYMEEHSVSRLIGAPPGYVGY 61
Query: 463 ----ELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELL----------N 508
+L R SI+ +DEI+ VQ +L++L
Sbjct: 62 EEGGQLTEAVRRKPYSIVLIDEIEKA-----------HPGVQNDLLQILEGGTLTDKQGR 110
Query: 509 QLDGFEATKNIKGVCTEA-GMYALRERRVHVTQEDFEMAVAKVIMATNRIDILDPALLRP 567
++D +N + T G + + D+E+ V+ + P L
Sbjct: 111 KVD----FRNTLFIMTGNFGSEKISDASRLGDSPDYELLKELVMDLLKK--GFIPEFL-- 162
Query: 568 GRID 571
GR+
Sbjct: 163 GRLP 166
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 48.4 bits (116), Expect = 8e-06
Identities = 27/77 (35%), Positives = 41/77 (53%), Gaps = 10/77 (12%)
Query: 413 PKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGS-----ELVQKFIGEGSRMVRELFVM 467
K +LLYGPPG GKT LA A+A+ I ++ S +++++ GE + LF
Sbjct: 39 KKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTADVIERVAGEAATS-GSLFGA 97
Query: 468 AREHAPSIIFMDEIDSI 484
R +I +DE+D I
Sbjct: 98 RR----KLILLDEVDGI 110
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 47.6 bits (114), Expect = 1e-05
Identities = 26/68 (38%), Positives = 37/68 (54%), Gaps = 11/68 (16%)
Query: 418 LYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPS--- 474
L+GPPGTGKT LAR +A T F +S + G + +RE+ AR++
Sbjct: 53 LWGPPGTGKTTLARLIAGTTNAAFEALSA-------VTSGVKDLREIIEEARKNRLLGRR 105
Query: 475 -IIFMDEI 481
I+F+DEI
Sbjct: 106 TILFLDEI 113
>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily). This Pfam
entry includes some of the AAA proteins not detected by
the pfam00004 model.
Length = 135
Score = 44.6 bits (106), Expect = 2e-05
Identities = 41/170 (24%), Positives = 60/170 (35%), Gaps = 55/170 (32%)
Query: 415 GVLLYGPPGTGKTLLARAVAHHTEC--TFIRV-----SGSELVQKFI---GEGSRMVREL 464
GVLL GPPGTGK+ LA +A F + +L + G S + L
Sbjct: 1 GVLLVGPPGTGKSELAERLAAALSNRPVFYVQLTRDTTEEDLKGRRNIDPGGASWVDGPL 60
Query: 465 FVMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCT 524
ARE I +DEI+ + +V ++L LL+
Sbjct: 61 VRAARE--GEIAVLDEINRA-----------NPDVLNSLLSLLD---------------- 91
Query: 525 EAGMYALRERRVHVTQEDFEMAVAK----VIMATNRIDI----LDPALLR 566
ERR+ + + + A +I N +D L PAL
Sbjct: 92 --------ERRLLLPEGGELVKAAPDGFRLIATMNPLDRGLNELSPALRS 133
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 45.8 bits (109), Expect = 7e-05
Identities = 16/29 (55%), Positives = 21/29 (72%)
Query: 417 LLYGPPGTGKTLLARAVAHHTECTFIRVS 445
+LYGPPG GKT LAR +A+HT F ++
Sbjct: 56 ILYGPPGVGKTTLARIIANHTRAHFSSLN 84
>gnl|CDD|234063 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation
protein. Members of this protein family are found
exclusively in the archaea. This set of DNA binding
proteins shows homology to the origin recognition
complex subunit 1/cell division control protein 6 family
in eukaryotes. Several members may be found in genome
and interact with each other [DNA metabolism, DNA
replication, recombination, and repair].
Length = 365
Score = 44.9 bits (107), Expect = 8e-05
Identities = 67/307 (21%), Positives = 102/307 (33%), Gaps = 95/307 (30%)
Query: 385 DNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVA---------- 434
D QI+E+ + L L ++P V +YG GTGKT + + V
Sbjct: 21 DEQIEELAK---------ALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDR 71
Query: 435 ------HHTECTFIRVSG---SELVQKFIGEG----------SRMVRELFVMAREHAPSI 475
+ C + EL + G G S + R L+ E S+
Sbjct: 72 DVRVVTVYVNCQILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSL 131
Query: 476 IF-MDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRER 534
I +DEID + D ++ +Y L
Sbjct: 132 IIVLDEIDYLVGD--------DDDL----------------------------LYQLSRA 155
Query: 535 RVHVTQEDFEMAVAKVIMATNRI---DILDPAL---LRPGRIDRKIEFPPPNEEARLDIL 588
R + D + A VI +N + + LDP + L +I FPP + E DIL
Sbjct: 156 RSN---GDLDNAKVGVIGISNDLKFRENLDPRVKSSLCE----EEIIFPPYDAEELRDIL 208
Query: 589 RIHSRKMNLTRGI----NLRKIAELMPGASGAEVKGVCT--EAGMYALRERRVHVTQEDF 642
+ + G+ + A L G K + AG A RE VT++
Sbjct: 209 E-NRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHV 267
Query: 643 EMAVAKV 649
E A K+
Sbjct: 268 EKAQEKI 274
>gnl|CDD|116340 pfam07726, AAA_3, ATPase family associated with various cellular
activities (AAA). This Pfam entry includes some of the
AAA proteins not detected by the pfam00004 model.
Length = 131
Score = 41.8 bits (99), Expect = 2e-04
Identities = 15/29 (51%), Positives = 17/29 (58%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRV 444
VLL G PG KTLLAR +A F R+
Sbjct: 2 VLLEGVPGLAKTLLARTLARSLGLDFRRI 30
>gnl|CDD|188437 TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA. This
model represents the AAA family ATPase, EccA, of the
actinobacterial flavor of type VII secretion systems.
Species such as Mycobacterium tuberculosis have several
instances of this system per genome, designated EccA1,
EccA2, etc [Protein fate, Protein and peptide secretion
and trafficking].
Length = 557
Score = 43.7 bits (103), Expect = 3e-04
Identities = 32/112 (28%), Positives = 51/112 (45%), Gaps = 15/112 (13%)
Query: 379 EMVG--GLDNQIKEIKEVIELPVKHPELFDALGIAQ-PKGVLLYGPPGTGKTLLARAVAH 435
E +G + Q+ +K + + E L +AQ +L GPPGTGKT +AR VA
Sbjct: 277 EQIGLERVKRQVAALKSSTAMALARAER--GLPVAQTSNHMLFAGPPGTGKTTIARVVAK 334
Query: 436 H-------TECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDE 480
+ VS ++L+ ++IGE E+ A ++F+DE
Sbjct: 335 IYCGLGVLRKPLVREVSRADLIGQYIGESEAKTNEIIDSALG---GVLFLDE 383
>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 = 41.5 bits (98), Expect = 3e-04
Identities = 30/109 (27%), Positives = 48/109 (44%), Gaps = 24/109 (22%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECT--FIRVSGSELVQKFIGEGSRMV----------RE 463
V L GP G+GK+ L RA+A + T I + G ++ + + E R + R+
Sbjct: 28 VALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGKDIAKLPLEELRRRIGYVPQLSGGQRQ 87
Query: 464 LFVMARE--HAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQL 510
+AR P ++ +DE SG D + +LELL +L
Sbjct: 88 RVALARALLLNPDLLLLDEPT----------SGLDPASRERLLELLREL 126
>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the AAA
superfamily.
Length = 154
Score = 41.4 bits (97), Expect = 3e-04
Identities = 14/54 (25%), Positives = 21/54 (38%), Gaps = 10/54 (18%)
Query: 383 GLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHH 436
G + +++ + + P VLL GP GTGKT L R +
Sbjct: 4 GREEELERLLD----------ALRRARSGGPPSVLLTGPSGTGKTSLLRELLEG 47
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 38.8 bits (91), Expect = 0.001
Identities = 14/83 (16%), Positives = 31/83 (37%), Gaps = 16/83 (19%)
Query: 416 VLLYGPPGTGKTLLARAVAH-HTECTFIRV------SGSELVQKFIGE---------GSR 459
+L G G+GKT L R +A + V + +L++K + +
Sbjct: 7 GVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPKDLLRKILRALGLPLSGGTTAE 66
Query: 460 MVRELFVMAREHAPSIIFMDEID 482
++ + + ++ +DE
Sbjct: 67 LLEAILDALKRRGRPLLIIDEAQ 89
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 40.1 bits (94), Expect = 0.002
Identities = 21/88 (23%), Positives = 33/88 (37%), Gaps = 12/88 (13%)
Query: 410 IAQPKGVLLYGPPGTGKTLLARAVAHHT-----ECTFIRVSGSELVQKFIGEGSR-MVRE 463
+ + ++L GPPG GKT LA A+ + FI +L+ K + E
Sbjct: 102 FERGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITA--PDLLSKLKAAFDEGRLEE 159
Query: 464 LFVMAREHAPSIIFMDEIDSIGSSRIES 491
+ + +I ID IG
Sbjct: 160 KLLRELKKVDLLI----IDDIGYEPFSQ 183
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 40.5 bits (95), Expect = 0.003
Identities = 43/214 (20%), Positives = 88/214 (41%), Gaps = 11/214 (5%)
Query: 86 RKENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEK 145
+E + +L+ ++ E + ++ E ++EELQ + E
Sbjct: 704 LEELRRQLEELERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEEL 763
Query: 146 EQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVD 205
E+ L L+ +L ++ L E+ Q LQE+ + E ++ +++ ++ E
Sbjct: 764 EEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRR 823
Query: 206 IDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEELQLIV 265
+I L E L + L +++E ++ E ++EEL+
Sbjct: 824 ERLEQEIE--------ELEEEIEELEEKL---DELEEELEELEKELEELKEELEELEAEK 872
Query: 266 AEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
E E L+ L+ ++ EL ++R L EL L+E+
Sbjct: 873 EELEDELKELEEEKEELEEELRELESELAELKEE 906
Score = 35.1 bits (81), Expect = 0.15
Identities = 33/189 (17%), Positives = 76/189 (40%), Gaps = 26/189 (13%)
Query: 111 VERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREEL 170
ER++ ++EA S+ Y + EE + + E+NL RL+ EL ++ L +
Sbjct: 155 EERRKLIEEAAGVSK-----YKERKEEAERKLERTEENLERLEDLLEELEKQLEKLERQA 209
Query: 171 QLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTL 230
+ + + K ++ + + + + L L
Sbjct: 210 EKAER-----------YQELKAELRELELALLLAKLKE---LRKELEELEEELSRLEEEL 255
Query: 231 HKILPNKMDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLR 290
++ + ++ I+ + ++EEL+ + E ++ L L+ + EL ++ +LR
Sbjct: 256 EELQEELEEAEKEIEELKS-------ELEELREELEELQEELLELKEEIEELEGEISLLR 308
Query: 291 EELQLLQEQ 299
E L+ L+ +
Sbjct: 309 ERLEELENE 317
Score = 34.3 bits (79), Expect = 0.28
Identities = 31/188 (16%), Positives = 84/188 (44%), Gaps = 11/188 (5%)
Query: 112 ERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQ 171
E +++ ++S E ++EEL+ + E ++ L L+ + +L +++ L EEL+
Sbjct: 688 EELKSLKNELRSLEDLLEELRRQLEELERQLEELKRELAALEEELEQLQSRLEELEEELE 747
Query: 172 LLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLH 231
L+E+ + E+ + +++ + ++ + + + + L
Sbjct: 748 ELEEE---LEELQERLEELEEELESLE--------EALAKLKEEIEELEEKRQALQEELE 796
Query: 232 KILPNKMDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLRE 291
++ + + + + E + E L+ + E E+ + L+ + +EL ++ L +
Sbjct: 797 ELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEK 856
Query: 292 ELQLLQEQ 299
EL+ L+E+
Sbjct: 857 ELEELKEE 864
Score = 33.1 bits (76), Expect = 0.54
Identities = 43/238 (18%), Positives = 96/238 (40%), Gaps = 28/238 (11%)
Query: 87 KENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEKE 146
KE +++L+ E ++E E ++ I+ + ++EEL+ + E +
Sbjct: 235 KELRKELEELEEELSRLEEELEELQEELEEAEKEIEELKS-------ELEELREELEELQ 287
Query: 147 QNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDI 206
+ L L+ + EL ++ +LRE L+ L+ + + E ++ + +K +
Sbjct: 288 EELLELKEEIEELEGEISLLRERLEELENELEELEERLEELKEKI------------EAL 335
Query: 207 DKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEELQLIVA 266
+ ++ + L E L L + +E + E L+ +A
Sbjct: 336 KEELEERE-------TLLEELEQLLAEL--EEAKEELEEKLSALLEELEELFEALREELA 386
Query: 267 EKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGK 324
E E L ++ + EL ++ L E L+ L E+ + E +K ++ + ++ E
Sbjct: 387 ELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAELEELQTELEEL 444
Score = 33.1 bits (76), Expect = 0.65
Identities = 33/167 (19%), Positives = 67/167 (40%), Gaps = 39/167 (23%)
Query: 133 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKV 192
+++EL+ +AE E L +L+ + L ++R L + L+ L+ Q
Sbjct: 667 RELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLE-------------- 712
Query: 193 LVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKP 252
++++ ++ L+ E L + L + ++ E
Sbjct: 713 ------------ELERQLE----------ELKRELAALEEELE---QLQSRLEELEEELE 747
Query: 253 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
++EELQ + E E+ L L+ +L ++ L E+ Q LQE+
Sbjct: 748 ELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQEE 794
Score = 31.2 bits (71), Expect = 2.1
Identities = 18/103 (17%), Positives = 41/103 (39%), Gaps = 5/103 (4%)
Query: 74 NREILTAFHKIIRKENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVT 133
E+ ++ + K + E + E+E+ E K +
Sbjct: 315 ENELEELEERLEELKEKIEALKEELEERETLLE---ELEQLLAELEEAKEEL--EEKLSA 369
Query: 134 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
+EEL+ + + L L+A+ E+ ++ L+ E++ L+E+
Sbjct: 370 LLEELEELFEALREELAELEAELAEIRNELEELKREIESLEER 412
Score = 30.8 bits (70), Expect = 2.6
Identities = 33/182 (18%), Positives = 79/182 (43%), Gaps = 9/182 (4%)
Query: 122 KSSEGFKPYYVTKIEELQLI---VAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGS 178
+SS K EEL + + + E+ L+ L+ + L + LR +L+ L+ Q
Sbjct: 660 RSSLAQKRELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLEELERQLE 719
Query: 179 YVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNI-DINDVTPNCRVALRNESYTLHKILPNK 237
+ + ++++ ++ E ++++ + ++ + + L L +
Sbjct: 720 ELKRELAALEEELEQLQSRLE-----ELEEELEELEEELEELQERLEELEEELESLEEAL 774
Query: 238 MDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQ 297
+ E I+ E + ++EEL+ + E E+ L L+ + L + L +E++ L+
Sbjct: 775 AKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELE 834
Query: 298 EQ 299
E+
Sbjct: 835 EE 836
Score = 30.1 bits (68), Expect = 4.8
Identities = 22/92 (23%), Positives = 45/92 (48%), Gaps = 7/92 (7%)
Query: 85 IRKENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAE 144
R+ +E+L+ E + + R ++ ++S E + +IEEL+ + E
Sbjct: 787 KRQALQEELEELEEELEEAER-------RLDALERELESLEQRRERLEQEIEELEEEIEE 839
Query: 145 KEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
E+ L L+ + EL ++ L+EEL+ L+ +
Sbjct: 840 LEEKLDELEEELEELEKELEELKEELEELEAE 871
>gnl|CDD|234751 PRK00411, cdc6, cell division control protein 6; Reviewed.
Length = 394
Score = 40.2 bits (95), Expect = 0.003
Identities = 66/299 (22%), Positives = 104/299 (34%), Gaps = 86/299 (28%)
Query: 385 DNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAV-----AHHTEC 439
+ QI+E+ + AL ++P VL+YGPPGTGKT + V +
Sbjct: 36 EEQIEELAFALR---------PALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKV 86
Query: 440 TFIRVSG----------SELVQKFIGEGSRMV----RELFVMAREHAPS-----IIFMDE 480
++ ++ SE+ ++ G ELF E+ I+ +D+
Sbjct: 87 VYVYINCQIDRTRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDD 146
Query: 481 IDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQ 540
I+ + G D +Y+L R H
Sbjct: 147 IN-----YLFEKEGNDV------------------------------LYSL--LRAHEEY 169
Query: 541 EDFEMAVAKVIMATNRIDILDP---ALLRPGRIDRKIEFPPPNEEARLDILRIHSR-KMN 596
+ V + + ILDP ++ RP +I FPP + DIL+ R +
Sbjct: 170 PGARIGVIGISSDLTFLYILDPRVKSVFRP----EEIYFPPYTADEIFDILK--DRVEEG 223
Query: 597 LTRGI----NLRKIAELMPGASGAEVKGVCT--EAGMYALRERRVHVTQEDFEMAVAKV 649
G+ L IA+L G + AG+ A RE VT+ED A K
Sbjct: 224 FYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKS 282
>gnl|CDD|232949 TIGR00382, clpX, endopeptidase Clp ATP-binding regulatory subunit
(clpX). A member of the ATP-dependent proteases, ClpX
has ATP-dependent chaperone activity and is required for
specific ATP-dependent proteolytic activities expressed
by ClpPX. The gene is also found to be involved in
stress tolerance in Bacillus subtilis and is essential
for the efficient acquisition of genes specifying type
IA and IB restriction [Protein fate, Protein folding and
stabilization, Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 413
Score = 39.7 bits (93), Expect = 0.004
Identities = 31/105 (29%), Positives = 51/105 (48%), Gaps = 17/105 (16%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQK-FIGEGSRMVRELFVMAREHAPS 474
+LL GP G+GKTLLA+ +A F + L + ++GE + + A ++
Sbjct: 119 ILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE 178
Query: 475 -----IIFMDEIDSIGS-------SRIESGSGGDSEVQRTMLELL 507
II++DEID I +R SG G VQ+ +L+++
Sbjct: 179 KAQKGIIYIDEIDKISRKSENPSITRDVSGEG----VQQALLKII 219
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 39.3 bits (92), Expect = 0.006
Identities = 18/38 (47%), Positives = 26/38 (68%), Gaps = 2/38 (5%)
Query: 414 KGVLLYGPPGTGKTLLARAVAHH--TECTFIRVSGSEL 449
+G+L+ GPPGTGKT LA +A + F+ +SGSE+
Sbjct: 66 RGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEI 103
>gnl|CDD|238453 cd00890, Prefoldin, Prefoldin is a hexameric molecular chaperone
complex, found in both eukaryotes and archaea, that
binds and stabilizes newly synthesized polypeptides
allowing them to fold correctly. The complex contains
two alpha and four beta subunits, the two subunits being
evolutionarily related. In archaea, there is usually
only one gene for each subunit while in eukaryotes there
two or more paralogous genes encoding each subunit
adding heterogeneity to the structure of the hexamer.
The structure of the complex consists of a double beta
barrel assembly with six protruding coiled-coils.
Length = 129
Score = 36.9 bits (86), Expect = 0.007
Identities = 29/147 (19%), Positives = 58/147 (39%), Gaps = 34/147 (23%)
Query: 146 EQNLRRLQAQRNELNA---KVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKF 202
+Q L LQ Q +L A + +E L+ L++ +V V +V + K
Sbjct: 12 QQQLEALQQQLQKLEAQLTEYEKAKETLETLKKAEEEKELLVPLGAGLFVKAEVKDDDKV 71
Query: 203 VVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEELQ 262
+VD+ + + + ++EAI+ + ++E L+
Sbjct: 72 LVDLGTGVYV------------------------EKSLEEAIE-------FLKKRLETLE 100
Query: 263 LIVAEKEQNLRRLQAQRNELNAKVRML 289
+ + E+ L +LQ Q EL +++ L
Sbjct: 101 KQIEKLEKQLEKLQDQITELQEELQQL 127
Score = 29.2 bits (66), Expect = 2.7
Identities = 16/68 (23%), Positives = 29/68 (42%), Gaps = 3/68 (4%)
Query: 269 EQNLRRLQAQRNELNA---KVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKF 325
+Q L LQ Q +L A + +E L+ L++ +V V +V + K
Sbjct: 12 QQQLEALQQQLQKLEAQLTEYEKAKETLETLKKAEEEKELLVPLGAGLFVKAEVKDDDKV 71
Query: 326 VVDIDKNI 333
+VD+ +
Sbjct: 72 LVDLGTGV 79
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 39.0 bits (92), Expect = 0.007
Identities = 17/34 (50%), Positives = 19/34 (55%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSEL 449
VLLYGPPG GKT LA +A+ SG L
Sbjct: 54 VLLYGPPGLGKTTLANIIANEMGVNIRITSGPAL 87
>gnl|CDD|233087 TIGR00678, holB, DNA polymerase III, delta' subunit. This model
describes the N-terminal half of the delta' subunit of
DNA polymerase III. Delta' is homologous to the gamma
and tau subunits, which form an outgroup for
phylogenetic comparison. The gamma/tau branch of the
tree is much more tighly conserved than the delta'
branch, and some members of that branch score more
highly against this model than some proteins
classisified as delta'. The noise cutoff is set to
detect weakly scoring delta' subunits rather than to
exclude gamma/tau subunits. At position 126-127 of the
seed alignment, this family lacks the HM motif of
gamma/tau; at 132 it has a near-invariant A vs. an
invariant F in gamma/tau [DNA metabolism, DNA
replication, recombination, and repair].
Length = 188
Score = 37.6 bits (88), Expect = 0.007
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 417 LLYGPPGTGKTLLARAVAHHTECT 440
L GP G GK LLA A+A C
Sbjct: 18 LFAGPEGVGKELLALALAKALLCE 41
>gnl|CDD|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI.
Magnesium-chelatase is a three-component enzyme that
catalyzes the insertion of Mg2+ into protoporphyrin IX.
This is the first unique step in the synthesis of
(bacterio)chlorophyll. Due to this, it is thought that
Mg-chelatase has an important role in channelling inter-
mediates into the (bacterio)chlorophyll branch in
response to conditions suitable for photosynthetic
growth. ChlI and BchD have molecular weight between
38-42 kDa.
Length = 207
Score = 37.9 bits (89), Expect = 0.008
Identities = 15/28 (53%), Positives = 20/28 (71%), Gaps = 2/28 (7%)
Query: 407 ALGIAQPKG--VLLYGPPGTGKTLLARA 432
AL IA G +L+ GPPG+GKT+LA+
Sbjct: 14 ALEIAAAGGHNLLMIGPPGSGKTMLAKR 41
>gnl|CDD|130902 TIGR01843, type_I_hlyD, type I secretion membrane fusion protein,
HlyD family. Type I secretion is an ABC transport
process that exports proteins, without cleavage of any
signal sequence, from the cytosol to extracellular
medium across both inner and outer membranes. The
secretion signal is found in the C-terminus of the
transported protein. This model represents the adaptor
protein between the ATP-binding cassette (ABC) protein
of the inner membrane and the outer membrane protein,
and is called the membrane fusion protein. This model
selects a subfamily closely related to HlyD; it is
defined narrowly and excludes, for example, colicin V
secretion protein CvaA and multidrug efflux proteins
[Protein fate, Protein and peptide secretion and
trafficking].
Length = 423
Score = 38.8 bits (91), Expect = 0.008
Identities = 38/211 (18%), Positives = 87/211 (41%), Gaps = 41/211 (19%)
Query: 117 VDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
V E IK + + ++ L+ + +++L+A+ L A+++ LR++L+++ E+
Sbjct: 124 VPELIKGQQSL---FESRKSTLRAQLELILAQIKQLEAELAGLQAQLQALRQQLEVISEE 180
Query: 177 GSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPN 236
E + + +K ++ ++ ++++++ R + E
Sbjct: 181 ----LEARRKLKEKGLVSRLE-----LLELERE----------RAEAQGE---------- 211
Query: 237 KMDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQ-NLRRLQAQRNELNAKVRMLREELQL 295
+ E +I+ELQL + EQ + + E A++ LRE L
Sbjct: 212 -------LGRLEAELEVLKRQIDELQLERQQIEQTFREEVLEELTEAQARLAELRERLNK 264
Query: 296 LQEQGSYVGEVVKPMDKKKVLVKVHPEGKFV 326
+++ + + P+D +KVH G V
Sbjct: 265 ARDRLQRL-IIRSPVDGTVQSLKVHTVGGVV 294
Score = 31.9 bits (73), Expect = 1.0
Identities = 15/82 (18%), Positives = 42/82 (51%), Gaps = 7/82 (8%)
Query: 239 DVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQE 298
V E IK + + ++ L+ + +++L+A+ L A+++ LR++L+++ E
Sbjct: 123 AVPELIKGQQSL---FESRKSTLRAQLELILAQIKQLEAELAGLQAQLQALRQQLEVISE 179
Query: 299 QGSYVGEVVKPMDKKKVLVKVH 320
+ E + + +K ++ ++
Sbjct: 180 E----LEARRKLKEKGLVSRLE 197
>gnl|CDD|223679 COG0606, COG0606, Predicted ATPase with chaperone activity
[Posttranslational modification, protein turnover,
chaperones].
Length = 490
Score = 38.8 bits (91), Expect = 0.008
Identities = 30/93 (32%), Positives = 39/93 (41%), Gaps = 17/93 (18%)
Query: 356 ILPNKVDPLVSLMMVEKVP--DSTYEMVGGLDNQ----IKEIKEVIELPVKHPELFDALG 409
I+P + SL+ V E+V L+ + I EVIE P+ D G
Sbjct: 124 IVPKENAEEASLIGGLPVYGARYLEEVVNFLEGKLRLPIPIPSEVIESFSLAPDFKDVKG 183
Query: 410 IAQPK-----------GVLLYGPPGTGKTLLAR 431
Q K +LL GPPGTGKT+LA
Sbjct: 184 QEQAKRALEIAAAGGHNLLLVGPPGTGKTMLAS 216
>gnl|CDD|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit. All
proteins in this family for which functions are known
are 5'-3' DNA helicases that, as part of a complex with
RuvA homologs serve as a 5'-3' Holliday junction
helicase. RuvA specifically binds Holliday junctions as
a sandwich of two tetramers and maintains the
configuration of the junction. It forms a complex with
two hexameric rings of RuvB, the subunit that contains
helicase activity. The complex drives ATP-dependent
branch migration of the Holliday junction recombination
intermediate. The endonuclease RuvC resolves junctions
[DNA metabolism, DNA replication, recombination, and
repair].
Length = 305
Score = 38.4 bits (90), Expect = 0.009
Identities = 16/47 (34%), Positives = 28/47 (59%), Gaps = 4/47 (8%)
Query: 389 KEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAH 435
+++KE ++L ++ ++ +LLYGPPG GKT LA +A+
Sbjct: 10 EKVKEQLQLFIEAAKMRQE----ALDHLLLYGPPGLGKTTLAHIIAN 52
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 38.9 bits (91), Expect = 0.010
Identities = 41/209 (19%), Positives = 80/209 (38%), Gaps = 32/209 (15%)
Query: 112 ERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREEL- 170
E Q V E I E +I L+ +AEKE+ L + + +L A++ L E+
Sbjct: 287 EEQLRVKEKIGELEA-------EIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIE 339
Query: 171 QLLQEQGSYVGEVVKPM----DKKKVLVKVHPE---------------GKFVVDIDKNID 211
+L +E K + K+ L + E + ++K
Sbjct: 340 ELEREIEEERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYREKLEKLKR 399
Query: 212 -INDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQ 270
IN++ L L ++ D++ AI E + E+ L + ++E
Sbjct: 400 EINELKRE----LDRLQEELQRLSEELADLNAAIAGIEAKINELEEEKEDKALEIKKQEW 455
Query: 271 NLRRLQAQRNELNAKVRMLREELQLLQEQ 299
L +L A ++ ++ L+EE ++++
Sbjct: 456 KLEQLAADLSKYEQELYDLKEEYDRVEKE 484
Score = 37.4 bits (87), Expect = 0.027
Identities = 43/224 (19%), Positives = 102/224 (45%), Gaps = 12/224 (5%)
Query: 97 NEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQR 156
E E E ER ++E + S E ++++EL+ + E E++L +L+
Sbjct: 723 KEIEQLEQEEEK-LKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEAL 781
Query: 157 NELNAKVRM-----LREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNI- 210
N+L A++ ++ EL L+E+ S + ++ +++K L ++ E +++ + +
Sbjct: 782 NDLEARLSHSRIPEIQAELSKLEEEVSRIEARLREIEQK--LNRLTLEKEYLEKEIQELQ 839
Query: 211 DINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQ 270
+ ++ E + + K +++E ++ E +++ +L+ E E
Sbjct: 840 EQRIDLKEQIKSIEKE---IENLNGKKEELEEELEELEAALRDLESRLGDLKKERDELEA 896
Query: 271 NLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKK 314
LR L+ + EL A++ R+ L L+ + + E + ++ K
Sbjct: 897 QLRELERKIEELEAQIEKKRKRLSELKAKLEALEEELSEIEDPK 940
Score = 36.2 bits (84), Expect = 0.064
Identities = 36/167 (21%), Positives = 71/167 (42%), Gaps = 8/167 (4%)
Query: 134 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPM-DKKKV 192
IE L LI+ EK Q L RL+ +R + + + L +E + E + E K+ +
Sbjct: 185 NIERLDLIIDEKRQQLERLRREREKA-ERYQALLKEKREY-EGYELLKEKEALERQKEAI 242
Query: 193 LVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKP 252
++ + + + + I + L E KI + +E ++ E
Sbjct: 243 ERQLASLEEELEKLTEEISELEKRLEEIEQLLEELNK--KI--KDLGEEEQLRVKEKIGE 298
Query: 253 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
+I L+ +AEKE+ L + + +L A++ L E++ L+ +
Sbjct: 299 LEA-EIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELERE 344
Score = 31.2 bits (71), Expect = 2.4
Identities = 18/95 (18%), Positives = 43/95 (45%)
Query: 80 AFHKIIRKENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQ 139
A + + + + ++ ++E + R R +++ + K Y +I+ELQ
Sbjct: 780 ALNDLEARLSHSRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQ 839
Query: 140 LIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQ 174
+ ++ ++ ++ + LN K L EEL+ L+
Sbjct: 840 EQRIDLKEQIKSIEKEIENLNGKKEELEEELEELE 874
Score = 29.3 bits (66), Expect = 8.4
Identities = 45/226 (19%), Positives = 90/226 (39%), Gaps = 35/226 (15%)
Query: 87 KENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEKE 146
E + +L++A E E E + + E + + + ++L AE +
Sbjct: 311 AEKERELEDAEE------RLAKLEAEIDKLLAEIEELEREIEEERKRR-DKLTEEYAELK 363
Query: 147 QNLRRLQAQRNELNAKVRMLREELQLLQEQ----GSYVGEVVKPMDKK-KVLVKVHPEGK 201
+ L L+A+ E++ + R+EL+ +E+ + E+ + +D+ + L ++ E
Sbjct: 364 EELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREINELKRELDRLQEELQRLSEELA 423
Query: 202 FVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEEL 261
+ N I + A NE K D IK E K+E+L
Sbjct: 424 DL-----NAAIAGI-----EAKINELEE------EKEDKALEIKKQEW-------KLEQL 460
Query: 262 QLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVV 307
+++ EQ L L+ + + + ++ L+ EL + Q E V
Sbjct: 461 AADLSKYEQELYDLKEEYDRVEKELSKLQRELAEAEAQARASEERV 506
>gnl|CDD|223993 COG1066, Sms, Predicted ATP-dependent serine protease
[Posttranslational modification, protein turnover,
chaperones].
Length = 456
Score = 38.4 bits (90), Expect = 0.011
Identities = 36/135 (26%), Positives = 58/135 (42%), Gaps = 18/135 (13%)
Query: 390 EIKEVIELPVKHPELFDALGIAQPKG--VLLYGPPGTGK-TLLARAVAHHTE-CTFIRVS 445
E++E + EL LG G +L+ G PG GK TLL + A + + VS
Sbjct: 68 ELEEEPRISTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGKVLYVS 127
Query: 446 GSELVQKFIGEGSRM---VRELFVMA-----------REHAPSIIFMDEIDSIGSSRIES 491
G E +Q+ R+ L+++A + P ++ +D I ++ S I S
Sbjct: 128 GEESLQQIKLRADRLGLPTNNLYLLAETNLEDIIAELEQEKPDLVVIDSIQTLYSEEITS 187
Query: 492 GSGGDSEVQRTMLEL 506
G S+V+ EL
Sbjct: 188 APGSVSQVREVAAEL 202
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 38.4 bits (90), Expect = 0.014
Identities = 58/219 (26%), Positives = 86/219 (39%), Gaps = 45/219 (20%)
Query: 412 QPKGVLLY-GPPGTGKTLLARAVA---HHTECTFIRVSGSEL-----VQKFIGEGSRMV- 461
+P G L+ GP G GKT LA+A+A E IR+ SE V + IG V
Sbjct: 519 RPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRLIGAPPGYVG 578
Query: 462 ----RELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELL--NQL-DGFE 514
+L R S+I +DEI+ +V +L++L +L DG
Sbjct: 579 YEEGGQLTEAVRRKPYSVILLDEIEK-----------AHPDVFNLLLQVLDDGRLTDGQG 627
Query: 515 AT---KNIKGVCT-EAGMYALRER---RVHVTQEDFEMAVAKVIMATNRIDILDPALLRP 567
T +N + T AG + +E + AV + + R P L
Sbjct: 628 RTVDFRNTIIIMTSNAGSEEILRDADGDDFADKEALKEAVMEELKKHFR-----PEFL-- 680
Query: 568 GRIDRKIEFPPPNEEARLDILRIHSRKMN---LTRGINL 603
RID I F P ++E I+ + ++ RGI L
Sbjct: 681 NRIDEIIPFNPLSKEVLERIVDLQLNRLAKRLAERGITL 719
>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA
replication, recombination, and repair].
Length = 332
Score = 37.9 bits (89), Expect = 0.015
Identities = 13/20 (65%), Positives = 16/20 (80%)
Query: 416 VLLYGPPGTGKTLLARAVAH 435
VLL+GPPG GKT LA +A+
Sbjct: 55 VLLFGPPGLGKTTLAHIIAN 74
>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus. This family consists of the
C-terminal region of several eukaryotic and archaeal
RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin
or TIP49b) proteins. The N-terminal domain contains the
pfam00004 domain. In zebrafish, the liebeskummer (lik)
mutation, causes development of hyperplastic embryonic
hearts. lik encodes Reptin, a component of a
DNA-stimulated ATPase complex. Beta-catenin and Pontin,
a DNA-stimulated ATPase that is often part of complexes
with Reptin, are in the same genetic pathways. The
Reptin/Pontin ratio serves to regulate heart growth
during development, at least in part via the
beta-catenin pathway. TBP-interacting protein 49 (TIP49)
was originally identified as a TBP-binding protein, and
two related proteins are encoded by individual genes,
tip49a and b. Although the function of this gene family
has not been elucidated, they are supposed to play a
critical role in nuclear events because they interact
with various kinds of nuclear factors and have DNA
helicase activities.TIP49a has been suggested to act as
an autoantigen in some patients with autoimmune
diseases.
Length = 395
Score = 37.7 bits (88), Expect = 0.015
Identities = 18/38 (47%), Positives = 25/38 (65%), Gaps = 2/38 (5%)
Query: 414 KGVLLYGPPGTGKTLLARAVAHH--TECTFIRVSGSEL 449
+ VL+ GPPGTGKT LA A++ + F +SGSE+
Sbjct: 51 RAVLIAGPPGTGKTALAIAISKELGEDTPFCPISGSEV 88
>gnl|CDD|238541 cd01121, Sms, Sms (bacterial radA) DNA repair protein. This protein
is not related to archael radA any more than is to other
RecA-like NTPases. Sms has a role in recombination and
recombinational repair and is responsible for the
stabilization or processing of branched DNA molecules.
Length = 372
Score = 37.6 bits (88), Expect = 0.016
Identities = 35/135 (25%), Positives = 55/135 (40%), Gaps = 19/135 (14%)
Query: 393 EVIELPVKHPELFDALGIAQPKG--VLLYGPPGTGKTLLARAVAHHTECTFIR---VSGS 447
E +P EL LG G +L+ G PG GK+ L VA + VSG
Sbjct: 60 EEERIPTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGE 119
Query: 448 ELVQKFIGEGSRM---VRELFVMA-----------REHAPSIIFMDEIDSIGSSRIESGS 493
E ++ R+ L+++A E P ++ +D I ++ SS + S
Sbjct: 120 ESPEQIKLRADRLGISTENLYLLAETNLEDILASIEELKPDLVIIDSIQTVYSSELTSAP 179
Query: 494 GGDSEVQRTMLELLN 508
G S+V+ EL+
Sbjct: 180 GSVSQVRECTAELMR 194
>gnl|CDD|216270 pfam01057, Parvo_NS1, Parvovirus non-structural protein NS1. This
family also contains the NS2 protein. Parvoviruses
encode two non-structural proteins, NS1 and NS2. The
mRNA for NS2 contains the coding sequence for the first
87 amino acids of NS1, then by an alternative splicing
mechanism mRNA from a different reading frame, encoding
the last 78 amino acids, makes up the full length of the
NS2 mRNA. NS1, is the major non-structural protein. It
is essential for DNA replication. It is an 83-kDa
nuclear phosphoprotein. It has DNA helicase and ATPase
activity.
Length = 271
Score = 37.3 bits (87), Expect = 0.017
Identities = 13/20 (65%), Positives = 15/20 (75%)
Query: 416 VLLYGPPGTGKTLLARAVAH 435
V YGP TGKT LA+A+AH
Sbjct: 116 VWFYGPASTGKTNLAQAIAH 135
>gnl|CDD|203260 pfam05496, RuvB_N, Holliday junction DNA helicase ruvB N-terminus.
The RuvB protein makes up part of the RuvABC revolvasome
which catalyzes the resolution of Holliday junctions
that arise during genetic recombination and DNA repair.
Branch migration is catalyzed by the RuvB protein that
is targeted to the Holliday junction by the structure
specific RuvA protein. This family contains the
N-terminal region of the protein.
Length = 231
Score = 37.0 bits (87), Expect = 0.019
Identities = 14/20 (70%), Positives = 16/20 (80%)
Query: 416 VLLYGPPGTGKTLLARAVAH 435
VLLYGPPG GKT LA +A+
Sbjct: 53 VLLYGPPGLGKTTLANIIAN 72
>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 = 36.5 bits (85), Expect = 0.021
Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 2/49 (4%)
Query: 400 KHPELFDALGIAQP-KGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGS 447
K P L D G+ +P + VL+ G PG+G + L +A+A+ TE + V G
Sbjct: 19 KIPILKDFSGVVKPGEMVLVLGRPGSGCSTLLKALANRTE-GNVSVEGD 66
>gnl|CDD|213190 cd03223, ABCD_peroxisomal_ALDP, ATP-binding cassette domain of
peroxisomal transporter, subfamily D. Peroxisomal
ATP-binding cassette transporter (Pat) is involved in
the import of very long-chain fatty acids (VLCFA) into
the peroxisome. The peroxisomal membrane forms a
permeability barrier for a wide variety of metabolites
required for and formed during fatty acid
beta-oxidation. To communicate with the cytoplasm and
mitochondria, peroxisomes need dedicated proteins to
transport such hydrophilic molecules across their
membranes. X-linked adrenoleukodystrophy (X-ALD) is
caused by mutations in the ALD gene, which encodes ALDP
(adrenoleukodystrophy protein ), a peroxisomal integral
membrane protein that is a member of the ATP-binding
cassette (ABC) transporter protein family. The disease
is characterized by a striking and unpredictable
variation in phenotypic expression. Phenotypes include
the rapidly progressive childhood cerebral form (CCALD),
the milder adult form, adrenomyeloneuropathy (AMN), and
variants without neurologic involvement (i.e.
asymptomatic).
Length = 166
Score = 36.0 bits (84), Expect = 0.022
Identities = 31/128 (24%), Positives = 49/128 (38%), Gaps = 37/128 (28%)
Query: 408 LGIAQPKGVLLYGPPGTGKTLLARAVAH---HTECTFIRVSGSE---LVQK-FIGEGSRM 460
I +L+ GP GTGK+ L RA+A G + L Q+ ++ G+
Sbjct: 22 FEIKPGDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFLPQRPYLPLGT-- 79
Query: 461 VRELFV----------------MARE--HAPSIIFMDEIDSIGSSRIESGSGGDSEVQRT 502
+RE + AR H P +F+D E+ S D E +
Sbjct: 80 LREQLIYPWDDVLSGGEQQRLAFARLLLHKPKFVFLD----------EATSALDEESEDR 129
Query: 503 MLELLNQL 510
+ +LL +L
Sbjct: 130 LYQLLKEL 137
>gnl|CDD|219014 pfam06414, Zeta_toxin, Zeta toxin. This family consists of several
bacterial zeta toxin proteins. Zeta toxin is thought to
be part of a postregulational killing system in
bacteria. It relies on antitoxin/toxin systems that
secure stable inheritance of low and medium copy number
plasmids during cell division and kill cells that have
lost the plasmid.
Length = 191
Score = 36.1 bits (84), Expect = 0.025
Identities = 27/89 (30%), Positives = 33/89 (37%), Gaps = 25/89 (28%)
Query: 411 AQPKGVLLYGPPGTGKTLLARAVAHHTECT-FIRVSG---------------------SE 448
+P VLL G PG GKT LARA+ +R+ SE
Sbjct: 10 ERPVAVLLGGQPGAGKTELARALLEELGGGNVVRIDPDELRTYHPDYDELQKADPKDASE 69
Query: 449 LVQKFIGEGSRMVRELFVMAREHAPSIIF 477
L Q SR V +L A E +II
Sbjct: 70 LTQPDA---SRWVEKLIDYAIERGYNIIL 95
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 35.0 bits (80), Expect = 0.027
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFI 442
+L+ GPPG+GK+ LA+ +A I
Sbjct: 2 ILITGPPGSGKSTLAKKLAEKLGIPVI 28
>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional.
Length = 316
Score = 36.9 bits (86), Expect = 0.027
Identities = 22/72 (30%), Positives = 39/72 (54%), Gaps = 3/72 (4%)
Query: 417 LLYGP-PGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSI 475
LL+ P PGTGKT +A+A+ + + V+GS+ F+ +R+ R ++ +
Sbjct: 46 LLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSDCRIDFV--RNRLTRFASTVSLTGGGKV 103
Query: 476 IFMDEIDSIGSS 487
I +DE D +G +
Sbjct: 104 IIIDEFDRLGLA 115
>gnl|CDD|216186 pfam00910, RNA_helicase, RNA helicase. This family includes RNA
helicases thought to be involved in duplex unwinding
during viral RNA replication. Members of this family are
found in a variety of single stranded RNA viruses.
Length = 105
Score = 34.5 bits (80), Expect = 0.030
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 416 VLLYGPPGTGKTLLARAVAHH 436
+ LYGPPG GK+ LA+ +A
Sbjct: 1 IWLYGPPGCGKSTLAKYLARA 21
>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated.
Length = 268
Score = 36.5 bits (85), Expect = 0.032
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 415 GVLLYGPPGTGKTLLARAVAHH 436
G+LL+G GTGKT LA +A+
Sbjct: 116 GLLLWGSVGTGKTYLAACIANE 137
>gnl|CDD|234141 TIGR03185, DNA_S_dndD, DNA sulfur modification protein DndD. This
model describes the DndB protein encoded by an operon
associated with a sulfur-containing modification to DNA.
The operon is sporadically distributed in bacteria, much
like some restriction enzyme operons. DndD is described
as a putative ATPase. The small number of examples known
so far include species from among the Firmicutes,
Actinomycetes, Proteobacteria, and Cyanobacteria [DNA
metabolism, Restriction/modification].
Length = 650
Score = 36.6 bits (85), Expect = 0.042
Identities = 17/96 (17%), Positives = 36/96 (37%), Gaps = 12/96 (12%)
Query: 86 RKENKEKLQNANEGEMDVDEAYTYEVERQRTVDEA-IKSSEGFKPYYVTKIEELQLIVAE 144
R+ K +L ++ E++ EA E + I ++EE Q +
Sbjct: 196 RRRKKSELPSSILSEIEALEAELKEQSEKYEDLAQEIAHLR-------NELEEAQRSLES 248
Query: 145 KEQNLRR----LQAQRNELNAKVRMLREELQLLQEQ 176
E+ R L +R +L +++ + + + Q
Sbjct: 249 LEKKFRSEGGDLFEEREQLERQLKEIEAARKANRAQ 284
>gnl|CDD|233119 TIGR00763, lon, ATP-dependent protease La. This protein is induced
by heat shock and other stresses in E. coli, B.
subtilis, and other species. The yeast member,
designated PIM1, is located in the mitochondrial matrix,
required for mitochondrial function, and also induced by
heat shock [Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 775
Score = 36.5 bits (85), Expect = 0.045
Identities = 28/80 (35%), Positives = 40/80 (50%), Gaps = 12/80 (15%)
Query: 418 LYGPPGTGKTLLARAVAHHTECTFIRVS--GSELVQKFIGE-----GS---RMVRELFVM 467
L GPPG GKT L +++A F+R S G + G G+ R+++ L
Sbjct: 352 LVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGHRRTYVGAMPGRIIQGL-KK 410
Query: 468 AREHAPSIIFMDEIDSIGSS 487
A+ P + +DEID IGSS
Sbjct: 411 AKTKNP-LFLLDEIDKIGSS 429
>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 36.8 bits (86), Expect = 0.047
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 417 LLYGPPGTGKTLLARAVAHHTECTFIRVS 445
L GPPG GKT L +++A F+R+S
Sbjct: 354 CLVGPPGVGKTSLGKSIAKALGRKFVRIS 382
>gnl|CDD|214396 CHL00206, ycf2, Ycf2; Provisional.
Length = 2281
Score = 36.8 bits (85), Expect = 0.052
Identities = 24/105 (22%), Positives = 47/105 (44%), Gaps = 19/105 (18%)
Query: 408 LGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVM 467
L ++ +G+L+ G GTG++ L + +A ++ FI V + KF+
Sbjct: 1625 LALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITV----FLNKFL------------- 1667
Query: 468 AREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDG 512
++ P +D+ID S I+ D ++ +L ++N L
Sbjct: 1668 --DNKPKGFLIDDIDIDDSDDIDDSDDIDRDLDTELLTMMNALTM 1710
>gnl|CDD|110677 pfam01695, IstB_IS21, IstB-like ATP binding protein. This protein
contains an ATP/GTP binding P-loop motif. It is found
associated with IS21 family insertion sequences. The
function of this protein is unknown, but it may perform
a transposase function.
Length = 178
Score = 34.9 bits (81), Expect = 0.065
Identities = 15/26 (57%), Positives = 18/26 (69%)
Query: 410 IAQPKGVLLYGPPGTGKTLLARAVAH 435
I Q + +LL GPPG GKT LA A+ H
Sbjct: 44 IEQAENLLLLGPPGVGKTHLACALGH 69
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 34.1 bits (79), Expect = 0.11
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 416 VLLYGPPGTGKTLLARAVAHH 436
+++ G P TGKT L A+A
Sbjct: 2 IVITGGPSTGKTTLLEALAAR 22
>gnl|CDD|215758 pfam00158, Sigma54_activat, Sigma-54 interaction domain.
Length = 168
Score = 33.9 bits (79), Expect = 0.11
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 416 VLLYGPPGTGKTLLARAV 433
VL+ G GTGK L ARA+
Sbjct: 25 VLITGESGTGKELFARAI 42
>gnl|CDD|235825 PRK06547, PRK06547, hypothetical protein; Provisional.
Length = 172
Score = 33.9 bits (78), Expect = 0.11
Identities = 19/50 (38%), Positives = 24/50 (48%), Gaps = 4/50 (8%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIG--EGSRMVRE 463
VL+ G G+GKT LA A+A T F V +L + G S V E
Sbjct: 18 VLIDGRSGSGKTTLAGALAART--GFQLVHLDDLYPGWHGLAAASEHVAE 65
>gnl|CDD|213527 TIGR00390, hslU, ATP-dependent protease HslVU, ATPase subunit.
This model represents the ATPase subunit of HslVU, while
the proteasome-related peptidase subunit is HslV.
Residues 54-61 of the model contain a P-loop ATP-binding
motif. Cys-287 of E. coli (position 308 in the seed
alignment), studied in MEDLINE:98389714, is Ser in other
members of the seed alignment [Protein fate, Protein
folding and stabilization].
Length = 441
Score = 34.8 bits (80), Expect = 0.13
Identities = 20/54 (37%), Positives = 32/54 (59%), Gaps = 2/54 (3%)
Query: 413 PKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQ-KFIG-EGSRMVREL 464
PK +L+ GP G GKT +AR +A FI+V ++ + ++G + MVR+L
Sbjct: 47 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRDVESMVRDL 100
>gnl|CDD|236892 PRK11281, PRK11281, hypothetical protein; Provisional.
Length = 1113
Score = 34.9 bits (81), Expect = 0.17
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 10/49 (20%)
Query: 137 ELQLIVAEKEQNLRRL----------QAQRNELNAKVRMLREELQLLQE 175
E L+ A+ + + L Q QR+ L A+++ L +LQLLQE
Sbjct: 200 EQALLNAQNDLQRKSLEGNTQLQDLLQKQRDYLTARIQRLEHQLQLLQE 248
Score = 34.9 bits (81), Expect = 0.17
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 10/49 (20%)
Query: 260 ELQLIVAEKEQNLRRL----------QAQRNELNAKVRMLREELQLLQE 298
E L+ A+ + + L Q QR+ L A+++ L +LQLLQE
Sbjct: 200 EQALLNAQNDLQRKSLEGNTQLQDLLQKQRDYLTARIQRLEHQLQLLQE 248
>gnl|CDD|221432 pfam12128, DUF3584, Protein of unknown function (DUF3584). This
protein is found in bacteria and eukaryotes. Proteins in
this family are typically between 943 to 1234 amino
acids in length. This family contains a P-loop motif
suggesting it is a nucleotide binding protein. It may be
involved in replication.
Length = 1198
Score = 34.7 bits (80), Expect = 0.17
Identities = 37/250 (14%), Positives = 86/250 (34%), Gaps = 36/250 (14%)
Query: 69 NVTIPNREILTAFHKIIRKENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFK 128
N + ++ A + K+ + LQ +E + + + + + E + +E
Sbjct: 634 NAELEEQKRAEAEARTALKQARLDLQRLQ------NEQQSLKDKLELAIAERKQQAE--- 684
Query: 129 PYYVTKIEELQLIVAEKEQNLRRLQA-----QRNELNAKVRMLREELQLLQEQGSYVGEV 183
+L+ + A+ +Q L + QA + + + L + + E + + ++
Sbjct: 685 -------TQLRQLDAQLKQLLEQQQAFLEALKDDFRELRTERLAKWQVVEGELDNQLAQL 737
Query: 184 VKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEA 243
++ + K + D+ + DV PN L+ + L +
Sbjct: 738 SAAIEAARTQAKARLKE-LKKQYDRELASLDVDPNTVKELKRQIEELETTIERIAVRRPE 796
Query: 244 IKSSEGF--------------KPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRML 289
++ F +P ++ EL+ E +Q L RL K+
Sbjct: 797 VREYRAFMQETWLHRDSLREERPNLAIQLRELESSAEELQQELTRLIKDTKLRRKKLEQE 856
Query: 290 REELQLLQEQ 299
R+ L+ +Q
Sbjct: 857 RKALEKQLDQ 866
>gnl|CDD|131948 TIGR02902, spore_lonB, ATP-dependent protease LonB. Members of
this protein are LonB, a paralog of the ATP-dependent
protease La (LonA, TIGR00763). LonB proteins are found
strictly, and almost universally, in endospore-forming
bacteria. This protease was shown, in Bacillus subtilis,
to be expressed specifically in the forespore, during
sporulation, under control of sigma(F). The lonB gene,
despite location immediately upstream of lonA, was shown
to be monocistronic. LonB appears able to act on
sigma(H) for post-translation control, but lonB mutation
did not produce an obvious sporulation defect under the
conditions tested. Note that additional paralogs of LonA
and LonB occur in the Clostridium lineage and this model
selects only one per species as the protein that
corresponds to LonB in B. subtilis [Protein fate,
Degradation of proteins, peptides, and glycopeptides,
Cellular processes, Sporulation and germination].
Length = 531
Score = 34.7 bits (80), Expect = 0.18
Identities = 23/64 (35%), Positives = 31/64 (48%), Gaps = 15/64 (23%)
Query: 371 EKV-PDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLL 429
EK P S E++G + IK +K + P P+ V++YGPPG GKT
Sbjct: 57 EKTRPKSFDEIIGQ-EEGIKALKAALCGP-------------NPQHVIIYGPPGVGKTAA 102
Query: 430 ARAV 433
AR V
Sbjct: 103 ARLV 106
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 34.6 bits (80), Expect = 0.18
Identities = 17/85 (20%), Positives = 29/85 (34%), Gaps = 8/85 (9%)
Query: 359 NKVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIE---LPVKHPE---LFDALGIAQ 412
++ + ++ G + I L ++ P+ L L
Sbjct: 357 LRLAEFRQALEAAQMDTEKPARTGRRIDFDDNADHGITLENLSLRTPDGQTLLSELNFEV 416
Query: 413 PKG--VLLYGPPGTGKTLLARAVAH 435
G +L+ G G GKT L RA+A
Sbjct: 417 RPGERLLITGESGAGKTSLLRALAG 441
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 34.6 bits (80), Expect = 0.20
Identities = 35/190 (18%), Positives = 84/190 (44%), Gaps = 25/190 (13%)
Query: 133 TKIEELQLIVAEKEQNLRRLQAQRNELNAKV-------RMLREELQLLQEQGSYVGEVVK 185
K+EEL+L V+E E+ + LQ + L ++ ++LRE L L+ Q + ++
Sbjct: 267 EKLEELRLEVSELEEEIEELQKELYALANEISRLEQQKQILRERLANLERQLEELEAQLE 326
Query: 186 PMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIK 245
++ K + + + ++++ + + +L E L L ++ ++
Sbjct: 327 ELESKLDELA-----EELAELEEKL---EELKEELESLEAELEELEAELEE---LESRLE 375
Query: 246 SSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGE 305
E ++E L+ VA+ E + L + L A++ L + + LQ++ + +
Sbjct: 376 ELE-------EQLETLRSKVAQLELQIASLNNEIERLEARLERLEDRRERLQQEIEELLK 428
Query: 306 VVKPMDKKKV 315
++ + K++
Sbjct: 429 KLEEAELKEL 438
Score = 33.5 bits (77), Expect = 0.50
Identities = 41/239 (17%), Positives = 83/239 (34%), Gaps = 38/239 (15%)
Query: 82 HKIIRKENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLI 141
K I +E L+ E EA E+E + + K+EEL+
Sbjct: 303 QKQILRERLANLERQLE----ELEAQLEELESKLDELAEELAELE------EKLEELKEE 352
Query: 142 VAEKEQNLRRLQAQRNELNAKVRMLREEL--------QLLQEQGSYVGEVVKPMDKKKVL 193
+ E L L+A+ EL +++ L E+L QL + S E+ + + +
Sbjct: 353 LESLEAELEELEAELEELESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLE-- 410
Query: 194 VKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPY 253
++ + + + ++ + +++E + E +
Sbjct: 411 -----------RLEDRRERLQQ----EIEELLKKLEEAELKELQAELEELEEELEELQEE 455
Query: 254 YVTKIEELQLIVAEKEQNLRRLQAQRNELN---AKVRMLREELQLLQEQGSYVGEVVKP 309
E L+ + E E+ + L A EL A++ L + L+ V ++K
Sbjct: 456 LERLEEALEELREELEEAEQALDAAERELAQLQARLDSLERLQENLEGFSEGVKALLKN 514
Score = 32.7 bits (75), Expect = 0.74
Identities = 28/156 (17%), Positives = 63/156 (40%), Gaps = 18/156 (11%)
Query: 144 EKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFV 203
E+ + + L+ + EL K+ L + L L+++ + E ++ + K+
Sbjct: 674 ERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKEL------------ 721
Query: 204 VDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEELQL 263
+ + I+ + + +I ++ E E ++EE +
Sbjct: 722 --EELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEE----LEERLEEAEE 775
Query: 264 IVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
+AE E + L+AQ +L +++ LRE L L+ +
Sbjct: 776 ELAEAEAEIEELEAQIEQLKEELKALREALDELRAE 811
Score = 32.7 bits (75), Expect = 0.75
Identities = 40/201 (19%), Positives = 81/201 (40%), Gaps = 27/201 (13%)
Query: 112 ERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELN-------AKVR 164
ER + + + E ++EE + +AE E + L+AQ +L +
Sbjct: 747 ERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALD 806
Query: 165 MLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNI-----DINDVTPN- 218
LR EL LL E+ + + E ++ ++++ + + D+++ I DI +
Sbjct: 807 ELRAELTLLNEEAANLRERLESLERRIAATERR-----LEDLEEQIEELSEDIESLAAEI 861
Query: 219 --CRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQ 276
+ L +L + ++EA+ +++EEL + E E L+
Sbjct: 862 EELEELIEELESELEALLNERASLEEALALLR-------SELEELSEELRELESKRSELR 914
Query: 277 AQRNELNAKVRMLREELQLLQ 297
+ EL K+ L L+ L+
Sbjct: 915 RELEELREKLAQLELRLEGLE 935
Score = 32.0 bits (73), Expect = 1.3
Identities = 48/224 (21%), Positives = 96/224 (42%), Gaps = 34/224 (15%)
Query: 86 RKENKEKLQNANEGEMDVDEAYTYEVERQ-----RTVDEAIKSSEGFKPYYVTKIEELQL 140
RKE + KL+ E +D E E+ERQ R ++A + E ++ EL+L
Sbjct: 174 RKETERKLERTRE-NLDRLEDILNELERQLKSLERQAEKAERYKE-----LKAELRELEL 227
Query: 141 IVA-----EKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVK 195
+ E + L LQ + E ++ L ELQ L+E+ + V ++++ +
Sbjct: 228 ALLVLRLEELREELEELQEELKEAEEELEELTAELQELEEKLEELRLEVSELEEEIEEL- 286
Query: 196 VHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYV 255
+ + +I+ + ++ E L + +++ ++ E
Sbjct: 287 ---QKEL---YALANEISRLEQQKQIL--RER--LANLERQLEELEAQLEELE------- 329
Query: 256 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
+K++EL +AE E+ L L+ + L A++ L EL+ L+ +
Sbjct: 330 SKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELESR 373
Score = 31.6 bits (72), Expect = 1.6
Identities = 25/103 (24%), Positives = 41/103 (39%), Gaps = 1/103 (0%)
Query: 74 NREILTAFHKIIRKENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVT 133
RE L + N+E E E + ++ + SE +
Sbjct: 801 LREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIEELSEDIESL-AA 859
Query: 134 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
+IEEL+ ++ E E L L +R L + +LR EL+ L E+
Sbjct: 860 EIEELEELIEELESELEALLNERASLEEALALLRSELEELSEE 902
Score = 30.4 bits (69), Expect = 4.3
Identities = 38/216 (17%), Positives = 82/216 (37%), Gaps = 29/216 (13%)
Query: 84 IIRKENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLIVA 143
+ K E + E E ++++ E R + K + ++E+L+ +A
Sbjct: 695 ELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLE----AEVEQLEERIA 750
Query: 144 EKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFV 203
+ + L L+A+ EL ++ EEL + + + ++ +
Sbjct: 751 QLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIE---------------QLK 795
Query: 204 VDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEELQL 263
++ + D LR E TL ++ E ++S E ++E+L+
Sbjct: 796 EELKALREALD-------ELRAE-LTLLNE--EAANLRERLESLERRIAATERRLEDLEE 845
Query: 264 IVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
+ E +++ L A+ EL + L EL+ L +
Sbjct: 846 QIEELSEDIESLAAEIEELEELIEELESELEALLNE 881
Score = 30.0 bits (68), Expect = 4.8
Identities = 28/169 (16%), Positives = 75/169 (44%), Gaps = 3/169 (1%)
Query: 134 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQ-EQGSYVGEVVK-PMDKKK 191
+++E + + E L+ L+ + EL +V L EE++ LQ E + E+ + K+
Sbjct: 247 ELKEAEEELEELTAELQELEEKLEELRLEVSELEEEIEELQKELYALANEISRLEQQKQI 306
Query: 192 VLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNES-YTLHKILPNKMDVDEAIKSSEGF 250
+ ++ + + +++ ++ + + E L ++ ++ ++ E
Sbjct: 307 LRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAE 366
Query: 251 KPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
+++EEL+ + + +L+ Q LN ++ L L+ L+++
Sbjct: 367 LEELESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLERLEDR 415
Score = 30.0 bits (68), Expect = 5.3
Identities = 40/169 (23%), Positives = 70/169 (41%), Gaps = 31/169 (18%)
Query: 134 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVL 193
+IEEL+ + E E+ L +A+ EL A++ L+EEL+ L+E + +
Sbjct: 762 EIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDELRAELT-------- 813
Query: 194 VKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYT---LHKILPNKMDVDEAIKSSEGF 250
N + ++ R + T L + ++ E I+S
Sbjct: 814 -------------LLNEEAANLRERLESLERRIAATERRLEDLEEQIEELSEDIESLAA- 859
Query: 251 KPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
+IEEL+ ++ E E L L +R L + +LR EL+ L E+
Sbjct: 860 ------EIEELEELIEELESELEALLNERASLEEALALLRSELEELSEE 902
Score = 29.6 bits (67), Expect = 7.6
Identities = 22/103 (21%), Positives = 43/103 (41%), Gaps = 4/103 (3%)
Query: 74 NREILTAFHKIIRKENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVT 133
++ T K+ + E + N ++ E R+R E + + +
Sbjct: 378 EEQLETLRSKVAQLELQIASLNNEIERLE-ARLERLEDRRERLQQEIEELLKKLEE---A 433
Query: 134 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
+++ELQ + E E+ L LQ + L + LREEL+ ++
Sbjct: 434 ELKELQAELEELEEELEELQEELERLEEALEELREELEEAEQA 476
>gnl|CDD|227512 COG5185, HEC1, Protein involved in chromosome segregation,
interacts with SMC proteins [Cell division and
chromosome partitioning].
Length = 622
Score = 34.2 bits (78), Expect = 0.24
Identities = 17/112 (15%), Positives = 45/112 (40%), Gaps = 7/112 (6%)
Query: 87 KENKEKLQNANEGEMDVDEAYTYEVERQRTVDE-------AIKSSEGFKPYYVTKIEELQ 139
K + L + M + + E+ R + + + + + K+E+L+
Sbjct: 277 KTQNDNLYEKIQEAMKISQKIKTLREKWRALKSDSNKYENYVNAMKQKSQEWPGKLEKLK 336
Query: 140 LIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKK 191
+ KE+ ++ LQ+ +EL+ ++R + + ++ + +DK
Sbjct: 337 SEIELKEEEIKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTRELDKIN 388
Score = 32.3 bits (73), Expect = 0.93
Identities = 41/211 (19%), Positives = 82/211 (38%), Gaps = 43/211 (20%)
Query: 110 EVERQRTVDEAIKSSEGFKPYYVTK----IEELQLIVAEKEQ---NLRRLQAQRNELNAK 162
E+E + +A++S+ + K E+ +L+ E+E+ L ++ Q ++L
Sbjct: 338 EIELKEEEIKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTRELDKINIQSDKLTKS 397
Query: 163 VRMLREELQ---------------LLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDID 207
V+ + E Q L+Q ++ + +K++ E F
Sbjct: 398 VKSRKLEAQGIFKSLEKTLRQYDSLIQNITRSRSQIGH--NVNDSSLKINIEQLF----P 451
Query: 208 KNIDINDVTPNCRVALRNESYTLHKILPNK-MDVDEAIKSSEGFKPYYVTKIEELQLIVA 266
K IN+ + L +E K NK + ++E IK L+ +
Sbjct: 452 KGSGINESIKKSILELNDEIQERIKTEENKSITLEEDIK--------------NLKHDIN 497
Query: 267 EKEQNLRRLQAQRNELNAKVRMLREELQLLQ 297
E Q L +L+ + +E N+K + +EE +
Sbjct: 498 ELTQILEKLELELSEANSKFELSKEENEREL 528
Score = 31.1 bits (70), Expect = 2.2
Identities = 12/72 (16%), Positives = 34/72 (47%)
Query: 243 AIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSY 302
+ + + + K+E+L+ + KE+ ++ LQ+ +EL+ ++R + +
Sbjct: 317 YVNAMKQKSQEWPGKLEKLKSEIELKEEEIKALQSNIDELHKQLRKQGISTEQFELMNQE 376
Query: 303 VGEVVKPMDKKK 314
++ + +DK
Sbjct: 377 REKLTRELDKIN 388
>gnl|CDD|222165 pfam13481, AAA_25, AAA domain. This AAA domain is found in a wide
variety of presumed DNA repair proteins.
Length = 154
Score = 32.6 bits (75), Expect = 0.25
Identities = 25/105 (23%), Positives = 38/105 (36%), Gaps = 15/105 (14%)
Query: 416 VLLYGPPGTGKTLL----ARAVAHHTECTFIRVSGSELVQKFIGEGS------RMVRELF 465
LL G PGTGK+ L A AVA V GE S R+
Sbjct: 36 TLLAGAPGTGKSTLALDLAAAVATGRPFLGPFPVEPGRVLYLDGEDSEAGLRRRLRALGE 95
Query: 466 VMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQL 510
+ P ++ +D + S+ ++ V +L L++L
Sbjct: 96 ALEEIEGPDLVVIDPLASLLGGDEND----NAAVGA-LLAALDRL 135
>gnl|CDD|219934 pfam08614, ATG16, Autophagy protein 16 (ATG16). Autophagy is a
ubiquitous intracellular degradation system for
eukaryotic cells. During autophagy, cytoplasmic
components are enclosed in autophagosomes and delivered
to lysosomes/vacuoles. ATG16 (also known as Apg16) has
been shown to be bind to Apg5 and is required for the
function of the Apg12p-Apg5p conjugate in the yeast
autophagy pathway.
Length = 194
Score = 33.3 bits (76), Expect = 0.27
Identities = 12/41 (29%), Positives = 25/41 (60%)
Query: 133 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLL 173
++E+L+ + + E+ + L+++ L ++R LREELQ
Sbjct: 102 DELEQLRREIQQLEKTIAELRSEITSLETEIRDLREELQEK 142
Score = 33.3 bits (76), Expect = 0.27
Identities = 12/41 (29%), Positives = 25/41 (60%)
Query: 256 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLL 296
++E+L+ + + E+ + L+++ L ++R LREELQ
Sbjct: 102 DELEQLRREIQQLEKTIAELRSEITSLETEIRDLREELQEK 142
>gnl|CDD|163057 TIGR02881, spore_V_K, stage V sporulation protein K. Members of
this protein family are the stage V sporulation protein
K (SpoVK), a close homolog of the Rubisco expression
protein CbbX (TIGR02880) and a members of the ATPase
family associated with various cellular activities
(pfam00004). Members are strictly limited to bacterial
endospore-forming species, but are not universal in this
group and are missing from the Clostridium group
[Cellular processes, Sporulation and germination].
Length = 261
Score = 33.5 bits (77), Expect = 0.29
Identities = 31/103 (30%), Positives = 50/103 (48%), Gaps = 17/103 (16%)
Query: 388 IKEIKEVIELPVKHPELFDALGIAQPKGVL---LYGPPGTGKTLLARAVAHH-------T 437
IKEI I++ K E G+ K VL G PGTGKT +AR + +
Sbjct: 18 IKEIYAWIQINEKRKEE----GLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLS 73
Query: 438 ECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDE 480
+ I V ++LV ++IG ++ RE+ ++ ++F+DE
Sbjct: 74 KGHLIEVERADLVGEYIGHTAQKTREVI---KKALGGVLFIDE 113
>gnl|CDD|233355 TIGR01313, therm_gnt_kin, carbohydrate kinase, thermoresistant
glucokinase family. This model represents a subfamily
of proteins that includes thermoresistant and
thermosensitve isozymes of gluconate kinase
(gluconokinase) in E. coli and other related proteins;
members of this family are often named by similarity to
the thermostable isozyme. These proteins show homology
to shikimate kinases and adenylate kinases but not to
gluconate kinases from the FGGY family of carbohydrate
kinases.
Length = 163
Score = 32.4 bits (74), Expect = 0.32
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 418 LYGPPGTGKTLLARAVAHHTECTFI 442
L G G+GK+ +A A+AH FI
Sbjct: 3 LMGVAGSGKSTIASALAHRLGAKFI 27
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 33.2 bits (76), Expect = 0.35
Identities = 18/36 (50%), Positives = 23/36 (63%), Gaps = 2/36 (5%)
Query: 397 LPVKHPELFDALGIAQPKG--VLLYGPPGTGKTLLA 430
+P P L + LG P+G VL+ GPPGTGKT+ A
Sbjct: 5 IPTGIPGLDEILGGGLPRGSVVLITGPPGTGKTIFA 40
>gnl|CDD|232966 TIGR00416, sms, DNA repair protein RadA. The gene protuct codes
for a probable ATP-dependent protease involved in both
DNA repair and degradation of proteins, peptides,
glycopeptides. Also known as sms. Residues 11-28 of the
SEED alignment contain a putative Zn binding domain.
Residues 110-117 of the seed contain a putative ATP
binding site both documented in Haemophilus and in
Listeria monocytogenes. for E.coli see ( J. BACTERIOL.
178:5045-5048(1996)) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 454
Score = 33.6 bits (77), Expect = 0.37
Identities = 31/116 (26%), Positives = 47/116 (40%), Gaps = 17/116 (14%)
Query: 409 GIAQPKGVLLYGPPGTGKTLLARAVAHH---TECTFIRVSGSELVQKFIGEGSRM---VR 462
GI +L+ G PG GK+ L VA + + VSG E +Q+ R+
Sbjct: 90 GIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEESLQQIKMRAIRLGLPEP 149
Query: 463 ELFVM-----------AREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELL 507
L+V+ E P +D I ++ S I S G S+V+ EL+
Sbjct: 150 NLYVLSETNWEQICANIEEENPQACVIDSIQTLYSPDISSAPGSVSQVRECTAELM 205
>gnl|CDD|129465 TIGR00368, TIGR00368, Mg chelatase-related protein. The N-terminal
end matches very strongly a pfam Mg_chelatase domain
[Unknown function, General].
Length = 499
Score = 33.7 bits (77), Expect = 0.38
Identities = 16/27 (59%), Positives = 20/27 (74%), Gaps = 2/27 (7%)
Query: 407 ALGIAQPKG--VLLYGPPGTGKTLLAR 431
AL IA G +LL+GPPG+GKT+LA
Sbjct: 203 ALEIAAAGGHNLLLFGPPGSGKTMLAS 229
>gnl|CDD|235179 PRK03947, PRK03947, prefoldin subunit alpha; Reviewed.
Length = 140
Score = 31.8 bits (73), Expect = 0.41
Identities = 34/169 (20%), Positives = 66/169 (39%), Gaps = 48/169 (28%)
Query: 143 AEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYV----------------GEVVKP 186
E EQ L L AQ L A++ L+++L+ LQ + + E + P
Sbjct: 2 MESEQELEELAAQLQALQAQIEALQQQLEELQASINELDTAKETLEELKSKGEGKETLVP 61
Query: 187 MDKKK-VLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIK 245
+ V KV + K +V + + D+DEAI+
Sbjct: 62 IGAGSFVKAKVKDKDKVIVSLGAGYSA------------------------EKDLDEAIE 97
Query: 246 SSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQ 294
+ + EEL+ + + E+ L++L ++ +L +++ L++E
Sbjct: 98 ILD-------KRKEELEKALEKLEEALQKLASRIAQLAQELQQLQQEAA 139
>gnl|CDD|234053 TIGR02903, spore_lon_C, ATP-dependent protease, Lon family.
Members of this protein family resemble the widely
distributed ATP-dependent protease La, also called Lon
and LonA. It resembles even more closely LonB, which is
a LonA paralog found in genomes if and only if the
species is capable of endospore formation (as in
Bacillus subtilis, Clostridium tetani, and select other
members of the Firmicutes) and expressed specifically in
the forespore compartment. Members of this family are
restricted to a subset of spore-forming species, and are
very likely to participate in the program of endospore
formation. We propose the designation LonC [Protein
fate, Degradation of proteins, peptides, and
glycopeptides, Cellular processes, Sporulation and
germination].
Length = 615
Score = 33.2 bits (76), Expect = 0.43
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 413 PKGVLLYGPPGTGKTLLARAV 433
P+ ++LYGPPG GKT AR
Sbjct: 175 PQHIILYGPPGVGKTTAARLA 195
>gnl|CDD|238979 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl
transfer from ATP to gluconate. The resulting product
gluconate-6-phoshate is an important precursor of
gluconate metabolism. GntK acts as a dimmer composed of
two identical subunits.
Length = 150
Score = 31.8 bits (73), Expect = 0.44
Identities = 8/28 (28%), Positives = 16/28 (57%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIR 443
+++ G G+GK+ + +A+A FI
Sbjct: 2 IVVMGVSGSGKSTVGKALAERLGAPFID 29
>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA
replication, recombination, and repair /
Posttranslational modification, protein turnover,
chaperones].
Length = 366
Score = 33.1 bits (76), Expect = 0.44
Identities = 51/281 (18%), Positives = 93/281 (33%), Gaps = 78/281 (27%)
Query: 413 PKGVLLYGPPGTGKTLLARAVAHHTE------------C----TFIRVSGSELVQKFIGE 456
P +++YGP GTGKT + V E C T +V S+++ K
Sbjct: 42 PSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVL-SKILNKLGKV 100
Query: 457 GSRMVR--ELFVMAREH-----APSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQ 509
E+ ++ I+ +DE+D++ + LL
Sbjct: 101 PLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKD-----------GEVLYSLLR- 148
Query: 510 LDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATNRIDILDPALLRPGR 569
+ ++++ V +D LDP +
Sbjct: 149 ---------------------------APGENKVKVSIIAVSNDDKFLDYLDPRV--KSS 179
Query: 570 I-DRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIAELMPGASGAE------VKGVC 622
+ +I FPP E DILR + + G+ + +L+ AE +
Sbjct: 180 LGPSEIVFPPYTAEELYDILR-ERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDIL 238
Query: 623 TEAGMYALRERRVHVTQEDFEMAVAKVMQKDSEKNMSIKKL 663
AG A RE V+++ A Q++ E+++ + L
Sbjct: 239 RRAGEIAEREGSRKVSEDHVREA-----QEEIERDVLEEVL 274
>gnl|CDD|224160 COG1239, ChlI, Mg-chelatase subunit ChlI [Coenzyme metabolism].
Length = 423
Score = 33.1 bits (76), Expect = 0.47
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 410 IAQPKGVLLYGPPGTGKTLLARAVA 434
Q G L+ G GT K+ LARA+A
Sbjct: 35 DPQIGGALIAGEKGTAKSTLARALA 59
>gnl|CDD|222163 pfam13479, AAA_24, AAA domain. This AAA domain is found in a wide
variety of presumed phage proteins.
Length = 201
Score = 32.3 bits (74), Expect = 0.49
Identities = 12/16 (75%), Positives = 14/16 (87%)
Query: 416 VLLYGPPGTGKTLLAR 431
VL+YGPPG GKT LA+
Sbjct: 6 VLIYGPPGIGKTSLAK 21
>gnl|CDD|237495 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional.
Length = 637
Score = 33.1 bits (76), Expect = 0.49
Identities = 12/23 (52%), Positives = 19/23 (82%)
Query: 412 QPKGVLLYGPPGTGKTLLARAVA 434
Q + V++ G PGTGK++LA+A+A
Sbjct: 49 QRRHVMMIGSPGTGKSMLAKAMA 71
>gnl|CDD|224292 COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 398
Score = 33.1 bits (76), Expect = 0.50
Identities = 23/97 (23%), Positives = 40/97 (41%), Gaps = 4/97 (4%)
Query: 389 KEIKEVIELPVKH-PELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGS 447
+IK+ K P L L + P +L+ GP GKT L + + I ++
Sbjct: 13 SDIKKWEIERRKLLPRLIKKLDLR-PFIILILGPRQVGKTTLLKLLIKGLLEEIIYINFD 71
Query: 448 ELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSI 484
+L + ++ +E S IF+DEI ++
Sbjct: 72 DLR--LDRIELLDLLRAYIELKEREKSYIFLDEIQNV 106
>gnl|CDD|222005 pfam13245, AAA_19, Part of AAA domain.
Length = 73
Score = 30.0 bits (68), Expect = 0.52
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 3/34 (8%)
Query: 406 DALGIAQPKG--VLLYGPPGTGKT-LLARAVAHH 436
+A+ A ++ G PGTGKT A +A
Sbjct: 1 EAVEAAASGRSLFVVDGGPGTGKTATAAAIIARL 34
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 32.8 bits (76), Expect = 0.52
Identities = 12/19 (63%), Positives = 16/19 (84%)
Query: 416 VLLYGPPGTGKTLLARAVA 434
+LL GP G+GKTLLA+ +A
Sbjct: 111 ILLIGPTGSGKTLLAQTLA 129
>gnl|CDD|130141 TIGR01069, mutS2, MutS2 family protein. Function of MutS2 is
unknown. It should not be considered a DNA mismatch
repair protein. It is likely a DNA mismatch binding
protein of unknown cellular function [DNA metabolism,
Other].
Length = 771
Score = 32.9 bits (75), Expect = 0.59
Identities = 34/193 (17%), Positives = 70/193 (36%), Gaps = 23/193 (11%)
Query: 237 KMDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLL 296
K +++ I+ + K E L+ ++ E+E+ + L+ + EL + R + E L
Sbjct: 510 KEEINVLIEKLSALEKELEQKNEHLEKLLKEQEKLKKELEQEMEELKERERNKKLE--LE 567
Query: 297 QEQGSYVGEVVKPMDKK------------------KVLVKVHPEGKFVVDIDKNIDINDV 338
+E + + K ++ + LVK+ + + N + +
Sbjct: 568 KEAQEALKALKKEVESIIRELKEKKIHKAKEIKSIEDLVKLKETKQKIPQKPTNFQADKI 627
Query: 339 TPNCRVALRNESYTLHKIL-PNKVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIEL 397
R+ + + +IL NK + V M + KV S E + K+ K
Sbjct: 628 GDKVRIRYFGQKGKIVQILGGNKWNVTVGGMRM-KVHGSELEKINKAPPP-KKFKVPKTT 685
Query: 398 PVKHPELFDALGI 410
+ E L +
Sbjct: 686 KPEPKEASLTLDL 698
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 32.5 bits (75), Expect = 0.70
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 417 LLYGPPGTGKTLLARAVAH 435
L GPPGTGKT A A+A
Sbjct: 42 LFAGPPGTGKTTAALALAR 60
>gnl|CDD|235871 PRK06835, PRK06835, DNA replication protein DnaC; Validated.
Length = 329
Score = 32.2 bits (74), Expect = 0.76
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 4/46 (8%)
Query: 389 KEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVA 434
K +++++E E FD + +L YG GTGKT L+ +A
Sbjct: 163 KNMEKILEKCKNFIENFDK----NNENLLFYGNTGTGKTFLSNCIA 204
>gnl|CDD|238688 cd01394, radB, RadB. The archaeal protein radB shares similarity
radA, the archaeal functional homologue to the bacterial
RecA. The precise function of radB is unclear.
Length = 218
Score = 32.1 bits (73), Expect = 0.77
Identities = 30/119 (25%), Positives = 44/119 (36%), Gaps = 31/119 (26%)
Query: 418 LYGPPGTGKTLLARAVAHHTE-----CTFIRVSG--SELVQKFIG--------------- 455
+YGPPGTGKT +A +A T +I G SE ++ G
Sbjct: 24 VYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTEGLSSERFRQIAGDRPERAASSIIVFEP 83
Query: 456 ----EGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQL 510
E R ++E A E ++ +DS ++ G D + EL QL
Sbjct: 84 MDFNEQGRAIQETETFADEKVDLVV----VDSA-TALYRLELGDDDTTIKNYRELAKQL 137
>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 32.6 bits (75), Expect = 0.77
Identities = 34/105 (32%), Positives = 53/105 (50%), Gaps = 17/105 (16%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQK-FIGEG-SRMVRELFVMAR---E 470
+LL GP G+GKTLLA+ +A F + L + ++GE ++ +L A E
Sbjct: 100 ILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE 159
Query: 471 HAP-SIIFMDEIDSIGS-------SRIESGSGGDSEVQRTMLELL 507
A II++DEID I +R SG G VQ+ +L+++
Sbjct: 160 RAERGIIYIDEIDKIARKSENPSITRDVSGEG----VQQALLKII 200
>gnl|CDD|224644 COG1730, GIM5, Predicted prefoldin, molecular chaperone implicated
in de novo protein folding [Posttranslational
modification, protein turnover, chaperones].
Length = 145
Score = 31.2 bits (71), Expect = 0.79
Identities = 37/158 (23%), Positives = 66/158 (41%), Gaps = 29/158 (18%)
Query: 142 VAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMD-------KKKVLV 194
+A+ +Q L L AQ L +++ L+ ++ L S + ++ ++ K+VLV
Sbjct: 1 MAQTQQELEELAAQLQILQSQIESLQAQIAALNAAISELQTAIETLENLKGAGEGKEVLV 60
Query: 195 KVHPE----GKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGF 250
V K V D+DK I V++ + Y + DEAI+ +
Sbjct: 61 PVGAGLFVKAK-VKDMDKVI----------VSIGSGYYA-------EKSADEAIEFLKKR 102
Query: 251 KPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRM 288
IE+LQ +AE Q + +L+ + +L K
Sbjct: 103 IEELEKAIEKLQQALAELAQRIEQLEQEAQQLQQKQAA 140
>gnl|CDD|225804 COG3265, GntK, Gluconate kinase [Carbohydrate transport and
metabolism].
Length = 161
Score = 31.5 bits (72), Expect = 0.81
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 420 GPPGTGKTLLARAVAHHTECTFI 442
G G+GK+ + A+A FI
Sbjct: 2 GVSGSGKSTVGSALAERLGAKFI 24
>gnl|CDD|223666 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA
replication, recombination, and repair].
Length = 408
Score = 32.3 bits (74), Expect = 0.93
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTE 438
+ +YG G GKT L +A+ +
Sbjct: 116 LFIYGGVGLGKTHLLQAIGNEAL 138
>gnl|CDD|219158 pfam06745, KaiC, KaiC. This family represents a conserved region
within bacterial and archaeal proteins, most of which
are hypothetical. More than one copy is sometimes found
in each protein. This family includes KaiC, which is one
of the Kai proteins among which direct protein-protein
association may be a critical process in the generation
of circadian rhythms in cyanobacteria.
Length = 231
Score = 31.4 bits (72), Expect = 1.1
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 3/29 (10%)
Query: 405 FDAL---GIAQPKGVLLYGPPGTGKTLLA 430
D + GI + + VL+ G PGTGKT+
Sbjct: 8 LDEILKGGIPRGRVVLITGGPGTGKTIFG 36
>gnl|CDD|215651 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family,
nucleotide-binding domain. This family includes the ATP
synthase alpha and beta subunits, the ATP synthase
associated with flagella and the termination factor Rho.
Length = 213
Score = 31.3 bits (72), Expect = 1.1
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 6/49 (12%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVREL 464
+ ++G GTGKT+L +A + + + V IGE R V E
Sbjct: 18 IGIFGGSGTGKTVLLGMIARNAKADVVEVYVL------IGERGREVAEF 60
>gnl|CDD|238977 cd02019, NK, Nucleoside/nucleotide kinase (NK) is a protein
superfamily consisting of multiple families of enzymes
that share structural similarity and are functionally
related to the catalysis of the reversible phosphate
group transfer from nucleoside triphosphates to
nucleosides/nucleotides, nucleoside monophosphates, or
sugars. Members of this family play a wide variety of
essential roles in nucleotide metabolism, the
biosynthesis of coenzymes and aromatic compounds, as
well as the metabolism of sugar and sulfate.
Length = 69
Score = 29.2 bits (66), Expect = 1.1
Identities = 15/65 (23%), Positives = 27/65 (41%), Gaps = 5/65 (7%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGS-RMVRELFVMAREHAPS 474
+ + G G+GK+ +A+ +A S L + I EG + R+ A
Sbjct: 2 IAITGGSGSGKSTVAKKLAE----QLGGRSVVVLDEIVILEGLYASYKSRDARIRDLADL 57
Query: 475 IIFMD 479
I++D
Sbjct: 58 KIYLD 62
>gnl|CDD|224142 COG1221, PspF, Transcriptional regulators containing an AAA-type
ATPase domain and a DNA-binding domain [Transcription /
Signal transduction mechanisms].
Length = 403
Score = 32.0 bits (73), Expect = 1.2
Identities = 19/79 (24%), Positives = 29/79 (36%), Gaps = 13/79 (16%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECT----FIRVSGSELVQK-FIGEGSRMVRELFVMARE 470
VL+ G GTGK L AR + + FI + + + E + F A+
Sbjct: 104 VLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSENLQEAELFGHEKGAFTGAQG 163
Query: 471 HAPSII--------FMDEI 481
+ F+DEI
Sbjct: 164 GKAGLFEQANGGTLFLDEI 182
>gnl|CDD|217817 pfam03961, DUF342, Protein of unknown function (DUF342). This
family of bacterial proteins has no known function. The
proteins are in the region of 500-600 amino acid
residues in length.
Length = 450
Score = 31.8 bits (73), Expect = 1.2
Identities = 19/87 (21%), Positives = 35/87 (40%), Gaps = 5/87 (5%)
Query: 141 IVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEG 200
+ EK + L +L + +L+ ++ L EEL+ L+E+ E + K V ++P
Sbjct: 368 LPPEKREQLEKLLETKEKLSEELEELEEELKELKEE----LESLYSEGKISVNKTIYPGV 423
Query: 201 KFVVDIDKNIDINDVTPNCRVALRNES 227
K + I C L +
Sbjct: 424 KIHIGNKVLR-IKREIGPCTFVLEDGE 449
Score = 31.8 bits (73), Expect = 1.2
Identities = 19/87 (21%), Positives = 35/87 (40%), Gaps = 5/87 (5%)
Query: 264 IVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEG 323
+ EK + L +L + +L+ ++ L EEL+ L+E+ E + K V ++P
Sbjct: 368 LPPEKREQLEKLLETKEKLSEELEELEEELKELKEE----LESLYSEGKISVNKTIYPGV 423
Query: 324 KFVVDIDKNIDINDVTPNCRVALRNES 350
K + I C L +
Sbjct: 424 KIHIGNKVLR-IKREIGPCTFVLEDGE 449
>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 = 30.7 bits (70), Expect = 1.2
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 2/30 (6%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVS 445
+L+ G PG+GK+ AR E + +S
Sbjct: 2 ILMVGLPGSGKSTFAR--RLLRELGAVVLS 29
>gnl|CDD|234203 TIGR03420, DnaA_homol_Hda, DnaA regulatory inactivator Hda.
Members of this protein family are Hda (Homologous to
DnaA). These proteins are about half the length of DnaA
and homologous over length of Hda. In the model species
Escherichia coli, the initiation of DNA replication
requires DnaA bound to ATP rather than ADP; Hda helps
facilitate the conversion of DnaA-ATP to DnaA-ADP [DNA
metabolism, DNA replication, recombination, and repair].
Length = 226
Score = 31.4 bits (72), Expect = 1.2
Identities = 22/96 (22%), Positives = 40/96 (41%), Gaps = 22/96 (22%)
Query: 418 LYGPPGTGKTLLARAVAHHTE---CTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPS 474
L+G G+GK+ L +A E + I + +EL Q E+ E A
Sbjct: 43 LWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQ--------ADPEVL-EGLEQAD- 92
Query: 475 IIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQL 510
++ +D++++I G E Q + L N++
Sbjct: 93 LVCLDDVEAI---------AGQPEWQEALFHLYNRV 119
>gnl|CDD|238260 cd00464, SK, Shikimate kinase (SK) is the fifth enzyme in the
shikimate pathway, a seven-step biosynthetic pathway
which converts erythrose-4-phosphate to chorismic acid,
found in bacteria, fungi and plants. Chorismic acid is a
important intermediate in the synthesis of aromatic
compounds, such as aromatic amino acids, p-aminobenzoic
acid, folate and ubiquinone. Shikimate kinase catalyses
the phosphorylation of the 3-hydroxyl group of shikimic
acid using ATP.
Length = 154
Score = 30.6 bits (70), Expect = 1.3
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 418 LYGPPGTGKTLLARAVAHHTECTFI 442
L G G GKT + R +A F+
Sbjct: 4 LIGMMGAGKTTVGRLLAKALGLPFV 28
>gnl|CDD|215599 PLN03140, PLN03140, ABC transporter G family member; Provisional.
Length = 1470
Score = 32.1 bits (73), Expect = 1.3
Identities = 17/32 (53%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 404 LFDALGIAQP-KGVLLYGPPGTGKTLLARAVA 434
L DA GI +P + LL GPP +GKT L A+A
Sbjct: 181 LKDASGIIKPSRMTLLLGPPSSGKTTLLLALA 212
>gnl|CDD|220368 pfam09730, BicD, Microtubule-associated protein Bicaudal-D. BicD
proteins consist of three coiled-coiled domains and are
involved in dynein-mediated minus end-directed transport
from the Golgi apparatus to the endoplasmic reticulum
(ER). For full functioning they bind with GSK-3beta
pfam05350 to maintain the anchoring of microtubules to
the centromere. It appears that amino-acid residues
437-617 of BicD and the kinase activity of GSK-3 are
necessary for the formation of a complex between BicD
and GSK-3beta in intact cells.
Length = 711
Score = 32.1 bits (73), Expect = 1.3
Identities = 15/47 (31%), Positives = 28/47 (59%)
Query: 130 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
YY+ +I ELQ + + L +QA+ L++ + L+EE ++L+ Q
Sbjct: 31 YYLQRILELQAELKQLRAELSNVQAENERLSSLSQELKEENEMLELQ 77
Score = 32.1 bits (73), Expect = 1.3
Identities = 15/47 (31%), Positives = 28/47 (59%)
Query: 253 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
YY+ +I ELQ + + L +QA+ L++ + L+EE ++L+ Q
Sbjct: 31 YYLQRILELQAELKQLRAELSNVQAENERLSSLSQELKEENEMLELQ 77
>gnl|CDD|233418 TIGR01448, recD_rel, helicase, putative, RecD/TraA family. This
model describes a family similar to RecD, the
exodeoxyribonuclease V alpha chain of TIGR01447. Members
of this family, however, are not found in a context of
RecB and RecC and are longer by about 200 amino acids at
the amino end. Chlamydia muridarum has both a member of
this family and a RecD [Unknown function, Enzymes of
unknown specificity].
Length = 720
Score = 32.1 bits (73), Expect = 1.3
Identities = 20/58 (34%), Positives = 26/58 (44%), Gaps = 7/58 (12%)
Query: 386 NQIKEIKEV-----IELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTE 438
N + I EV L + + D Q K V+L G PGTGKT + RA+ E
Sbjct: 308 NDQEHIWEVEKKLRKGLSEEQKQALDT--AIQHKVVILTGGPGTGKTTITRAIIELAE 363
>gnl|CDD|183088 PRK11331, PRK11331, 5-methylcytosine-specific restriction enzyme
subunit McrB; Provisional.
Length = 459
Score = 31.6 bits (71), Expect = 1.4
Identities = 12/22 (54%), Positives = 17/22 (77%)
Query: 414 KGVLLYGPPGTGKTLLARAVAH 435
K ++L GPPG GKT +AR +A+
Sbjct: 195 KNIILQGPPGVGKTFVARRLAY 216
>gnl|CDD|233120 TIGR00764, lon_rel, lon-related putative ATP-dependent protease.
This model represents a set of proteins with extensive
C-terminal homology to the ATP-dependent protease La,
product of the lon gene of E. coli. The model is based
on a seed alignment containing only archaeal members,
but several bacterial proteins match the model well.
Because several species, including Thermotoga maritima
and Treponema pallidum, contain both a close homolog of
the lon protease and nearly full-length homolog of the
members of this family, we suggest there may also be a
functional division between the two families. Members of
this family from Pyrococcus horikoshii and Pyrococcus
abyssi each contain a predicted intein [Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 608
Score = 31.7 bits (72), Expect = 1.5
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 15/62 (24%)
Query: 373 VPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARA 432
VP+ + V G + ++ IK+ + Q + VLL G PG GK++LA+A
Sbjct: 12 VPERLIDQVIGQEEAVEIIKKAAK---------------QKRNVLLIGEPGVGKSMLAKA 56
Query: 433 VA 434
+A
Sbjct: 57 MA 58
>gnl|CDD|224141 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 444
Score = 31.5 bits (72), Expect = 1.6
Identities = 15/32 (46%), Positives = 20/32 (62%)
Query: 413 PKGVLLYGPPGTGKTLLARAVAHHTECTFIRV 444
PK +L+ GP G GKT +AR +A FI+V
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLAGAPFIKV 81
Score = 30.3 bits (69), Expect = 4.1
Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 3/35 (8%)
Query: 475 IIFMDEIDSIGSSRIESGSGGDSE--VQRTMLELL 507
I+F+DEID I + R SG S VQR +L L+
Sbjct: 253 IVFIDEIDKI-AKRGGSGGPDVSREGVQRDLLPLV 286
>gnl|CDD|225713 COG3172, NadR, Predicted ATPase/kinase involved in NAD metabolism
[Coenzyme metabolism].
Length = 187
Score = 30.9 bits (70), Expect = 1.6
Identities = 16/77 (20%), Positives = 28/77 (36%), Gaps = 11/77 (14%)
Query: 414 KGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGS--------RMVRELF 465
K V + G +GK+ L +A+ T G E V + +G ++
Sbjct: 9 KTVAILGGESSGKSTLVNKLANIFNTTSAWEYGREYVFEHLGGDEALQYSDYAKIALGQA 68
Query: 466 V---MAREHAPSIIFMD 479
A +A + F+D
Sbjct: 69 AYEDAAVRYANKVAFID 85
>gnl|CDD|99738 cd00614, CGS_like, CGS_like: Cystathionine gamma-synthase is a PLP
dependent enzyme and catalyzes the committed step of
methionine biosynthesis. This pathway is unique to
microorganisms and plants, rendering the enzyme an
attractive target for the development of antimicrobials
and herbicides. This subgroup also includes
cystathionine gamma-lyases (CGL), O-acetylhomoserine
sulfhydrylases and O-acetylhomoserine thiol lyases.
CGL's are very similar to CGS's. Members of this group
are widely distributed among all three forms of life.
Length = 369
Score = 31.4 bits (72), Expect = 1.6
Identities = 20/59 (33%), Positives = 26/59 (44%), Gaps = 9/59 (15%)
Query: 576 FPPPNEEARLDILR----IHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYAL 630
FP P E A L LR I+SR N T +K+A L G + +GM A+
Sbjct: 15 FPSPAEAADLFALREGGYIYSRIGNPTVDALEKKLAALEGG-----EAALAFSSGMAAI 68
>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed.
Length = 337
Score = 31.1 bits (71), Expect = 1.6
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 417 LLYGPPGTGKTLLARAVAH 435
L+ GPPG+GKT RA+A
Sbjct: 40 LVQGPPGSGKTAAVRALAR 58
>gnl|CDD|235244 PRK04182, PRK04182, cytidylate kinase; Provisional.
Length = 180
Score = 30.5 bits (70), Expect = 1.7
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 420 GPPGTGKTLLARAVAHHTECTFI 442
GPPG+GKT +AR +A +
Sbjct: 7 GPPGSGKTTVARLLAEKLGLKHV 29
>gnl|CDD|233973 TIGR02680, TIGR02680, TIGR02680 family protein. Members of this
protein family belong to a conserved gene four-gene
neighborhood found sporadically in a phylogenetically
broad range of bacteria: Nocardia farcinica,
Symbiobacterium thermophilum, and Streptomyces
avermitilis (Actinobacteria), Geobacillus kaustophilus
(Firmicutes), Azoarcus sp. EbN1 and Ralstonia
solanacearum (Betaproteobacteria). Proteins in this
family average over 1400 amino acids in length
[Hypothetical proteins, Conserved].
Length = 1353
Score = 31.3 bits (71), Expect = 1.9
Identities = 12/38 (31%), Positives = 18/38 (47%)
Query: 134 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQ 171
+I EL +A + L L + L A+ R L +EL
Sbjct: 743 RIAELDARLAAVDDELAELARELRALGARQRALADELA 780
Score = 31.3 bits (71), Expect = 1.9
Identities = 12/38 (31%), Positives = 18/38 (47%)
Query: 257 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQ 294
+I EL +A + L L + L A+ R L +EL
Sbjct: 743 RIAELDARLAAVDDELAELARELRALGARQRALADELA 780
>gnl|CDD|216531 pfam01496, V_ATPase_I, V-type ATPase 116kDa subunit family. This
family consists of the 116kDa V-type ATPase (vacuolar
(H+)-ATPases) subunits, as well as V-type ATP synthase
subunit i. The V-type ATPases family are proton pumps
that acidify intracellular compartments in eukaryotic
cells for example yeast central vacuoles,
clathrin-coated and synaptic vesicles. They have
important roles in membrane trafficking processes. The
116kDa subunit (subunit a) in the V-type ATPase is part
of the V0 functional domain responsible for proton
transport. The a subunit is a transmembrane glycoprotein
with multiple putative transmembrane helices it has a
hydrophilic amino terminal and a hydrophobic carboxy
terminal. It has roles in proton transport and assembly
of the V-type ATPase complex. This subunit is encoded by
two homologous gene in yeast VPH1 and STV1.
Length = 707
Score = 31.2 bits (71), Expect = 1.9
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 134 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGS 178
+I +L+ + E E+NL L+ + NEL + +L EE L E
Sbjct: 75 EILDLEAEIKEVEENLESLEKEINELEEWLNVLDEEKSFLDENLE 119
Score = 31.2 bits (71), Expect = 1.9
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 257 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGS 301
+I +L+ + E E+NL L+ + NEL + +L EE L E
Sbjct: 75 EILDLEAEIKEVEENLESLEKEINELEEWLNVLDEEKSFLDENLE 119
>gnl|CDD|184098 PRK13507, PRK13507, formate--tetrahydrofolate ligase; Provisional.
Length = 587
Score = 31.2 bits (71), Expect = 2.0
Identities = 25/71 (35%), Positives = 36/71 (50%), Gaps = 18/71 (25%)
Query: 154 AQRNELNAK-VRMLREELQLLQEQ----GSYVGEVVKPMDKKKVL--VKVHPEGKFVVDI 206
A+ E K V L EEL L +E+ G Y+ +V D +KVL +K P+GK+
Sbjct: 14 AEEAEKFMKPVEELAEELGLTKEELLPYGHYIAKV----DFRKVLDRLKDRPDGKY---- 65
Query: 207 DKNIDINDVTP 217
ID+ +TP
Sbjct: 66 ---IDVTAITP 73
Score = 31.2 bits (71), Expect = 2.0
Identities = 25/71 (35%), Positives = 36/71 (50%), Gaps = 18/71 (25%)
Query: 277 AQRNELNAK-VRMLREELQLLQEQ----GSYVGEVVKPMDKKKVL--VKVHPEGKFVVDI 329
A+ E K V L EEL L +E+ G Y+ +V D +KVL +K P+GK+
Sbjct: 14 AEEAEKFMKPVEELAEELGLTKEELLPYGHYIAKV----DFRKVLDRLKDRPDGKY---- 65
Query: 330 DKNIDINDVTP 340
ID+ +TP
Sbjct: 66 ---IDVTAITP 73
>gnl|CDD|234232 TIGR03499, FlhF, flagellar biosynthetic protein FlhF. [Cellular
processes, Chemotaxis and motility].
Length = 283
Score = 30.8 bits (70), Expect = 2.2
Identities = 22/83 (26%), Positives = 38/83 (45%), Gaps = 15/83 (18%)
Query: 361 VDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIE--LPVKHPELFDALGIAQPKGVLL 418
V ++ ++EK+P+ ++ + ++E +E LPVK + + + + L
Sbjct: 149 VSEELARELLEKLPEDL-----DAEDAWRWLREALEGMLPVK---PEEDPILERGGVIAL 200
Query: 419 YGPPGTGKT-----LLARAVAHH 436
GP G GKT L AR V H
Sbjct: 201 VGPTGVGKTTTLAKLAARFVLEH 223
>gnl|CDD|221118 pfam11461, RILP, Rab interacting lysosomal protein. RILP contains
a domain which contains two coiled-coil regions and is
found mainly in the cytosol. RILP is recruited onto late
endosomal and lysosomal membranes by Rab7 and acts as a
downstream effector of Rab7. This recruitment process is
important for phagosome maturation and fusion with late
endosomes and lysosomes.
Length = 60
Score = 28.1 bits (63), Expect = 2.3
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 147 QNLRRLQAQRNELNAKVRMLREELQLLQ 174
Q LR + +RNEL AKV +L+EEL +
Sbjct: 3 QELREVLQERNELKAKVFLLQEELAYYK 30
Score = 28.1 bits (63), Expect = 2.3
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 270 QNLRRLQAQRNELNAKVRMLREELQLLQ 297
Q LR + +RNEL AKV +L+EEL +
Sbjct: 3 QELREVLQERNELKAKVFLLQEELAYYK 30
>gnl|CDD|190347 pfam02562, PhoH, PhoH-like protein. PhoH is a cytoplasmic protein
and predicted ATPase that is induced by phosphate
starvation.
Length = 205
Score = 30.5 bits (70), Expect = 2.3
Identities = 12/19 (63%), Positives = 12/19 (63%)
Query: 416 VLLYGPPGTGKTLLARAVA 434
V GP GTGKT LA A A
Sbjct: 22 VFGIGPAGTGKTYLAVAAA 40
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 31.1 bits (70), Expect = 2.4
Identities = 17/35 (48%), Positives = 21/35 (60%)
Query: 414 KGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSE 448
K +LL G PG GKT L A+A T IR++ SE
Sbjct: 1544 KPILLEGSPGVGKTSLITALARKTGKKLIRINLSE 1578
>gnl|CDD|237622 PRK14140, PRK14140, heat shock protein GrpE; Provisional.
Length = 191
Score = 30.4 bits (69), Expect = 2.4
Identities = 17/69 (24%), Positives = 28/69 (40%), Gaps = 7/69 (10%)
Query: 86 RKENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEK 145
+ E E+ E E V++ E + + E + + KI EL+ + E
Sbjct: 4 KNEQVEEEVEETEVEEAVEDEVEEETVEEESEAELLDEEQ-------AKIAELEAKLDEL 56
Query: 146 EQNLRRLQA 154
E+ RLQA
Sbjct: 57 EERYLRLQA 65
>gnl|CDD|225471 COG2919, COG2919, Septum formation initiator [Cell division and
chromosome partitioning].
Length = 117
Score = 29.2 bits (66), Expect = 2.5
Identities = 12/49 (24%), Positives = 26/49 (53%)
Query: 138 LQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKP 186
LQ +A ++ L +L A+ L A+++ L++ ++E+ + KP
Sbjct: 55 LQRQIAAQQAELEKLSARNTALEAEIKDLKDGRDYIEERARSELGMSKP 103
Score = 29.2 bits (66), Expect = 2.5
Identities = 12/49 (24%), Positives = 26/49 (53%)
Query: 261 LQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKP 309
LQ +A ++ L +L A+ L A+++ L++ ++E+ + KP
Sbjct: 55 LQRQIAAQQAELEKLSARNTALEAEIKDLKDGRDYIEERARSELGMSKP 103
>gnl|CDD|180607 PRK06526, PRK06526, transposase; Provisional.
Length = 254
Score = 30.6 bits (69), Expect = 2.5
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 410 IAQPKGVLLYGPPGTGKTLLARAVA 434
+ + V+ GPPGTGKT LA +
Sbjct: 95 VTGKENVVFLGPPGTGKTHLAIGLG 119
>gnl|CDD|220642 pfam10236, DAP3, Mitochondrial ribosomal death-associated protein
3. This is a family of conserved proteins which were
originally described as death-associated-protein-3
(DAP-3). The proteins carry a P-loop DNA-binding motif,
and induce apoptosis. DAP3 has been shown to be a
pro-apoptotic factor in the mitochondrial matrix and to
be crucial for mitochondrial biogenesis and so has also
been designated as MRP-S29 (mitochondrial ribosomal
protein subunit 29).
Length = 274
Score = 30.7 bits (70), Expect = 2.5
Identities = 11/31 (35%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 406 DALGIAQPKGVLLYGPPGTGKT-LLARAVAH 435
+A + +L G G+GK+ LLA+A+A+
Sbjct: 16 EADASKKVVRFVLTGERGSGKSVLLAQAMAY 46
>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional.
Length = 319
Score = 30.5 bits (69), Expect = 2.7
Identities = 29/98 (29%), Positives = 44/98 (44%), Gaps = 21/98 (21%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSR---MVR---ELFVMAR 469
++L GPPGTGKT A+AH + + E V + R +VR ++F +
Sbjct: 37 LILSGPPGTGKTTSILALAH----ELLGPNYKEAVLELNASDDRGIDVVRNKIKMFAQKK 92
Query: 470 EHAPS----IIFMDEIDSIGSSRIESGSGGDSEVQRTM 503
P I+ +DE DS+ SG ++RTM
Sbjct: 93 VTLPPGRHKIVILDEADSM-------TSGAQQALRRTM 123
>gnl|CDD|223873 COG0802, COG0802, Predicted ATPase or kinase [General function
prediction only].
Length = 149
Score = 29.5 bits (67), Expect = 2.7
Identities = 15/36 (41%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 403 ELFDALGIAQPKG--VLLYGPPGTGKTLLARAVAHH 436
L + L A G VLL G G GKT L R +A
Sbjct: 13 ALGERLAEALKAGDVVLLSGDLGAGKTTLVRGIAKG 48
>gnl|CDD|182120 PRK09862, PRK09862, putative ATP-dependent protease; Provisional.
Length = 506
Score = 30.7 bits (69), Expect = 2.7
Identities = 12/15 (80%), Positives = 14/15 (93%)
Query: 416 VLLYGPPGTGKTLLA 430
+LL GPPGTGKT+LA
Sbjct: 213 LLLIGPPGTGKTMLA 227
>gnl|CDD|131688 TIGR02640, gas_vesic_GvpN, gas vesicle protein GvpN. Members of
this family are the GvpN protein associated with the
production of gas vesicles produced in some prokaryotes
to give cells buoyancy. This family belongs to a larger
family of ATPases (pfam07728) [Cellular processes,
Other].
Length = 262
Score = 30.5 bits (69), Expect = 2.8
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 6/57 (10%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSG------SELVQKFIGEGSRMVRELFV 466
V L GP GTGKT LA VA + + ++G S+LV + G + V + F+
Sbjct: 24 VHLRGPAGTGKTTLAMHVARKRDRPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFI 80
>gnl|CDD|238544 cd01124, KaiC, KaiC is a circadian clock protein primarily found in
cyanobacteria KaiC is a RecA-like ATPase, having both
Walker A and Walker B motifs. A related protein is found
in archaea.
Length = 187
Score = 30.0 bits (68), Expect = 2.8
Identities = 10/15 (66%), Positives = 10/15 (66%)
Query: 416 VLLYGPPGTGKTLLA 430
LL G PGTGKT A
Sbjct: 2 TLLSGGPGTGKTTFA 16
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 30.6 bits (70), Expect = 3.0
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 415 GVLLYGPPGTGKTLLARAVA 434
G+L+ G PG GK+ A+A+A
Sbjct: 259 GILIAGAPGAGKSTFAQALA 278
>gnl|CDD|153280 cd07596, BAR_SNX, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting
Nexins. BAR domains are dimerization, lipid binding and
curvature sensing modules found in many different
proteins with diverse functions. Sorting nexins (SNXs)
are Phox homology (PX) domain containing proteins that
are involved in regulating membrane traffic and protein
sorting in the endosomal system. SNXs differ from each
other in their lipid-binding specificity, subcellular
localization and specific function in the endocytic
pathway. A subset of SNXs also contain BAR domains. The
PX-BAR structural unit determines the specific membrane
targeting of SNXs. BAR domains form dimers that bind to
membranes, induce membrane bending and curvature, and
may also be involved in protein-protein interactions.
Length = 218
Score = 30.0 bits (68), Expect = 3.1
Identities = 12/35 (34%), Positives = 18/35 (51%)
Query: 142 VAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
+A K+ L +L+A AKV L EEL+ +
Sbjct: 126 LASKKAQLEKLKAAPGIKPAKVEELEEELEEAESA 160
Score = 30.0 bits (68), Expect = 3.1
Identities = 12/35 (34%), Positives = 18/35 (51%)
Query: 265 VAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
+A K+ L +L+A AKV L EEL+ +
Sbjct: 126 LASKKAQLEKLKAAPGIKPAKVEELEEELEEAESA 160
>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit
clpA. [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 730
Score = 30.8 bits (70), Expect = 3.2
Identities = 18/49 (36%), Positives = 22/49 (44%), Gaps = 6/49 (12%)
Query: 413 PKGVLL-YGPPGTGKTLLARAVAHHTECTFIRVSGSEL-----VQKFIG 455
P G L GP G GKT LA+ +A +R SE V + IG
Sbjct: 482 PVGSFLFVGPTGVGKTELAKQLAEELGVHLLRFDMSEYMEKHTVSRLIG 530
>gnl|CDD|238327 cd00584, Prefoldin_alpha, Prefoldin alpha subunit; Prefoldin is a
hexameric molecular chaperone complex, found in both
eukaryotes and archaea, that binds and stabilizes newly
synthesized polypeptides allowing them to fold
correctly. The complex contains two alpha and four beta
subunits, the two subunits being evolutionarily related.
In archaea, there is usually only one gene for each
subunit while in eukaryotes there two or more paralogous
genes encoding each subunit adding heterogeneity to the
structure of the hexamer. The structure of the complex
consists of a double beta barrel assembly with six
protruding coiled-coils.
Length = 129
Score = 29.1 bits (66), Expect = 3.3
Identities = 36/158 (22%), Positives = 62/158 (39%), Gaps = 48/158 (30%)
Query: 149 LRRLQAQRNELNAKVRMLREELQLLQEQ-GSY------VGEVVKPMDKKKVLV------- 194
L +L AQ L ++ L++EL L E Y + + K + K+ LV
Sbjct: 1 LEQLAAQLQVLQQEIEELQQELARLNEAIAEYEQAKETLETLKKADEGKETLVPLGAGVF 60
Query: 195 ---KVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFK 251
KV K +VD+ + + D++EAI+
Sbjct: 61 VKAKVKDTDKVLVDLGTGYYV------------------------EKDLEEAIE------ 90
Query: 252 PYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRML 289
+ KIEEL + + ++ L +L+ Q N L A+++ L
Sbjct: 91 -FLDKKIEELTKQIEKLQKELAKLKDQINTLEAELQEL 127
>gnl|CDD|218685 pfam05673, DUF815, Protein of unknown function (DUF815). This
family consists of several bacterial proteins of unknown
function.
Length = 248
Score = 29.8 bits (68), Expect = 3.8
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 416 VLLYGPPGTGKTLLARAVAHH 436
VLL+G GTGK+ L +A+ +
Sbjct: 56 VLLWGARGTGKSSLVKALLNE 76
>gnl|CDD|223718 COG0645, COG0645, Predicted kinase [General function prediction
only].
Length = 170
Score = 29.3 bits (66), Expect = 3.8
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 413 PKGVLLYGPPGTGKTLLARAVA 434
+ VL+ G PG+GK+ LAR +A
Sbjct: 1 GRLVLVGGLPGSGKSTLARGLA 22
>gnl|CDD|218719 pfam05729, NACHT, NACHT domain. This NTPase domain is found in
apoptosis proteins as well as those involved in MHC
transcription activation. This family is closely related
to pfam00931.
Length = 165
Score = 29.2 bits (66), Expect = 4.1
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 416 VLLYGPPGTGKTLLARAVAH 435
V+L G G+GKT L + +A
Sbjct: 3 VILQGEAGSGKTTLLQKIAL 22
>gnl|CDD|221912 pfam13086, AAA_11, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins.
Length = 220
Score = 29.6 bits (67), Expect = 4.2
Identities = 9/12 (75%), Positives = 10/12 (83%)
Query: 416 VLLYGPPGTGKT 427
L+ GPPGTGKT
Sbjct: 20 TLIQGPPGTGKT 31
>gnl|CDD|238556 cd01136, ATPase_flagellum-secretory_path_III, Flagellum-specific
ATPase/type III secretory pathway virulence-related
protein. This group of ATPases are responsible for the
export of flagellum and virulence-related proteins. The
bacterial flagellar motor is similar to the F0F1-ATPase,
in that they both are proton driven rotary molecular
devices. However, the main function of the bacterial
flagellar motor is to rotate the flagellar filament for
cell motility. Intracellular pathogens such as
Salmonella and Chlamydia also have proteins which are
similar to the flagellar-specific ATPase, but function
in the secretion of virulence-related proteins via the
type III secretory pathway.
Length = 326
Score = 29.9 bits (68), Expect = 4.4
Identities = 21/73 (28%), Positives = 29/73 (39%), Gaps = 9/73 (12%)
Query: 391 IKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELV 450
I EV+ V+ + +G Q G ++ G GK+ L +A T V
Sbjct: 49 IDEVLPTGVRAIDGLLTVGKGQRLG--IFAGSGVGKSTLLGMIARGTTADVN-------V 99
Query: 451 QKFIGEGSRMVRE 463
IGE R VRE
Sbjct: 100 IALIGERGREVRE 112
>gnl|CDD|221776 pfam12795, MscS_porin, Mechanosensitive ion channel porin domain.
The small mechanosensitive channel, MscS, is a part of
the turgor-driven solute efflux system that protects
bacteria from lysis in the event of osmotic shock. The
MscS protein alone is sufficient to form a functional
mechanosensitive channel gated directly by tension in
the lipid bilayer. The MscS proteins are heptamers of
three transmembrane subunits with seven converging M3
domains, and this MscS_porin is towards the N-terminal
of the molecules. The high concentration of negative
charges at the extracellular entrance of the pore helps
select the cations for efflux.
Length = 239
Score = 29.5 bits (67), Expect = 4.4
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 137 ELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
EL+L+ Q L L+ QR+ L ++ L ELQ LQ
Sbjct: 169 ELELLSNNNRQEL--LRLQRDLLKKRIERLEAELQALQNA 206
Score = 29.5 bits (67), Expect = 4.4
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 260 ELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
EL+L+ Q L L+ QR+ L ++ L ELQ LQ
Sbjct: 169 ELELLSNNNRQEL--LRLQRDLLKKRIERLEAELQALQNA 206
>gnl|CDD|218422 pfam05088, Bac_GDH, Bacterial NAD-glutamate dehydrogenase. This
family consists of several bacterial proteins which are
closely related to NAD-glutamate dehydrogenase found in
Streptomyces clavuligerus. Glutamate dehydrogenases
(GDHs) are a broadly distributed group of enzymes that
catalyze the reversible oxidative deamination of
glutamate to ketoglutarate and ammonia.
Length = 1526
Score = 30.2 bits (69), Expect = 4.7
Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 4/32 (12%)
Query: 568 GRIDRKIEFPPPNEEARLDILRIHSRKMNLTR 599
GR+DR +EF P +EE + + LTR
Sbjct: 1167 GRLDRALEFLPSDEE----LAERAAAGQGLTR 1194
>gnl|CDD|233918 TIGR02546, III_secr_ATP, type III secretion apparatus
H+-transporting two-sector ATPase. [Protein fate,
Protein and peptide secretion and trafficking, Cellular
processes, Pathogenesis].
Length = 422
Score = 30.0 bits (68), Expect = 4.8
Identities = 16/56 (28%), Positives = 20/56 (35%), Gaps = 9/56 (16%)
Query: 408 LGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRE 463
G Q G+ + G GK+ L +A V IGE R VRE
Sbjct: 142 CGEGQRIGI--FAGAGVGKSTLLGMIARGASADVN-------VIALIGERGREVRE 188
>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases. This family includes
the NTP binding domain of F1 and V1 H+ATPases, DnaB and
related helicases as well as bacterial RecA and related
eukaryotic and archaeal recombinases. This group also
includes bacterial conjugation proteins and related DNA
transfer proteins involved in type II and type IV
secretion.
Length = 165
Score = 29.0 bits (65), Expect = 4.8
Identities = 24/120 (20%), Positives = 44/120 (36%), Gaps = 27/120 (22%)
Query: 416 VLLYGPPGTGKTLLARAVA----------------HHTECTFIRVSGSE---------LV 450
+L++GP G+GKT LA +A E R+ G +V
Sbjct: 2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIV 61
Query: 451 QKFIGEG--SRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLN 508
+ +R++ + + +I +DE+ + + E G E+ + ELL
Sbjct: 62 FATADDPAAARLLSKAERLRERGGDDLIILDELTRLVRALREIREGYPGELDEELRELLE 121
>gnl|CDD|224768 COG1855, COG1855, ATPase (PilT family) [General function prediction
only].
Length = 604
Score = 30.0 bits (68), Expect = 5.0
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 414 KGVLLYGPPGTGKTLLARAVA 434
+G+L+ G PG GK+ A+A+A
Sbjct: 264 EGILIAGAPGAGKSTFAQALA 284
>gnl|CDD|232941 TIGR00362, DnaA, chromosomal replication initiator protein DnaA.
DnaA is involved in DNA biosynthesis; initiation of
chromosome replication and can also be transcription
regulator. The C-terminal of the family hits the pfam
bacterial DnaA (bac_dnaA) domain family. For a review,
see Kaguni (2006) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 405
Score = 29.8 bits (68), Expect = 5.1
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 416 VLLYGPPGTGKTLLARAVAHH 436
+ +YG G GKT L A+ +
Sbjct: 139 LFIYGGVGLGKTHLLHAIGNE 159
>gnl|CDD|236353 PRK08939, PRK08939, primosomal protein DnaI; Reviewed.
Length = 306
Score = 29.5 bits (67), Expect = 5.6
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 414 KGVLLYGPPGTGKTLLARAVAH 435
KG+ LYG G GK+ L A+A+
Sbjct: 157 KGLYLYGDFGVGKSYLLAAIAN 178
>gnl|CDD|177172 MTH00110, ND4, NADH dehydrogenase subunit 4; Provisional.
Length = 459
Score = 29.9 bits (68), Expect = 5.6
Identities = 12/22 (54%), Positives = 14/22 (63%), Gaps = 2/22 (9%)
Query: 589 RIHSRKMNLTRGINLRKIAELM 610
RIHSR M L RG L+ + LM
Sbjct: 336 RIHSRTMILARG--LQTLLPLM 355
>gnl|CDD|224027 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 28.8 bits (65), Expect = 5.7
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 420 GPPGTGKTLLARAVAHHTECTFI 442
G PG+GKT +AR +A H +
Sbjct: 7 GLPGSGKTTVARELAEHLGLKLV 29
>gnl|CDD|238978 cd02020, CMPK, Cytidine monophosphate kinase (CMPK) catalyzes the
reversible phosphorylation of cytidine monophosphate
(CMP) to produce cytidine diphosphate (CDP), using ATP
as the preferred phosphoryl donor.
Length = 147
Score = 28.6 bits (65), Expect = 5.8
Identities = 7/23 (30%), Positives = 14/23 (60%)
Query: 420 GPPGTGKTLLARAVAHHTECTFI 442
GP G+GK+ +A+ +A ++
Sbjct: 6 GPAGSGKSTVAKLLAKKLGLPYL 28
>gnl|CDD|225114 COG2204, AtoC, Response regulator containing CheY-like receiver,
AAA-type ATPase, and DNA-binding domains [Signal
transduction mechanisms].
Length = 464
Score = 29.6 bits (67), Expect = 5.9
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 416 VLLYGPPGTGKTLLARAV 433
VL+ G GTGK L+ARA+
Sbjct: 167 VLITGESGTGKELVARAI 184
>gnl|CDD|224402 COG1485, COG1485, Predicted ATPase [General function prediction
only].
Length = 367
Score = 29.6 bits (67), Expect = 6.0
Identities = 11/40 (27%), Positives = 17/40 (42%), Gaps = 2/40 (5%)
Query: 392 KEVIELPVKHPELFDALGIAQ--PKGVLLYGPPGTGKTLL 429
E++ L G +G+ L+G G GKT+L
Sbjct: 42 DELVAPRSARKALGWLFGRDHGPVRGLYLWGGVGRGKTML 81
>gnl|CDD|233448 TIGR01526, nadR_NMN_Atrans, nicotinamide-nucleotide
adenylyltransferase, NadR type. The NadR protein of E.
coli and closely related bacteria is both enzyme and
regulatory protein. The first 60 or so amino acids,
N-terminal to the region covered by this model, is a
DNA-binding helix-turn-helix domain (pfam01381)
responsible for repressing the nadAB genes of NAD de
novo biosynthesis. The NadR homologs in Mycobacterium
tuberculosis, Haemophilus influenzae, and others appear
to lack the repressor domain. NadR has recently been
shown to act as an enzyme of the salvage pathway of NAD
biosynthesis, nicotinamide-nucleotide
adenylyltransferase; members of this family are presumed
to share this activity. E. coli NadR has also been found
to regulate the import of its substrate, nicotinamide
ribonucleotide, but it is not known if the other members
of this model share that activity.
Length = 325
Score = 29.4 bits (66), Expect = 6.1
Identities = 14/63 (22%), Positives = 23/63 (36%), Gaps = 1/63 (1%)
Query: 414 KGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMV-RELFVMAREHA 472
K V + G TGK+ L +A T E V++ +G + + +A
Sbjct: 163 KTVAILGGESTGKSTLVNKLAAVFNTTSAWEYAREYVEEKLGGDEALQYSDYAQIALGQQ 222
Query: 473 PSI 475
I
Sbjct: 223 RYI 225
>gnl|CDD|214361 CHL00095, clpC, Clp protease ATP binding subunit.
Length = 821
Score = 29.6 bits (67), Expect = 6.2
Identities = 19/47 (40%), Positives = 24/47 (51%), Gaps = 8/47 (17%)
Query: 417 LLYGPPGTGKTLLARAVAHH---TECTFIRVSGSEL-----VQKFIG 455
L GP G GKT L +A+A + +E IR+ SE V K IG
Sbjct: 543 LFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHTVSKLIG 589
>gnl|CDD|213965 TIGR04352, HprK_rel_A, HprK-related kinase A. A number of protein
families resemble HPr kinase (see TIGR00679) but do not
belong to that system. They include this family, which
appears instead to be the marker for a different type of
gene neighborhood, in which one of the conserved
neighboring proteins resembles (but is distinct from)
PqqD.
Length = 280
Score = 29.2 bits (66), Expect = 6.3
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 414 KGVLLYGPPGTGKTLLARAVAHH 436
+ ++L PPG+GK+ L A+A
Sbjct: 109 RALILPAPPGSGKSTLCAALALR 131
>gnl|CDD|236134 PRK07940, PRK07940, DNA polymerase III subunit delta'; Validated.
Length = 394
Score = 29.5 bits (67), Expect = 6.4
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 417 LLYGPPGTGKTLLARAVAHHTECTFIRVSG 446
L GPPG+G+++ ARA A +CT G
Sbjct: 40 LFTGPPGSGRSVAARAFAAALQCTDPDEPG 69
>gnl|CDD|102061 PRK05922, PRK05922, type III secretion system ATPase; Validated.
Length = 434
Score = 29.5 bits (66), Expect = 6.4
Identities = 24/73 (32%), Positives = 34/73 (46%), Gaps = 9/73 (12%)
Query: 391 IKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELV 450
I+E+ +K + F LG Q GV + PG+GK+ L +A ++ T V
Sbjct: 137 IQEIFPTGIKAIDAFLTLGKGQRIGV--FSEPGSGKSSLLSTIAKGSKSTIN-------V 187
Query: 451 QKFIGEGSRMVRE 463
IGE R VRE
Sbjct: 188 IALIGERGREVRE 200
>gnl|CDD|136670 PRK08181, PRK08181, transposase; Validated.
Length = 269
Score = 29.1 bits (65), Expect = 6.5
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 410 IAQPKGVLLYGPPGTGKTLLARAV 433
+A+ +LL+GPPG GK+ LA A+
Sbjct: 103 LAKGANLLLFGPPGGGKSHLAAAI 126
>gnl|CDD|235364 PRK05201, hslU, ATP-dependent protease ATP-binding subunit HslU;
Provisional.
Length = 443
Score = 29.3 bits (67), Expect = 6.6
Identities = 15/33 (45%), Positives = 19/33 (57%), Gaps = 5/33 (15%)
Query: 475 IIFMDEIDSIGSSRIESGSGGD-SE--VQRTML 504
I+F+DEID I + SG D S VQR +L
Sbjct: 252 IVFIDEIDKIAAR--GGSSGPDVSREGVQRDLL 282
>gnl|CDD|105560 PRK12339, PRK12339, 2-phosphoglycerate kinase; Provisional.
Length = 197
Score = 29.0 bits (65), Expect = 6.7
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 416 VLLYGPPGTGKTLLARAVAHHT 437
+ G PG GKT ++ +A H
Sbjct: 6 HFIGGIPGVGKTSISGYIARHR 27
>gnl|CDD|236347 PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated.
Length = 227
Score = 29.2 bits (66), Expect = 6.8
Identities = 6/21 (28%), Positives = 12/21 (57%)
Query: 418 LYGPPGTGKTLLARAVAHHTE 438
L+G G+G++ L +A+
Sbjct: 47 LWGEAGSGRSHLLQALVADAS 67
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 29.7 bits (67), Expect = 7.1
Identities = 50/244 (20%), Positives = 103/244 (42%), Gaps = 20/244 (8%)
Query: 87 KENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEKE 146
E +E+ + E + + E + E+E + +E ++ E KIE L+ + E E
Sbjct: 242 AELEEEKERLEELKARLLEIESLELEALKIREEELRELERLLEELEEKIERLEELEREIE 301
Query: 147 QNLRRLQ------AQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEG 200
+ L+ + EL K++ L E L+ L+E+ + ++ + ++K +
Sbjct: 302 ELEEELEGLRALLEELEELLEKLKSLEERLEKLEEKLEKLESELEELAEEKNELA----- 356
Query: 201 KFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEE 260
K + + K ++ L L K L ++EAI+ + +EE
Sbjct: 357 KLLEERLKELEER---------LEELEKELEKALERLKQLEEAIQELKEELAELSAALEE 407
Query: 261 LQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVH 320
+Q + E E+ L L+ + EL +++ L E++ L+ + + E+ +K V +
Sbjct: 408 IQEELEELEKELEELERELEELEEEIKKLEEQINQLESKELMIAELAGAGEKCPVCGQEL 467
Query: 321 PEGK 324
PE
Sbjct: 468 PEEH 471
>gnl|CDD|144046 pfam00308, Bac_DnaA, Bacterial dnaA protein.
Length = 219
Score = 28.8 bits (65), Expect = 7.1
Identities = 11/44 (25%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTF-----IRVSGSELVQKFI 454
+ +YG G GKT L A+ ++ F + ++ E + F+
Sbjct: 37 LFIYGGVGLGKTHLLHAIGNYALRNFPNLRVVYLTSEEFLNDFV 80
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 29.5 bits (67), Expect = 7.3
Identities = 35/178 (19%), Positives = 67/178 (37%), Gaps = 19/178 (10%)
Query: 118 DEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQG 177
+E IK E +I+EL+ ++E E ++ L+ + L +L LL
Sbjct: 85 EELIKDVEEELEKIEKEIKELEEEISELENEIKELEQEIERL-EPWGNFDLDLSLLLGFK 143
Query: 178 SYVGEVVK-PMDKKKVLVKVHPEGK-FVVDIDKNIDINDVTPNCRVALRNESYTLHKILP 235
V P DK + L + DK V V L+ S
Sbjct: 144 YVSVFVGTVPEDKLEELKLESDVENVEYISTDKGYVYVVV-----VVLKELSD------- 191
Query: 236 NKMDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREEL 293
+V+E +K GF+ + + ++ E ++ L ++ +R L +++ L ++
Sbjct: 192 ---EVEEELKKL-GFERLELEEEGTPSELIREIKEELEEIEKERESLLEELKELAKKY 245
>gnl|CDD|182182 PRK09984, PRK09984, phosphonate/organophosphate ester transporter
subunit; Provisional.
Length = 262
Score = 29.2 bits (65), Expect = 7.3
Identities = 41/172 (23%), Positives = 66/172 (38%), Gaps = 20/172 (11%)
Query: 408 LGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVM 467
L I + V L GP G+GK+ L R ++ S EL+ + + R+ R++
Sbjct: 25 LNIHHGEMVALLGPSGSGKSTLLRHLSGLITGDKSAGSHIELLGRTVQREGRLARDI-RK 83
Query: 468 AREHAPSII----FMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVC 523
+R + I ++ + + + I G+ G + RT + A + +
Sbjct: 84 SRANTGYIFQQFNLVNRLSVLENVLI--GALGSTPFWRTCFSWFTREQKQRALQAL---- 137
Query: 524 TEAGMYALRERRV---------HVTQEDFEMAVAKVIMATNRIDILDPALLR 566
T GM +RV V M AKVI+A I LDP R
Sbjct: 138 TRVGMVHFAHQRVSTLSGGQQQRVAIARALMQQAKVILADEPIASLDPESAR 189
>gnl|CDD|238687 cd01393, recA_like, RecA is a bacterial enzyme which has roles in
homologous recombination, DNA repair, and the induction
of the SOS response. RecA couples ATP hydrolysis to DNA
strand exchange. While prokaryotes have a single RecA
protein, eukaryotes have multiple RecA homologs such as
Rad51, DMC1 and Rad55/57. Archaea have the RecA-like
homologs radA and radB.
Length = 226
Score = 28.7 bits (65), Expect = 7.7
Identities = 34/161 (21%), Positives = 57/161 (35%), Gaps = 39/161 (24%)
Query: 402 PELFDALGIAQPKGVL--LYGPPGTGKTLLA------------------RAVAHHTECTF 441
L + LG P G + ++G G+GKT L + V TE F
Sbjct: 6 KALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAF 65
Query: 442 IRVSGSELVQKFIGEGSRMVRELFVMAR----EHAPSIIFMDE------------IDSIG 485
+L +F + ++ ++V AR E I+ E +DS+
Sbjct: 66 RPERLVQLAVRFGLDPEEVLDNIYV-ARPYNGEQQLEIVEELERIMSSGRVDLVVVDSVA 124
Query: 486 S--SRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCT 524
+ + G G +E R + + L +L N+ V T
Sbjct: 125 ALFRKEFIGRGMLAERARLLSQALRKLLRLADKFNVAVVFT 165
>gnl|CDD|226997 COG4650, RtcR, Sigma54-dependent transcription regulator containing
an AAA-type ATPase domain and a DNA-binding domain
[Transcription / Signal transduction mechanisms].
Length = 531
Score = 29.1 bits (65), Expect = 7.9
Identities = 25/88 (28%), Positives = 38/88 (43%), Gaps = 19/88 (21%)
Query: 416 VLLYGPPGTGKTLLARAV------AHHTECTFIRVS-----GSELVQKFIGE------GS 458
+LL GP G GK+ LAR + H F+ V+ G + G G+
Sbjct: 211 ILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKGAFTGA 270
Query: 459 RMVRELFVMAREHAPSIIFMDEIDSIGS 486
R RE + R ++F+DEI +G+
Sbjct: 271 RESREGLL--RSADGGMLFLDEIGELGA 296
>gnl|CDD|235898 PRK06964, PRK06964, DNA polymerase III subunit delta'; Validated.
Length = 342
Score = 29.0 bits (65), Expect = 8.1
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 413 PKGVLLYGPPGTGKTLLARAVAHHTEC 439
P +LL+G G GK A+ +A C
Sbjct: 21 PHALLLHGQAGIGKLDFAQHLAQGLLC 47
>gnl|CDD|223250 COG0172, SerS, Seryl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 429
Score = 29.1 bits (66), Expect = 8.2
Identities = 22/101 (21%), Positives = 44/101 (43%), Gaps = 7/101 (6%)
Query: 83 KIIRKEN---KEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQ 139
K+IR+ +EKL+ +DVD+ + ER++ ++ E + +E+
Sbjct: 5 KLIRENPDAVREKLKKRGGDALDVDKLLELDEERRK----LLRELEELQAERNELSKEIG 60
Query: 140 LIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYV 180
+ E + L A+ EL K++ L L L+ + +
Sbjct: 61 RALKRGEDDAEELIAEVKELKEKLKELEAALDELEAELDTL 101
>gnl|CDD|224985 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport
and metabolism].
Length = 299
Score = 28.9 bits (65), Expect = 8.2
Identities = 13/55 (23%), Positives = 23/55 (41%), Gaps = 10/55 (18%)
Query: 408 LGIAQPKGVLLYGPPGTGKTLLARAVAHHT------ECTFIRVSGSELVQKFIGE 456
+ +P +L+ G G GK+ +A +A IR E+++K I
Sbjct: 84 RKMKRPLIILIGGASGVGKSTIAGELARRLGIRSVISTDSIR----EVLRKIISP 134
>gnl|CDD|233584 TIGR01817, nifA, Nif-specific regulatory protein. This model
represents NifA, a DNA-binding regulatory protein for
nitrogen fixation. The model produces scores between the
trusted and noise cutoffs for a well-described NifA
homolog in Aquifex aeolicus (which lacks nitrogenase),
for transcriptional activators of alternative
nitrogenases (VFe or FeFe instead of MoFe), and
truncated forms [Central intermediary metabolism,
Nitrogen fixation, Regulatory functions, DNA
interactions].
Length = 534
Score = 29.3 bits (66), Expect = 8.4
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 416 VLLYGPPGTGKTLLARAVAHHT 437
VLL G GTGK L+A+A+ + +
Sbjct: 222 VLLRGESGTGKELIAKAIHYLS 243
>gnl|CDD|225453 COG2900, SlyX, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 72
Score = 26.6 bits (59), Expect = 8.4
Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 7/42 (16%)
Query: 135 IEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
IEEL +AE++ + +LQAQ +R+L E+L+ LQ
Sbjct: 24 IEELNDALAEQQLVIDKLQAQ-------LRLLTEKLKDLQPS 58
Score = 26.6 bits (59), Expect = 8.4
Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 7/42 (16%)
Query: 258 IEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
IEEL +AE++ + +LQAQ +R+L E+L+ LQ
Sbjct: 24 IEELNDALAEQQLVIDKLQAQ-------LRLLTEKLKDLQPS 58
>gnl|CDD|227250 COG4913, COG4913, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 1104
Score = 29.2 bits (65), Expect = 8.4
Identities = 14/36 (38%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 136 EELQLIVAEKEQNLRR-LQAQRNELNAKVRMLREEL 170
E+ IV + RR LQ + + +NA++R LREE+
Sbjct: 764 EQHDDIVDIERIEHRRQLQKRIDAVNARLRRLREEI 799
Score = 29.2 bits (65), Expect = 8.4
Identities = 14/36 (38%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 259 EELQLIVAEKEQNLRR-LQAQRNELNAKVRMLREEL 293
E+ IV + RR LQ + + +NA++R LREE+
Sbjct: 764 EQHDDIVDIERIEHRRQLQKRIDAVNARLRRLREEI 799
>gnl|CDD|236442 PRK09270, PRK09270, nucleoside triphosphate hydrolase
domain-containing protein; Reviewed.
Length = 229
Score = 28.7 bits (65), Expect = 8.6
Identities = 13/40 (32%), Positives = 17/40 (42%), Gaps = 5/40 (12%)
Query: 401 HPELFDALGIAQPKG-----VLLYGPPGTGKTLLARAVAH 435
H L L Q + V + GPPG GK+ LA +
Sbjct: 16 HKPLLRRLAALQAEPQRRTIVGIAGPPGAGKSTLAEFLEA 55
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 29.4 bits (67), Expect = 8.6
Identities = 17/69 (24%), Positives = 33/69 (47%)
Query: 103 VDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAK 162
++EA E + ++E I S E + K EE + ++ E E+ L+ ++ +L +
Sbjct: 504 IEEAKKLIGEDKEKLNELIASLEELERELEQKAEEAEALLKEAEKLKEELEEKKEKLQEE 563
Query: 163 VRMLREELQ 171
L EE +
Sbjct: 564 EDKLLEEAE 572
>gnl|CDD|218681 pfam05667, DUF812, Protein of unknown function (DUF812). This
family consists of several eukaryotic proteins of
unknown function.
Length = 536
Score = 29.0 bits (65), Expect = 8.8
Identities = 16/106 (15%), Positives = 41/106 (38%), Gaps = 6/106 (5%)
Query: 203 VVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEELQ 262
+ + + + ++ P +MD +E ++E LQ
Sbjct: 223 LSKFRLDSWDKGSRFTRTEKVEQAATAAAEVPPAEMDTEEDRTKER------EAELEALQ 276
Query: 263 LIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVK 308
+ E E ++ + ++ L +K++ + EEL ++++ + E K
Sbjct: 277 EQIDELESSIEEVLSEIKALASKIKQVNEELTTVRQENEELEEEYK 322
>gnl|CDD|236461 PRK09302, PRK09302, circadian clock protein KaiC; Reviewed.
Length = 509
Score = 29.1 bits (66), Expect = 8.8
Identities = 12/20 (60%), Positives = 13/20 (65%), Gaps = 2/20 (10%)
Query: 413 PKG--VLLYGPPGTGKTLLA 430
PKG L+ G GTGKTL A
Sbjct: 29 PKGRPTLVSGTAGTGKTLFA 48
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 27.8 bits (62), Expect = 8.8
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 416 VLLYGPPGTGKTLLARAVA 434
+L+ G PG+GKT LA+ +A
Sbjct: 1 ILITGTPGSGKTTLAKELA 19
>gnl|CDD|219780 pfam08286, Spc24, Spc24 subunit of Ndc80. Spc24 is a component of
the evolutionarily conserved kinetochore-associated
Ndc80 complex and is involved in chromosome segregation.
Length = 117
Score = 27.7 bits (62), Expect = 8.9
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 143 AEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLV 194
+ E L LQ++ EL ++ EEL+ + +G V E P+D VL
Sbjct: 16 NDLESELNNLQSELEELKERL----EELEEQEVEGDEVDEDETPVDDSNVLK 63
Score = 27.7 bits (62), Expect = 8.9
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 266 AEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLV 317
+ E L LQ++ EL ++ EEL+ + +G V E P+D VL
Sbjct: 16 NDLESELNNLQSELEELKERL----EELEEQEVEGDEVDEDETPVDDSNVLK 63
>gnl|CDD|234501 TIGR04211, SH3_and_anchor, SH3 domain protein. Members of this
protein family have a signal peptide, a strongly
conserved SH3 domain, a variable region, and then a
C-terminal hydrophobic transmembrane alpha helix region.
Length = 198
Score = 28.4 bits (64), Expect = 8.9
Identities = 12/47 (25%), Positives = 25/47 (53%)
Query: 130 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
Y++ + + E +Q L LQ + EL ++ L++E Q L+++
Sbjct: 56 RYLSDTPSARERLPELQQELAELQEELAELQEQLAELQQENQELKQE 102
Score = 28.4 bits (64), Expect = 8.9
Identities = 12/47 (25%), Positives = 25/47 (53%)
Query: 253 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
Y++ + + E +Q L LQ + EL ++ L++E Q L+++
Sbjct: 56 RYLSDTPSARERLPELQQELAELQEELAELQEQLAELQQENQELKQE 102
>gnl|CDD|237963 PRK15424, PRK15424, propionate catabolism operon regulatory protein
PrpR; Provisional.
Length = 538
Score = 28.9 bits (65), Expect = 8.9
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 12/55 (21%)
Query: 383 GLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHT 437
G Q++++++ I L + VL+ G GTGK L A+A+ H
Sbjct: 223 GQSPQMEQVRQTILLYARSS-----------AAVLIQGETGTGKELAAQAI-HRE 265
>gnl|CDD|226350 COG3829, RocR, Transcriptional regulator containing PAS, AAA-type
ATPase, and DNA-binding domains [Transcription / Signal
transduction mechanisms].
Length = 560
Score = 29.2 bits (66), Expect = 9.3
Identities = 18/67 (26%), Positives = 30/67 (44%), Gaps = 14/67 (20%)
Query: 381 VGGLDNQIKEIKEVIELPVKH---------PELFDALGIA-----QPKGVLLYGPPGTGK 426
+ L +++E + ++ L K+ P + L +A VL+ G GTGK
Sbjct: 222 LERLTRELEESEGLLRLKAKYTFDDIIGESPAMLRVLELAKRIAKTDSTVLILGESGTGK 281
Query: 427 TLLARAV 433
L ARA+
Sbjct: 282 ELFARAI 288
>gnl|CDD|234172 TIGR03345, VI_ClpV1, type VI secretion ATPase, ClpV1 family.
Members of this protein family are homologs of ClpB, an
ATPase associated with chaperone-related functions.
These ClpB homologs, designated ClpV1, are a key
component of the bacterial pathogenicity-associated type
VI secretion system [Protein fate, Protein and peptide
secretion and trafficking, Cellular processes,
Pathogenesis].
Length = 852
Score = 29.1 bits (66), Expect = 9.7
Identities = 14/24 (58%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 412 QPKGV-LLYGPPGTGKTLLARAVA 434
+P GV LL GP G GKT A A+A
Sbjct: 594 KPLGVFLLVGPSGVGKTETALALA 617
>gnl|CDD|183133 PRK11432, fbpC, ferric transporter ATP-binding subunit;
Provisional.
Length = 351
Score = 28.9 bits (65), Expect = 9.7
Identities = 14/31 (45%), Positives = 17/31 (54%), Gaps = 2/31 (6%)
Query: 406 DALGIAQPKG--VLLYGPPGTGKTLLARAVA 434
D L + +G V L GP G GKT + R VA
Sbjct: 23 DNLNLTIKQGTMVTLLGPSGCGKTTVLRLVA 53
>gnl|CDD|217472 pfam03280, Lipase_chap, Proteobacterial lipase chaperone protein.
Length = 189
Score = 28.4 bits (64), Expect = 9.9
Identities = 11/38 (28%), Positives = 15/38 (39%), Gaps = 3/38 (7%)
Query: 139 QLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
L +K + RL A +L +R R L QE
Sbjct: 75 SLSDEQKAR---RLAALIAQLPEDLREARRNAALQQEL 109
Score = 28.4 bits (64), Expect = 9.9
Identities = 11/38 (28%), Positives = 15/38 (39%), Gaps = 3/38 (7%)
Query: 262 QLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
L +K + RL A +L +R R L QE
Sbjct: 75 SLSDEQKAR---RLAALIAQLPEDLREARRNAALQQEL 109
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.316 0.134 0.369
Gapped
Lambda K H
0.267 0.0724 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 34,623,314
Number of extensions: 3584408
Number of successful extensions: 6482
Number of sequences better than 10.0: 1
Number of HSP's gapped: 6154
Number of HSP's successfully gapped: 534
Length of query: 665
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 562
Effective length of database: 6,369,140
Effective search space: 3579456680
Effective search space used: 3579456680
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 (27.7 bits)