RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11254
(741 letters)
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 506 bits (1306), Expect = e-175
Identities = 199/434 (45%), Positives = 262/434 (60%), Gaps = 42/434 (9%)
Query: 26 EVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKE---LTKQYDKS 82
E++ + + ++Y D K + LLL + E L ++ D+
Sbjct: 2 ELDALDEILGDLESYEPQEYLNKLEDTKLKLLEKEKRLLLLEEQRLEAEGLRLKREVDRL 61
Query: 83 ENDLKALQSVG-QVSLSTSVSKCWTVIVKATNGPRYVVGCRRQLDKAKLKSGTRVALDMT 141
+++ L+ V V IVK++ GP++VV +D+ L+ G RVAL+
Sbjct: 62 REEIERLKEPPLIVGTVLEVLDDGRAIVKSSTGPKFVVNILSFVDRDLLEPGMRVALNRD 121
Query: 142 TLTIMRYLPREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVG 201
+ +I+R LP EVDP V M E+ D+TY IGGL EQI+E+REV+ELPL NPELF+ +G
Sbjct: 122 SYSIVRVLPPEVDPRVSVMEVEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELG 181
Query: 202 ITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRST 261
I PPKG LLYGPPGTGKTLLA+AVA+Q DA F++VV S
Sbjct: 182 IDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGS---------------------- 219
Query: 262 HHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTS 321
+V KYIGE ARL+RE+F AR P IIF+DEIDAIG +RF GTS
Sbjct: 220 -------------ELVQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTS 266
Query: 322 ADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQA 381
DRE+QRT++ELLNQ+DGFD G VK+IMATNRPD LDPALLRPGR DRKIE PLP+E+
Sbjct: 267 GDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEG 326
Query: 382 RLAHTWPISIHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQE 441
R + IH + ++D E + +L++ F+GADL+ +CTEAG+FAIR R+ VT E
Sbjct: 327 RAE---ILKIHTRKMNLADDVDLELLARLTEGFSGADLKAICTEAGMFAIRERRDEVTME 383
Query: 442 DFMKAVRKVSDNKK 455
DF+KAV KV KK
Sbjct: 384 DFLKAVEKVVKKKK 397
Score = 346 bits (890), Expect = e-112
Identities = 122/181 (67%), Positives = 145/181 (80%)
Query: 503 KPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVD 562
+ V+ELPL NPELF+ +GI PPKG LLYGPPGTGKTLLA+AVA+Q DA F++VV S +V
Sbjct: 164 REVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQ 223
Query: 563 KYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMD 622
KYIGE ARL+RE+F AR P IIF+DEIDAIG +RF GTS DRE+QRT++ELLNQ+D
Sbjct: 224 KYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLD 283
Query: 623 GFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHAGPIAKHGE 682
GFD G VK+IMATNRPD LDPALLRPGR DRKIE PLP+E+ R EILKIH + +
Sbjct: 284 GFDPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADD 343
Query: 683 I 683
+
Sbjct: 344 V 344
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 437 bits (1126), Expect = e-148
Identities = 190/430 (44%), Positives = 254/430 (59%), Gaps = 58/430 (13%)
Query: 30 RLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQYDKSENDLKAL 89
RL + E+ EL +Q + E L+ L++ E+L+ ++ KSE + K
Sbjct: 2 RLEALEERNSELEEQIRQLELKLRDLEAE----------NEKLERELERL-KSELE-KLK 49
Query: 90 QS---VGQVSLSTSVSKCWTVIVKATNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIM 146
V V + V+VK++ GP+++V +D+ KLK G RVAL+ +L I+
Sbjct: 50 SPPLIVATVLEVLDDGR---VVVKSSGGPQFLVNVSPFIDREKLKPGARVALNQQSLAIV 106
Query: 147 RYLPREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPK 206
LP E DP V M + ++TY IGGL EQIRE+RE +ELPL PELF+ VGI PPK
Sbjct: 107 EVLPSEKDPRVQAMEVIESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPK 166
Query: 207 GCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEK 266
G LLYGPPGTGKTLLA+AVA + +A F++VV S V
Sbjct: 167 GVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELV------------------------ 202
Query: 267 TYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREI 326
K+IGE ARL+RE+F AR P IIF+DEIDAI +R GTS DRE+
Sbjct: 203 -----------QKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREV 251
Query: 327 QRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHT 386
QRTLM+LL +MDGFD G VK+I ATNR D LDPA+LRPGR DR IE+PLP+E+ RL
Sbjct: 252 QRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLE-- 309
Query: 387 WPI-SIHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMK 445
I IH + ++D E + +L++ +GADL+ +CTEAG+FAIR +R VT EDF+K
Sbjct: 310 --ILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGMFAIRDDRTEVTMEDFLK 367
Query: 446 AVRKVSDNKK 455
A+ KV ++
Sbjct: 368 AIEKVMGKEE 377
Score = 310 bits (798), Expect = 3e-99
Identities = 113/169 (66%), Positives = 134/169 (79%)
Query: 505 VIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKY 564
+ELPL PELF+ VGI PPKG LLYGPPGTGKTLLA+AVA + +A F++VV S +V K+
Sbjct: 146 AVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKF 205
Query: 565 IGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGF 624
IGE ARL+RE+F AR P IIF+DEIDAI +R GTS DRE+QRTLM+LL +MDGF
Sbjct: 206 IGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGF 265
Query: 625 DSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIH 673
D G VK+I ATNR D LDPA+LRPGR DR IE+PLP+E+ RLEILKIH
Sbjct: 266 DPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIH 314
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 380 bits (977), Expect = e-126
Identities = 177/344 (51%), Positives = 226/344 (65%), Gaps = 38/344 (11%)
Query: 107 VIVKATNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMRYLPREVDPLVYNMSHEDPG 166
V+VK++ GP +VV +D+ LK G RVAL+ TLTI+ LP DPLV M E+
Sbjct: 58 VVVKSSTGPNFVVNVSAFIDRKSLKPGARVALNQQTLTIVDVLPTSKDPLVKGMEVEERP 117
Query: 167 DITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 226
+++Y IGGL EQIRE+RE +ELPL +PELF+ VGI PPKG LLYGPPGTGKTLLA+AVA
Sbjct: 118 NVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVA 177
Query: 227 SQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESAR 286
+ +A F++VV S V KYIGE AR
Sbjct: 178 HETNATFIRVVGSELV-----------------------------------RKYIGEGAR 202
Query: 287 LIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQV 346
L+RE+F A+ P IIF+DEIDAI +R GTS DRE+QRTLM+LL ++DGFD G V
Sbjct: 203 LVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNV 262
Query: 347 KMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKHGEIDYEA 406
K+I ATNRPD LDPALLRPGR DR IE+PLP+ + RL + IH + ++D EA
Sbjct: 263 KVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLE---ILKIHTRKMKLAEDVDLEA 319
Query: 407 VVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKV 450
+ K+++ +GADL+ +CTEAG+FAIR ER+YVT +DF+KAV KV
Sbjct: 320 IAKMTEGASGADLKAICTEAGMFAIREERDYVTMDDFIKAVEKV 363
Score = 266 bits (681), Expect = 2e-82
Identities = 113/171 (66%), Positives = 136/171 (79%)
Query: 503 KPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVD 562
+ +ELPL +PELF+ VGI PPKG LLYGPPGTGKTLLA+AVA + +A F++VV S +V
Sbjct: 135 REAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVR 194
Query: 563 KYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMD 622
KYIGE ARL+RE+F A+ P IIF+DEIDAI +R GTS DRE+QRTLM+LL ++D
Sbjct: 195 KYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELD 254
Query: 623 GFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIH 673
GFD G VK+I ATNRPD LDPALLRPGR DR IE+PLP+ + RLEILKIH
Sbjct: 255 GFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIH 305
>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 = 381 bits (981), Expect = e-122
Identities = 218/529 (41%), Positives = 294/529 (55%), Gaps = 90/529 (17%)
Query: 167 DITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 226
+TY IGGL E ++RE++ELP+ +PELF+ +GI PPKG LLYGPPGTGKTLLA+AVA
Sbjct: 174 KVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVA 233
Query: 227 SQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESAR 286
++ A F+ + I+ KY GES
Sbjct: 234 NEAGAYFISI-----------------------------------NGPEIMSKYYGESEE 258
Query: 287 LIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQV 346
+RE+F A + P IIF+DEIDAI +R E + + E +R + +LL MDG G+V
Sbjct: 259 RLREIFKEAEENAPSIIFIDEIDAIAPKR--EEVTGEVE-KRVVAQLLTLMDGLKGRGRV 315
Query: 347 KMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKHGEIDYEA 406
+I ATNRPD LDPAL RPGR DR+I I +P+++AR + P+A+ ++D A
Sbjct: 316 IVIGATNRPDALDPALRRPGRFDREIVIRVPDKRAR-KEILKVHTRNMPLAEDVDLDKLA 374
Query: 407 VVKLSDSFNGADLRNVCTEAGLFAIRSE-REYVTQEDFMKAVRKVSDNKKLDHCNSYRTE 465
+++ F GADL + EA + A+R RE + + +V K
Sbjct: 375 --EVTHGFVGADLAALAKEAAMAALRRFIREGKINFEAEEIPAEVLKELK---------- 422
Query: 466 AGLFAIRSEREYVTQEDFMKAVRKV-----------------SDNKKLES-KLDYKPVIE 507
VT +DFM+A++ V SD LE K + + +E
Sbjct: 423 ------------VTMKDFMEALKMVEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAVE 470
Query: 508 LPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGE 567
PL +PE+F+++GI PPKG LL+GPPGTGKTLLA+AVA++ ANF+ V I+ K++GE
Sbjct: 471 WPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGE 530
Query: 568 SARLIREMFNYARNHQPCIIFMDEIDAIG---GRRFSEGTSADREIQRTLMELLNQMDGF 624
S + IRE+F AR P IIF DEIDAI G RF + R + +LL +MDG
Sbjct: 531 SEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVT-----DRIVNQLLTEMDGI 585
Query: 625 DSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIH 673
L V +I ATNRPD LDPALLRPGR DR I +P P+E+AR EI KIH
Sbjct: 586 QELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIH 634
Score = 212 bits (542), Expect = 5e-59
Identities = 120/305 (39%), Positives = 168/305 (55%), Gaps = 64/305 (20%)
Query: 167 DITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 226
++ +S IGGL E +ELRE +E PL +PE+F+++GI PPKG LL+GPPGTGKTLLA+AVA
Sbjct: 449 NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVA 508
Query: 227 SQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESAR 286
++ ANF+ V I+ K++GES +
Sbjct: 509 TESGANFIAV-----------------------------------RGPEILSKWVGESEK 533
Query: 287 LIREMFNYARNHQPCIIFMDEIDAIG---GRRFSEGTSADREIQRTLMELLNQMDGFDSL 343
IRE+F AR P IIF DEIDAI G RF + R + +LL +MDG L
Sbjct: 534 AIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVT-----DRIVNQLLTEMDGIQEL 588
Query: 344 GQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKHGEID 403
V +I ATNRPD LDPALLRPGR DR I +P P+E+AR + I + P+A+ ++D
Sbjct: 589 SNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARK-EIFKIHTRSMPLAE--DVD 645
Query: 404 YEAVVKLSDSFNGADLRNVCTEAGLFAIRS-------------EREY-----VTQEDFMK 445
E + ++++ + GAD+ VC EA + A+R E E+ V F++
Sbjct: 646 LEELAEMTEGYTGADIEAVCREAAMAALRESIGSPAKEKLEVGEEEFLKDLKVEMRHFLE 705
Query: 446 AVRKV 450
A++KV
Sbjct: 706 ALKKV 710
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 334 bits (858), Expect = e-107
Identities = 199/502 (39%), Positives = 265/502 (52%), Gaps = 76/502 (15%)
Query: 188 ELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKED 247
ELPL PELF+++GI PPKG LL+GPPGTGKTLLARA+A A FL +
Sbjct: 1 ELPLKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALA-NEGAEFLSINGP-------- 51
Query: 248 MAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDE 307
I+ KY+GES +RE+F A P IIF+DE
Sbjct: 52 ---------------------------EILSKYVGESELRLRELFEEAEKLAPSIIFIDE 84
Query: 308 IDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGR 367
IDA+ +R S+ +R + L L MDG GQV +I ATNRPD LDPA RPGR
Sbjct: 85 IDALAPKRSSDQGEVERRVVAQL---LALMDGLKR-GQVIVIGATNRPDGLDPAKRRPGR 140
Query: 368 LDRKIEIPLPNEQARLAHTWPISIHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAG 427
DR+IE+ LP+E RL I + + + + +GADL + EA
Sbjct: 141 FDREIEVNLPDEAGRLEI-LQIHTRLMFLG--PPGTGKTLAARTVGKSGADLGALAKEAA 197
Query: 428 LFAIRS------EREYVTQEDFMKAVRKVSDNKKLDHCNSYRTEAGLFAIRSEREYVTQE 481
L +R E VT++DF +A++KV R + ++
Sbjct: 198 LRELRRAIDLVGEYIGVTEDDFEEALKKV---------------------LPSRGVLFED 236
Query: 482 DFMKAVRKVSDNKKLESKLDYKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLA 541
+ + E+K + K IE PL PELF+++G+ PPKG LLYGPPGTGKTLLA
Sbjct: 237 EDVTLDDIGGLE---EAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLA 293
Query: 542 RAVASQLDANFLKVVSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFS 601
+AVA + + F+ V S ++ K++GES + IRE+F AR P IIF+DEID++ R
Sbjct: 294 KAVALESRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGR-- 351
Query: 602 EGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLP 661
G S D +R + +LL ++DG + V +I ATNRPD LDPALLRPGR DR I +PLP
Sbjct: 352 -GPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLP 410
Query: 662 NEQARLEILKIHAGPIAKHGEI 683
+ + RLEI KIH
Sbjct: 411 DLEERLEIFKIHLRDKKPPLAE 432
Score = 242 bits (619), Expect = 6e-72
Identities = 116/289 (40%), Positives = 164/289 (56%), Gaps = 41/289 (14%)
Query: 163 EDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLA 222
ED D+T IGGL E EL+E IE PL PELF+++G+ PPKG LLYGPPGTGKTLLA
Sbjct: 235 EDE-DVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLA 293
Query: 223 RAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIG 282
+AVA + + F+ V S ++ K++G
Sbjct: 294 KAVALESRSRFISVKGSE-----------------------------------LLSKWVG 318
Query: 283 ESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDS 342
ES + IRE+F AR P IIF+DEID++ R G S D +R + +LL ++DG +
Sbjct: 319 ESEKNIRELFEKARKLAPSIIFIDEIDSLASGR---GPSEDGSGRRVVGQLLTELDGIEK 375
Query: 343 LGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKHGEI 402
V +I ATNRPD LDPALLRPGR DR I +PLP+ + RL + I + ++
Sbjct: 376 AEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEI-FKIHLRDKKPPLAEDV 434
Query: 403 DYEAVVKLSDSFNGADLRNVCTEAGLFAIRS-EREYVTQEDFMKAVRKV 450
D E + ++++ ++GAD+ + EA L A+R R VT +DF+ A++K+
Sbjct: 435 DLEELAEITEGYSGADIAALVREAALEALREARRREVTLDDFLDALKKI 483
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 320 bits (821), Expect = e-102
Identities = 166/423 (39%), Positives = 233/423 (55%), Gaps = 58/423 (13%)
Query: 32 REMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQYDKSENDLKALQS 91
R++ E+LKEL K+ + D+ ++E+ K L ++ +++ ++K +QS
Sbjct: 18 RDLYEKLKELEKELE-------------FLDIQEEYIKEEQKNLKRELIRAKEEVKRIQS 64
Query: 92 VGQV--SLSTSVSKCWTVIVKATNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMRYL 149
V V + IV +T+G Y V L++ LK VAL + ++ L
Sbjct: 65 VPLVIGQFLEMIDSN-YGIVSSTSGSNYYVRILSTLNRELLKPNASVALHRHSHAVVDIL 123
Query: 150 PREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCL 209
P E D + + + D+TYS IGGL Q +E+RE +ELPL PEL++++GI PP+G L
Sbjct: 124 PPEADSSIQLLQMSEKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVL 183
Query: 210 LYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYF 269
LYGPPGTGKT+LA+AVA A F++VV S FV
Sbjct: 184 LYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFV--------------------------- 216
Query: 270 PFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRT 329
KY+GE R++R++F AR + P IIF+DE+D+I +RF T ADRE+QR
Sbjct: 217 --------QKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRI 268
Query: 330 LMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPN-EQARLA-HTW 387
L+ELLNQMDGFD VK+IMATNR DTLDPALLRPGRLDRKIE PLP+ Q RL T
Sbjct: 269 LLELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTI 328
Query: 388 PISIHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAV 447
++ E+D E V + + AD+ +C EAG+ A+R R + +DF K
Sbjct: 329 TSKMNLSE-----EVDLEDFVSRPEKISAADIAAICQEAGMQAVRKNRYVILPKDFEKGY 383
Query: 448 RKV 450
+ V
Sbjct: 384 KTV 386
Score = 247 bits (633), Expect = 5e-75
Identities = 104/170 (61%), Positives = 130/170 (76%), Gaps = 1/170 (0%)
Query: 499 KLDYKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSS 558
K + + +ELPL PEL++++GI PP+G LLYGPPGTGKT+LA+AVA A F++VV S
Sbjct: 154 KQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGS 213
Query: 559 AIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELL 618
V KY+GE R++R++F AR + P IIF+DE+D+I +RF T ADRE+QR L+ELL
Sbjct: 214 EFVQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELL 273
Query: 619 NQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPN-EQARL 667
NQMDGFD VK+IMATNR DTLDPALLRPGRLDRKIE PLP+ Q RL
Sbjct: 274 NQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRL 323
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 318 bits (817), Expect = e-101
Identities = 153/348 (43%), Positives = 212/348 (60%), Gaps = 38/348 (10%)
Query: 108 IVKATNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMRYLPREVDPLVYNMSHEDPGD 167
IV ++ GP Y V +DK +L+ G V L T +++ L EVDPLV M +
Sbjct: 120 IVSSSVGPEYYVNILSFVDKEQLEPGCSVLLHNKTHSVVGILLDEVDPLVSVMKVDKAPL 179
Query: 168 ITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVAS 227
+Y+ IGGL +QI+E++E +ELPL +PEL+ +GI PPKG +LYGPPGTGKTLLA+AVA+
Sbjct: 180 ESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVAN 239
Query: 228 QLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARL 287
+ A FL+VV S ++ KY+G+ +L
Sbjct: 240 ETSATFLRVVGS-----------------------------------ELIQKYLGDGPKL 264
Query: 288 IREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVK 347
+RE+F A + P I+F+DEIDAIG +R+ + ++EIQRT++ELLNQ+DGFDS G VK
Sbjct: 265 VRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVK 324
Query: 348 MIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKHGEIDYEAV 407
+IMATNR ++LDPAL+RPGR+DRKIE P P+E+ + IH + ++D E
Sbjct: 325 VIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRR---IFEIHTSKMTLAEDVDLEEF 381
Query: 408 VKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKK 455
+ D +GAD++ +CTEAGL A+R R VTQ DF KA KV KK
Sbjct: 382 IMAKDELSGADIKAICTEAGLLALRERRMKVTQADFRKAKEKVLYRKK 429
Score = 248 bits (634), Expect = 1e-74
Identities = 99/171 (57%), Positives = 135/171 (78%)
Query: 503 KPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVD 562
K +ELPL +PEL+ +GI PPKG +LYGPPGTGKTLLA+AVA++ A FL+VV S ++
Sbjct: 196 KEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQ 255
Query: 563 KYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMD 622
KY+G+ +L+RE+F A + P I+F+DEIDAIG +R+ + ++EIQRT++ELLNQ+D
Sbjct: 256 KYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLD 315
Query: 623 GFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIH 673
GFDS G VK+IMATNR ++LDPAL+RPGR+DRKIE P P+E+ + I +IH
Sbjct: 316 GFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIH 366
>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 = 219 bits (561), Expect = 1e-63
Identities = 104/283 (36%), Positives = 154/283 (54%), Gaps = 39/283 (13%)
Query: 168 ITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVAS 227
+T+ + G+ E EL E+++ L NP F ++G PKG LL GPPGTGKTLLA+AVA
Sbjct: 52 VTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAG 110
Query: 228 QLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARL 287
+ F + S FV +M ++G A
Sbjct: 111 EAGVPFFSISGSDFV----EM-------------------------------FVGVGASR 135
Query: 288 IREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVK 347
+R++F A+ + PCIIF+DEIDA+G +R + + E ++TL +LL +MDGF + V
Sbjct: 136 VRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVI 195
Query: 348 MIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKHGEIDYEAV 407
+I ATNRPD LDPALLRPGR DR++ + LP+ + R + +HA ++D +AV
Sbjct: 196 VIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREE---ILKVHAKNKKLAPDVDLKAV 252
Query: 408 VKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKV 450
+ + F+GADL N+ EA L A R + +T D +A+ +V
Sbjct: 253 ARRTPGFSGADLANLLNEAALLAARKNKTEITMNDIEEAIDRV 295
Score = 196 bits (501), Expect = 4e-55
Identities = 84/178 (47%), Positives = 119/178 (66%), Gaps = 1/178 (0%)
Query: 497 ESKLDYKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
E+K + +++ L NP F ++G PKG LL GPPGTGKTLLA+AVA + F +
Sbjct: 62 EAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSIS 120
Query: 557 SSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLME 616
S V+ ++G A +R++F A+ + PCIIF+DEIDA+G +R + + E ++TL +
Sbjct: 121 GSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQ 180
Query: 617 LLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHA 674
LL +MDGF + V +I ATNRPD LDPALLRPGR DR++ + LP+ + R EILK+HA
Sbjct: 181 LLVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHA 238
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 196 bits (500), Expect = 4e-54
Identities = 105/284 (36%), Positives = 153/284 (53%), Gaps = 41/284 (14%)
Query: 168 ITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVAS 227
+T++ + G+ E EL E+++ L NP+ +Q +G PKG LL GPPGTGKTLLA+AVA
Sbjct: 147 VTFADVAGVDEAKEELSELVD-FLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAG 205
Query: 228 QLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARL 287
+ F + S FV M ++G A
Sbjct: 206 EAGVPFFSISGSDFVE--------M---------------------------FVGVGASR 230
Query: 288 IREMFNYARNHQPCIIFMDEIDAIGGRR-FSEGTSADREIQRTLMELLNQMDGFDSLGQV 346
+R++F A+ + PCIIF+DEIDA+G +R G D E ++TL +LL +MDGF V
Sbjct: 231 VRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGND-EREQTLNQLLVEMDGFGGNEGV 289
Query: 347 KMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKHGEIDYEA 406
+I ATNRPD LDPALLRPGR DR+I + LP+ + R +HA ++D +
Sbjct: 290 IVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQIL---KVHAKNKPLAEDVDLKK 346
Query: 407 VVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKV 450
+ + + F+GADL N+ EA L A R ++ +T D +A+ +V
Sbjct: 347 IARGTPGFSGADLANLLNEAALLAARRNKKEITMRDIEEAIDRV 390
Score = 189 bits (481), Expect = 2e-51
Identities = 86/179 (48%), Positives = 119/179 (66%), Gaps = 3/179 (1%)
Query: 497 ESKLDYKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
E+K + +++ L NP+ +Q +G PKG LL GPPGTGKTLLA+AVA + F +
Sbjct: 157 EAKEELSELVD-FLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSIS 215
Query: 557 SSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRR-FSEGTSADREIQRTLM 615
S V+ ++G A +R++F A+ + PCIIF+DEIDA+G +R G D E ++TL
Sbjct: 216 GSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGND-EREQTLN 274
Query: 616 ELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHA 674
+LL +MDGF V +I ATNRPD LDPALLRPGR DR+I + LP+ + R +ILK+HA
Sbjct: 275 QLLVEMDGFGGNEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHA 333
>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 = 180 bits (458), Expect = 2e-53
Identities = 76/134 (56%), Positives = 97/134 (72%), Gaps = 5/134 (3%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMFNYARNHQPCII 587
LLYGPPGTGKT LA+AVA +L A F+++ S +V KY+GES + +RE+F A+ PC+I
Sbjct: 2 LLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVI 61
Query: 588 FMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDS-LGQVKMIMATNRPDTLDPAL 646
F+DEIDA+ G R S G D E +R + +LL ++DGF S L +V +I ATNRPD LDPAL
Sbjct: 62 FIDEIDALAGSRGSGG---DSESRRVVNQLLTELDGFTSSLSKVIVIAATNRPDKLDPAL 118
Query: 647 LRPGRLDRKIEIPL 660
LR GR DR IE PL
Sbjct: 119 LR-GRFDRIIEFPL 131
Score = 162 bits (412), Expect = 6e-47
Identities = 76/169 (44%), Positives = 97/169 (57%), Gaps = 40/169 (23%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTY 268
LLYGPPGTGKT LA+AVA +L A F+++ S
Sbjct: 2 LLYGPPGTGKTTLAKAVAKELGAPFIEISGS----------------------------- 32
Query: 269 FPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 328
+V KY+GES + +RE+F A+ PC+IF+DEIDA+ G R S G D E +R
Sbjct: 33 ------ELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGG---DSESRR 83
Query: 329 TLMELLNQMDGFDS-LGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPL 376
+ +LL ++DGF S L +V +I ATNRPD LDPALLR GR DR IE PL
Sbjct: 84 VVNQLLTELDGFTSSLSKVIVIAATNRPDKLDPALLR-GRFDRIIEFPL 131
>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 = 184 bits (470), Expect = 1e-50
Identities = 121/362 (33%), Positives = 172/362 (47%), Gaps = 60/362 (16%)
Query: 92 VGQVSLSTSVSKCWTVIVKATNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMRYLPR 151
G++ V +V +G VV L L+ G + +D +PR
Sbjct: 106 TGEIVTLKEVLDDGRALVTDRSGEERVVKLAGALADEGLRPGDTLLVDPRAGYAFEAIPR 165
Query: 152 -EVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLL 210
EV+ LV E+ D+TY+ IGGL QI ++R+ +ELP L+PEL++ G+ PPKG LL
Sbjct: 166 TEVEDLVL----EEVPDVTYADIGGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLL 221
Query: 211 YGPPGTGKTLLARAVASQLDANFLKV--VSSLFVTSKEDMAILMGNQLKRRSTHHLEKTY 268
YGPPG GKTL+A+AVA+ L A S F+ K G +L
Sbjct: 222 YGPPGCGKTLIAKAVANSLAARIGAEGGGKSYFLNIK-------GPEL------------ 262
Query: 269 FPFYSSAIVDKYIGESARLIREMFNYAR----NHQPCIIFMDEIDAIGGRRFSEGTSADR 324
++KY+GE+ R IR +F AR +P I+F DE+D++ R S G S+D
Sbjct: 263 --------LNKYVGETERQIRLIFQRAREKASEGRPVIVFFDEMDSLFRTRGS-GVSSDV 313
Query: 325 EIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQA--- 381
E + +LL ++DG +SL V +I A+NR D +DPA+LRPGRLD KI I P+ +A
Sbjct: 314 E-TTVVPQLLAEIDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAAD 372
Query: 382 ----RLAHTWPISIHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREY 437
L P+ +A H A L +A L+A Y
Sbjct: 373 IFAKYLTDDLPLP---EDLAAHDGDREATA---------AALIQRVVDA-LYARSEANRY 419
Query: 438 VT 439
V
Sbjct: 420 VE 421
Score = 160 bits (406), Expect = 5e-42
Identities = 81/182 (44%), Positives = 115/182 (63%), Gaps = 16/182 (8%)
Query: 506 IELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDAN----------FLKV 555
+ELP L+PEL++ G+ PPKG LLYGPPG GKTL+A+AVA+ L A FL +
Sbjct: 198 VELPFLHPELYREYGLKPPKGVLLYGPPGCGKTLIAKAVANSLAARIGAEGGGKSYFLNI 257
Query: 556 VSSAIVDKYIGESARLIREMFNYAR----NHQPCIIFMDEIDAIGGRRFSEGTSADREIQ 611
+++KY+GE+ R IR +F AR +P I+F DE+D++ R S G S+D E
Sbjct: 258 KGPELLNKYVGETERQIRLIFQRAREKASEGRPVIVFFDEMDSLFRTRGS-GVSSDVE-T 315
Query: 612 RTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILK 671
+ +LL ++DG +SL V +I A+NR D +DPA+LRPGRLD KI I P+ +A +I
Sbjct: 316 TVVPQLLAEIDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFA 375
Query: 672 IH 673
+
Sbjct: 376 KY 377
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 186 bits (474), Expect = 2e-50
Identities = 99/284 (34%), Positives = 147/284 (51%), Gaps = 39/284 (13%)
Query: 167 DITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 226
IT+ I G+ E E EV+ L PE F VG PKG LL GPPGTGKTLLA+A+A
Sbjct: 179 GITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIA 237
Query: 227 SQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESAR 286
+ + F + S FV + ++G A
Sbjct: 238 GEAEVPFFSISGSEFV-----------------------------------EMFVGVGAA 262
Query: 287 LIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQV 346
+R++F A+ + PCI+F+DEIDA+G +R + + E ++TL +LL +MDGF V
Sbjct: 263 RVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGV 322
Query: 347 KMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKHGEIDYEA 406
+I ATNR D LD ALLRPGR DR+I + LP+ + RL + +HA ++ E
Sbjct: 323 IVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLD---ILKVHARNKKLSPDVSLEL 379
Query: 407 VVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKV 450
+ + + F+GADL N+ EA + R ++ +T ++ A+ +V
Sbjct: 380 IARRTPGFSGADLANLLNEAAILTARRKKATITMKEIDTAIDRV 423
Score = 177 bits (452), Expect = 2e-47
Identities = 80/165 (48%), Positives = 110/165 (66%)
Query: 510 LLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESA 569
L PE F VG PKG LL GPPGTGKTLLA+A+A + + F + S V+ ++G A
Sbjct: 202 LKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVGVGA 261
Query: 570 RLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQ 629
+R++F A+ + PCI+F+DEIDA+G +R + + E ++TL +LL +MDGF
Sbjct: 262 ARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKG 321
Query: 630 VKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHA 674
V +I ATNR D LD ALLRPGR DR+I + LP+ + RL+ILK+HA
Sbjct: 322 VIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHA 366
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 174 bits (442), Expect = 3e-46
Identities = 103/291 (35%), Positives = 152/291 (52%), Gaps = 39/291 (13%)
Query: 160 MSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKT 219
M ED T++ + G E E+ E++E L P FQ++G PKG L+ GPPGTGKT
Sbjct: 141 MLTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKT 199
Query: 220 LLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDK 279
LLA+A+A + F + S FV +
Sbjct: 200 LLAKAIAGEAKVPFFTISGSDFV-----------------------------------EM 224
Query: 280 YIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDG 339
++G A +R+MF A+ PCIIF+DEIDA+G +R + E ++TL ++L +MDG
Sbjct: 225 FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDG 284
Query: 340 FDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKH 399
F+ + +I ATNRPD LDPALLRPGR DR++ + LP+ + R + +H +
Sbjct: 285 FEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGR---EQILKVHMRRVPLA 341
Query: 400 GEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKV 450
+ID + + + F+GADL N+ EA LFA R + V+ +F KA K+
Sbjct: 342 PDIDAAIIARGTPGFSGADLANLVNEAALFAARGNKRVVSMVEFEKAKDKI 392
Score = 161 bits (409), Expect = 8e-42
Identities = 80/177 (45%), Positives = 116/177 (65%), Gaps = 1/177 (0%)
Query: 497 ESKLDYKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
E+K + ++E L P FQ++G PKG L+ GPPGTGKTLLA+A+A + F +
Sbjct: 159 EAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTIS 217
Query: 557 SSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLME 616
S V+ ++G A +R+MF A+ PCIIF+DEIDA+G +R + E ++TL +
Sbjct: 218 GSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQ 277
Query: 617 LLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIH 673
+L +MDGF+ + +I ATNRPD LDPALLRPGR DR++ + LP+ + R +ILK+H
Sbjct: 278 MLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVH 334
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 139 bits (353), Expect = 3e-36
Identities = 92/297 (30%), Positives = 138/297 (46%), Gaps = 61/297 (20%)
Query: 161 SHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTL 220
E DIT + G E R+ R +I L NPE F G PK L YGPPGTGKT+
Sbjct: 111 DREIISDITLDDVIGQEEAKRKCR-LIMEYLENPERF---GDWAPKNVLFYGPPGTGKTM 166
Query: 221 LARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKY 280
+A+A+A++ L V ++ ++ ++
Sbjct: 167 MAKALANEAKVPLLLV-----------------------------------KATELIGEH 191
Query: 281 IGESARLIREMFNYARNHQPCIIFMDEIDAIG-GRRFSEGTSADREIQRTLMELLNQMDG 339
+G+ AR I E++ AR PCI+F+DE+DAI RR+ E EI + LL ++DG
Sbjct: 192 VGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEI---VNALLTELDG 248
Query: 340 FDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARL------AHTWPISIHA 393
V I ATNRP+ LDPA+ R + +IE LPN++ RL A +P+ +
Sbjct: 249 IKENEGVVTIAATNRPELLDPAI--RSRFEEEIEFKLPNDEERLEILEYYAKKFPLPV-- 304
Query: 394 GPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLF-AIRSEREYVTQEDFMKAVRK 449
+ D + + +G D++ + L AI +RE V +ED KA++K
Sbjct: 305 -------DADLRYLAAKTKGMSGRDIKEKVLKTALHRAIAEDREKVEREDIEKALKK 354
Score = 138 bits (348), Expect = 2e-35
Identities = 72/171 (42%), Positives = 104/171 (60%), Gaps = 9/171 (5%)
Query: 505 VIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKY 564
+I L NPE F G PK L YGPPGTGKT++A+A+A++ L V ++ ++ ++
Sbjct: 135 LIMEYLENPERF---GDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEH 191
Query: 565 IGESARLIREMFNYARNHQPCIIFMDEIDAIG-GRRFSEGTSADREIQRTLMELLNQMDG 623
+G+ AR I E++ AR PCI+F+DE+DAI RR+ E EI + LL ++DG
Sbjct: 192 VGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEI---VNALLTELDG 248
Query: 624 FDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHA 674
V I ATNRP+ LDPA+ R + +IE LPN++ RLEIL+ +A
Sbjct: 249 IKENEGVVTIAATNRPELLDPAI--RSRFEEEIEFKLPNDEERLEILEYYA 297
>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 = 101 bits (253), Expect = 4e-25
Identities = 55/154 (35%), Positives = 80/154 (51%), Gaps = 18/154 (11%)
Query: 514 ELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQL---DANFLKVVSSAIVDKYIGESAR 570
L + + + PPK LLYGPPGTGKT LARA+A++L A FL + +S +++ +
Sbjct: 9 ALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELF 68
Query: 571 ---LIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQ-MDGFDS 626
L+R +F A +P ++F+DEID++ R Q L+ +L D
Sbjct: 69 GHFLVRLLFELAEKAKPGVLFIDEIDSLS-----------RGAQNALLRVLETLNDLRID 117
Query: 627 LGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPL 660
V++I ATNRP D RLD +I IPL
Sbjct: 118 RENVRVIGATNRPLLGDLDRALYDRLDIRIVIPL 151
Score = 91.1 bits (226), Expect = 2e-21
Identities = 61/204 (29%), Positives = 85/204 (41%), Gaps = 54/204 (26%)
Query: 174 GGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANF 233
G E I LRE +ELP PPK LLYGPPGTGKT LARA+A++L
Sbjct: 1 VGQEEAIEALREALELP-------------PPKNLLLYGPPGTGKTTLARAIANELFRPG 47
Query: 234 LKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFN 293
+ + + + + L+ +L L+R +F
Sbjct: 48 APFLY---LNASDLLEGLVVAELFG--------------------------HFLVRLLFE 78
Query: 294 YARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQ-MDGFDSLGQVKMIMAT 352
A +P ++F+DEID++ R Q L+ +L D V++I AT
Sbjct: 79 LAEKAKPGVLFIDEIDSLS-----------RGAQNALLRVLETLNDLRIDRENVRVIGAT 127
Query: 353 NRPDTLDPALLRPGRLDRKIEIPL 376
NRP D RLD +I IPL
Sbjct: 128 NRPLLGDLDRALYDRLDIRIVIPL 151
>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 = 81.3 bits (200), Expect = 4e-18
Identities = 47/175 (26%), Positives = 71/175 (40%), Gaps = 27/175 (15%)
Query: 204 PPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHH 263
P + L+ GPPG+GKT LARA+A +L V+ + G +
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVI------------YIDGEDILEEVLDQ 48
Query: 264 LEKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSAD 323
L K G +R AR +P ++ +DEI ++ A+
Sbjct: 49 LLLIIVGG------KKASGSGELRLRLALALARKLKPDVLILDEITSL--------LDAE 94
Query: 324 REIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPN 378
+E L+E L + S + +I+ TN L PALLR R DR+I + L
Sbjct: 95 QEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
Score = 81.3 bits (200), Expect = 5e-18
Identities = 45/157 (28%), Positives = 67/157 (42%), Gaps = 26/157 (16%)
Query: 523 PPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVS-----------------SAIVDKYI 565
P + L+ GPPG+GKT LARA+A +L V+ K
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS 60
Query: 566 GESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFD 625
G +R AR +P ++ +DEI ++ A++E L+E L +
Sbjct: 61 GSGELRLRLALALARKLKPDVLILDEITSL--------LDAEQEALLLLLEELRLLLLLK 112
Query: 626 SLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPN 662
S + +I+ TN L PALLR R DR+I + L
Sbjct: 113 SEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional.
Length = 489
Score = 78.9 bits (195), Expect = 3e-15
Identities = 50/157 (31%), Positives = 75/157 (47%), Gaps = 10/157 (6%)
Query: 520 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMFNYA 579
G+ P+G LL G GTGK+L A+A+A+ L++ + +GES +R+M A
Sbjct: 255 GLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVGESESRMRQMIRIA 314
Query: 580 RNHQPCIIFMDEID-AIGGRRFS--EGTSADREIQRTLMELLNQMDGFDSLGQVKMIMAT 636
PCI+++DEID A GT+ R L + + S V ++
Sbjct: 315 EALSPCILWIDEIDKAFSNSESKGDSGTTN-----RVLATFITWLSEKKS--PVFVVATA 367
Query: 637 NRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIH 673
N D L +LR GR D + LP+ + R +I KIH
Sbjct: 368 NNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIH 404
Score = 78.5 bits (194), Expect = 3e-15
Identities = 67/260 (25%), Positives = 104/260 (40%), Gaps = 61/260 (23%)
Query: 201 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRS 260
G+ P+G LL G GTGK+L A+A+A+ L++ D+ L G
Sbjct: 255 GLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRL----------DVGKLFGG------ 298
Query: 261 THHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEID-AIGGRRFS-- 317
+GES +R+M A PCI+++DEID A
Sbjct: 299 -------------------IVGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGD 339
Query: 318 EGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLP 377
GT+ R L + + S V ++ N D L +LR GR D + LP
Sbjct: 340 SGTTN-----RVLATFITWLSEKKS--PVFVVATANNIDLLPLEILRKGRFDEIFFLDLP 392
Query: 378 NEQAR-------LAHTWPISIHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFA 430
+ + R L P S + D + + KLS+ F+GA++ EA A
Sbjct: 393 SLEEREKIFKIHLQKFRPKSWK--------KYDIKKLSKLSNKFSGAEIEQSIIEAMYIA 444
Query: 431 IRSEREYVTQEDFMKAVRKV 450
+RE+ T D + A+++
Sbjct: 445 FYEKREFTTD-DILLALKQF 463
>gnl|CDD|217089 pfam02535, Zip, ZIP Zinc transporter. The ZIP family consists of
zinc transport proteins and many putative metal
transporters. The main contribution to this family is
from the Arabidopsis thaliana ZIP protein family these
proteins are responsible for zinc uptake in the plant.
Also found within this family are C. elegans proteins of
unknown function which are annotated as being similar to
human growth arrest inducible gene product, although
this protein in not found within this family.
Length = 314
Score = 67.8 bits (166), Expect = 4e-12
Identities = 23/64 (35%), Positives = 38/64 (59%), Gaps = 3/64 (4%)
Query: 678 AKHGEIGDAATKWVLPFTAGGFIYIATVSVIPELLEDTSP---KQTVKEILALLLGVFMM 734
+ + D T +L F+AG F+Y+A V ++PE L ++ K + ++LALLLG +M
Sbjct: 251 SSNSPGSDITTGILLAFSAGTFLYVALVELLPEELANSEEQSLKLQLLQLLALLLGFALM 310
Query: 735 VIIA 738
+IA
Sbjct: 311 ALIA 314
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 61.6 bits (151), Expect = 6e-10
Identities = 27/70 (38%), Positives = 39/70 (55%), Gaps = 11/70 (15%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMFNYARNH---- 582
+L+GPPGTGKT LAR +A DA F + SA+ + + +RE+ AR
Sbjct: 39 MILWGPPGTGKTTLARIIAGATDAPFEAL--SAVTSG-VKD----LREVIEEARQRRSAG 91
Query: 583 QPCIIFMDEI 592
+ I+F+DEI
Sbjct: 92 RRTILFIDEI 101
Score = 48.2 bits (116), Expect = 1e-05
Identities = 27/105 (25%), Positives = 39/105 (37%), Gaps = 46/105 (43%)
Query: 208 CLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKT 267
+L+GPPGTGKT LAR +A DA F +
Sbjct: 39 MILWGPPGTGKTTLARIIAGATDAPFEAL------------------------------- 67
Query: 268 YFPFYSSAIVDKYIGESARLIREMFNYARNH----QPCIIFMDEI 308
SA+ + + +RE+ AR + I+F+DEI
Sbjct: 68 ------SAVTSG-VKD----LREVIEEARQRRSAGRRTILFIDEI 101
>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 = 51.0 bits (122), Expect = 2e-07
Identities = 28/137 (20%), Positives = 45/137 (32%), Gaps = 13/137 (9%)
Query: 175 GLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFL 234
G E++ L + + R P LL GP GTGKT L R + L
Sbjct: 4 GREEELERLLDALR----------RARSGGPPSVLLTGPSGTGKTSLLRELLEGLLVAAG 53
Query: 235 KVVSSLFVTSKEDMAILMG--NQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMF 292
K + L QL R L +A+ + I L+ +
Sbjct: 54 KCDQAERNPPYAFSQALRELLRQLLRELAAELLL-LREALLAALGAELIEGLQDLVELLE 112
Query: 293 NYARNHQPCIIFMDEID 309
+P ++ +D++
Sbjct: 113 RLLARARPLVLVLDDLQ 129
Score = 41.8 bits (98), Expect = 2e-04
Identities = 15/43 (34%), Positives = 18/43 (41%)
Query: 514 ELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
+ +R P LL GP GTGKT L R + L K
Sbjct: 14 DALRRARSGGPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKCD 56
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 52.8 bits (127), Expect = 3e-07
Identities = 44/171 (25%), Positives = 64/171 (37%), Gaps = 36/171 (21%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKV-------VSSAIVDKYIGESARLIREMFNYAR 580
LL GPPG GKTLLARA+A L F+++ S + E
Sbjct: 47 LLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVPG 106
Query: 581 N---HQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGF-DSLGQVK----- 631
I+ +DEI+ A E+Q L+E L + L ++
Sbjct: 107 PLFAAVRVILLLDEINR-----------APPEVQNALLEALEERQVTVPGLTTIRLPPPF 155
Query: 632 MIMATNRP------DTLDPALLRPGRLDRKIEIPLPN-EQARLEILKIHAG 675
+++AT P L ALL R +I + P+ E+ IL G
Sbjct: 156 IVIATQNPGEYEGTYPLPEALLD--RFLLRIYVDYPDSEEEERIILARVGG 204
Score = 46.7 bits (111), Expect = 3e-05
Identities = 42/183 (22%), Positives = 64/183 (34%), Gaps = 50/183 (27%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTY 268
LL GPPG GKTLLARA+A L F+++ T L+ + L
Sbjct: 47 LLEGPPGVGKTLLARALARALGLPFVRI----QCTPD-----LLPSDL------------ 85
Query: 269 FPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 328
+ A + I+ +DEI+ A E+Q
Sbjct: 86 --LGTYAYAALLLEPGEFRFVP--GPLFAAVRVILLLDEINR-----------APPEVQN 130
Query: 329 TLMELLNQMDGF-DSLGQVK-----MIMATNRP------DTLDPALLRPGRLDRKIEIPL 376
L+E L + L ++ +++AT P L ALL R +I +
Sbjct: 131 ALLEALEERQVTVPGLTTIRLPPPFIVIATQNPGEYEGTYPLPEALLD--RFLLRIYVDY 188
Query: 377 PNE 379
P+
Sbjct: 189 PDS 191
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 51.9 bits (125), Expect = 7e-07
Identities = 26/68 (38%), Positives = 39/68 (57%), Gaps = 11/68 (16%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMFNYARNH----QP 584
L+GPPGTGKT LAR +A +A F + SA+ + + +RE+ AR + +
Sbjct: 53 LWGPPGTGKTTLARLIAGTTNAAFEAL--SAVTSG-VKD----LREIIEEARKNRLLGRR 105
Query: 585 CIIFMDEI 592
I+F+DEI
Sbjct: 106 TILFLDEI 113
Score = 46.1 bits (110), Expect = 5e-05
Identities = 18/42 (42%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAIL 251
L+GPPGTGKT LAR +A +A F +S++ K+ I+
Sbjct: 53 LWGPPGTGKTTLARLIAGTTNAAFEA-LSAVTSGVKDLREII 93
>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 = 49.4 bits (118), Expect = 5e-06
Identities = 48/165 (29%), Positives = 72/165 (43%), Gaps = 44/165 (26%)
Query: 476 EYVTQEDFMKAVRKVS---DNKKLESKLDYK--PVIELPLLNPELFQRVGITPPKGCLLY 530
EYV ++ K V V+ K+L + + K +EL N LL
Sbjct: 77 EYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSN--------------ILLI 122
Query: 531 GPPGTGKTLLARAVASQLDANFLKVVSSAIVDK-------YIGESA-----RLIREMFNY 578
GP G+GKTLLA+ +A L+ F AI D Y+GE +L++
Sbjct: 123 GPTGSGKTLLAQTLARILNVPF------AIADATTLTEAGYVGEDVENILLKLLQAADYD 176
Query: 579 ARNHQPCIIFMDEIDAIGGRRFSEGTSADRE-----IQRTLMELL 618
Q II++DEID I R SE S R+ +Q+ L++++
Sbjct: 177 VEKAQKGIIYIDEIDKIS--RKSENPSITRDVSGEGVQQALLKII 219
Score = 34.7 bits (80), Expect = 0.16
Identities = 36/136 (26%), Positives = 53/136 (38%), Gaps = 46/136 (33%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTY 268
LL GP G+GKTLLA+ +A L+ F AI L
Sbjct: 120 LLIGPTGSGKTLLAQTLARILNVPF---------------AIADATTLTEAG-------- 156
Query: 269 FPFYSSAIVDKYIGESA-----RLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSAD 323
Y+GE +L++ Q II++DEID I R SE S
Sbjct: 157 -----------YVGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKIS--RKSENPSIT 203
Query: 324 RE-----IQRTLMELL 334
R+ +Q+ L++++
Sbjct: 204 RDVSGEGVQQALLKII 219
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 49.1 bits (118), Expect = 7e-06
Identities = 28/84 (33%), Positives = 43/84 (51%), Gaps = 16/84 (19%)
Query: 523 PPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV--------SSAIVDKYIGESARLIRE 574
P K LLYGPPG GKT LA A+A+ +V+ ++ ++++ GE+A
Sbjct: 38 PKKALLLYGPPGVGKTSLAHALANDYG---WEVIELNASDQRTADVIERVAGEAATS-GS 93
Query: 575 MFNYARNHQPCIIFMDEIDAIGGR 598
+F R +I +DE+D I G
Sbjct: 94 LFGARRK----LILLDEVDGIHGN 113
Score = 39.9 bits (94), Expect = 0.005
Identities = 16/23 (69%), Positives = 17/23 (73%)
Query: 204 PPKGCLLYGPPGTGKTLLARAVA 226
P K LLYGPPG GKT LA A+A
Sbjct: 38 PKKALLLYGPPGVGKTSLAHALA 60
>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 48.4 bits (116), Expect = 8e-06
Identities = 34/96 (35%), Positives = 49/96 (51%), Gaps = 22/96 (22%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDK-------YIGESA-----RLIREM 575
LL GP G+GKTLLA+ +A L+ F AI D Y+GE +L++
Sbjct: 101 LLIGPTGSGKTLLAQTLAKILNVPF------AIADATTLTEAGYVGEDVENILLKLLQAA 154
Query: 576 -FNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREI 610
++ R + II++DEID I R SE S R++
Sbjct: 155 DYDVERA-ERGIIYIDEIDKIA--RKSENPSITRDV 187
Score = 35.7 bits (83), Expect = 0.091
Identities = 35/131 (26%), Positives = 50/131 (38%), Gaps = 57/131 (43%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTY 268
LL GP G+GKTLLA+ +A L+
Sbjct: 101 LLIGPTGSGKTLLAQTLAKILNV------------------------------------- 123
Query: 269 FPFYSSAIVDK-------YIGESA-----RLIREM-FNYARNHQPCIIFMDEIDAIGGRR 315
PF AI D Y+GE +L++ ++ R + II++DEID I R
Sbjct: 124 -PF---AIADATTLTEAGYVGEDVENILLKLLQAADYDVERA-ERGIIYIDEIDKIA--R 176
Query: 316 FSEGTSADREI 326
SE S R++
Sbjct: 177 KSENPSITRDV 187
>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 = 48.8 bits (117), Expect = 9e-06
Identities = 55/191 (28%), Positives = 82/191 (42%), Gaps = 44/191 (23%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDK---------YIGE-SARLIREMFNY 578
L GPPG GKT L +++A L+ F++ + D+ Y+G R+I+ +
Sbjct: 352 LVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGHRRTYVGAMPGRIIQGL-KK 410
Query: 579 ARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELL--NQMDGFD--------SLG 628
A+ P + +DEID IG + SA L+E+L Q + F L
Sbjct: 411 AKTKNP-LFLLDEIDKIGSSFRGDPASA-------LLEVLDPEQNNAFSDHYLDVPFDLS 462
Query: 629 QVKMIMATNRPDTLDPALLRPGRLDRK--IEIPLPNEQARLEILKIHAGP--IAKHG--- 681
+V I N DT+ L LDR IE+ E+ +LEI K + P + HG
Sbjct: 463 KVIFIATANSIDTIPRPL-----LDRMEVIELSGYTEEEKLEIAKKYLIPKALEDHGLKP 517
Query: 682 ---EIGDAATK 689
+I D A
Sbjct: 518 DELKITDEALL 528
Score = 37.3 bits (87), Expect = 0.037
Identities = 64/274 (23%), Positives = 104/274 (37%), Gaps = 80/274 (29%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYF 269
L GPPG GKT L +++A L+ F++ + D A + G+ RR+
Sbjct: 352 LVGPPGVGKTSLGKSIAKALNRKFVRFS----LGGVRDEAEIRGH---RRT--------- 395
Query: 270 PFYSSAIVDKYIGE-SARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 328
Y+G R+I+ + A+ P + +DEID IG + SA
Sbjct: 396 ----------YVGAMPGRIIQGL-KKAKTKNP-LFLLDEIDKIGSSFRGDPASA------ 437
Query: 329 TLMELL--NQMDGFD--------SLGQVKMIMATNRPDTLDPALLRPGRLDRK--IEIP- 375
L+E+L Q + F L +V I N DT+ L LDR IE+
Sbjct: 438 -LLEVLDPEQNNAFSDHYLDVPFDLSKVIFIATANSIDTIPRPL-----LDRMEVIELSG 491
Query: 376 -LPNEQARLAHTWPISIHAGP--IAKHG------EIDYEAVVKLSDSFNGADLRNVCTEA 426
E+ +A + P + HG +I EA++ L ++ EA
Sbjct: 492 YTEEEKLEIAK-----KYLIPKALEDHGLKPDELKITDEALLLL--------IKYYTREA 538
Query: 427 GLFAIRSEREYVTQEDFMKAVRKVSDNKKLDHCN 460
G+ + + E + KA K+ + +
Sbjct: 539 GVRNLERQIEKI----CRKAAVKLVEQGEKKKSE 568
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 46.3 bits (111), Expect = 5e-05
Identities = 34/105 (32%), Positives = 45/105 (42%), Gaps = 40/105 (38%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVD-------KYIGES-----ARLIREM 575
LL GP G+GKTLLA+ +A LD F AI D Y+GE +L+
Sbjct: 112 LLIGPTGSGKTLLAQTLARILDVPF------AIADATTLTEAGYVGEDVENILLKLL--- 162
Query: 576 FNYARNHQPC----------IIFMDEIDAIGGRRFSEGTSADREI 610
Q I+++DEID I R SE S R++
Sbjct: 163 -------QAADYDVEKAQRGIVYIDEIDKIA--RKSENPSITRDV 198
Score = 34.7 bits (81), Expect = 0.14
Identities = 35/140 (25%), Positives = 46/140 (32%), Gaps = 75/140 (53%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTY 268
LL GP G+GKTLLA+ + A L V
Sbjct: 112 LLIGPTGSGKTLLAQTL-----ARILDV-------------------------------- 134
Query: 269 FPFYSSAIVD-------KYIGES-----ARLIREMFNYARNHQPC----------IIFMD 306
PF AI D Y+GE +L+ Q I+++D
Sbjct: 135 -PF---AIADATTLTEAGYVGEDVENILLKLL----------QAADYDVEKAQRGIVYID 180
Query: 307 EIDAIGGRRFSEGTSADREI 326
EID I R SE S R++
Sbjct: 181 EIDKIA--RKSENPSITRDV 198
>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 = 46.4 bits (110), Expect = 5e-05
Identities = 50/179 (27%), Positives = 73/179 (40%), Gaps = 26/179 (14%)
Query: 528 LLYGPPGTGKTLLARAVASQL-------DANFLKVVSSAIVDKYIGESARLIREMFNYAR 580
L GPPGTGKT +AR VA +V + ++ +YIGES E+ + A
Sbjct: 316 LFAGPPGTGKTTIARVVAKIYCGLGVLRKPLVREVSRADLIGQYIGESEAKTNEIIDSAL 375
Query: 581 NHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELL-NQMDGFDSLGQVKMIMATNRP 639
++F+DE + + + E TL+ + N D +I A R
Sbjct: 376 GG---VLFLDEAYTLVETGYGQKDPFGLEAIDTLLARMENDRDRL------VVIGAGYRK 426
Query: 640 DTLDPAL-----LRPGRLDRKIEIPLPNEQARLEILKIHAGPIAKHGEIGDAATKWVLP 693
D LD L LR R R IE P + +EI + A + + DAA +L
Sbjct: 427 D-LDKFLEVNEGLR-SRFTRVIEFPSYSPDELVEIARRMATE--RDSVLDDAAADALLE 481
Score = 40.2 bits (94), Expect = 0.004
Identities = 56/216 (25%), Positives = 79/216 (36%), Gaps = 48/216 (22%)
Query: 178 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 237
Q+ L+ + L E V T L GPPGTGKT +AR VA K+
Sbjct: 286 RQVAALKSSTAMALARAERGLPVAQTS-NHMLFAGPPGTGKTTIARVVA--------KIY 336
Query: 238 SSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARN 297
L V K + R + ++ +YIGES E+ + A
Sbjct: 337 CGLGVLRKPLV----------REVSR----------ADLIGQYIGESEAKTNEIIDSALG 376
Query: 298 HQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELL-NQMDGFDSLGQVKMIMATNRPD 356
++F+DE + + + E TL+ + N D +I A R D
Sbjct: 377 G---VLFLDEAYTLVETGYGQKDPFGLEAIDTLLARMENDRDRL------VVIGAGYRKD 427
Query: 357 TLDPAL-----LRPGRLDRKIEIP--LPNEQARLAH 385
LD L LR R R IE P P+E +A
Sbjct: 428 -LDKFLEVNEGLR-SRFTRVIEFPSYSPDELVEIAR 461
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 45.1 bits (107), Expect = 6e-05
Identities = 19/78 (24%), Positives = 33/78 (42%)
Query: 471 IRSEREYVTQEDFMKAVRKVSDNKKLESKLDYKPVIELPLLNPELFQRVGITPPKGCLLY 530
+ RE E +++ + E +++P I+ L + +L
Sbjct: 52 EKLAREARKIERRLRSASFPAKKTFEEFDFEFQPGIDKKALEDLASLVEFFERGENLVLL 111
Query: 531 GPPGTGKTLLARAVASQL 548
GPPG GKT LA A+ ++L
Sbjct: 112 GPPGVGKTHLAIAIGNEL 129
Score = 38.2 bits (89), Expect = 0.009
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 3/44 (6%)
Query: 205 PKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDM 248
+ +L GPPG GKT LA A+ ++L +S LF+T+ + +
Sbjct: 105 GENLVLLGPPGVGKTHLAIAIGNEL---LKAGISVLFITAPDLL 145
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 41.5 bits (98), Expect = 2e-04
Identities = 19/92 (20%), Positives = 36/92 (39%), Gaps = 16/92 (17%)
Query: 527 CLLYGPPGTGKTLLARAVASQLD---------------ANFLKVVSSAI-VDKYIGESAR 570
+L G G+GKT L R +A QL + L+ + A+ + G +A
Sbjct: 7 GVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPKDLLRKILRALGLPLSGGTTAE 66
Query: 571 LIREMFNYARNHQPCIIFMDEIDAIGGRRFSE 602
L+ + + + ++ +DE + E
Sbjct: 67 LLEAILDALKRRGRPLLIIDEAQHLSLEALEE 98
Score = 38.4 bits (90), Expect = 0.002
Identities = 21/115 (18%), Positives = 39/115 (33%), Gaps = 27/115 (23%)
Query: 208 CLLYGPPGTGKTLLARAVASQL-DANFLKVVSSLFVTSKE---DMAILMGNQLKRRSTHH 263
+L G G+GKT L R +A QL + + V + T K+ + +G L +T
Sbjct: 7 GVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPKDLLRKILRALGLPLSGGTTA- 65
Query: 264 LEKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSE 318
L+ + + + ++ +DE + E
Sbjct: 66 ----------------------ELLEAILDALKRRGRPLLIIDEAQHLSLEALEE 98
>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 = 41.4 bits (98), Expect = 2e-04
Identities = 14/26 (53%), Positives = 16/26 (61%)
Query: 208 CLLYGPPGTGKTLLARAVASQLDANF 233
LL G PG KTLLAR +A L +F
Sbjct: 2 VLLEGVPGLAKTLLARTLARSLGLDF 27
Score = 41.4 bits (98), Expect = 2e-04
Identities = 14/26 (53%), Positives = 16/26 (61%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANF 552
LL G PG KTLLAR +A L +F
Sbjct: 2 VLLEGVPGLAKTLLARTLARSLGLDF 27
>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 = 41.8 bits (99), Expect = 3e-04
Identities = 24/104 (23%), Positives = 40/104 (38%), Gaps = 24/104 (23%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSA--------IVDKYIGESARLIR-----E 574
L GP G GKT LA+A+A L + ++ V + IG + +
Sbjct: 7 LFLGPTGVGKTELAKALAELLFGDERALIRIDMSEYMEEHSVSRLIGAPPGYVGYEEGGQ 66
Query: 575 MFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELL 618
+ R I+ +DEI+ A +Q L+++L
Sbjct: 67 LTEAVRRKPYSIVLIDEIE-----------KAHPGVQNDLLQIL 99
Score = 37.6 bits (88), Expect = 0.008
Identities = 28/131 (21%), Positives = 47/131 (35%), Gaps = 43/131 (32%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTY 268
L GP G GKT LA+A+A L + ++ + DM+ M E+
Sbjct: 7 LFLGPTGVGKTELAKALAELLFGDERALI-------RIDMSEYM------------EEH- 46
Query: 269 FPFYSSAIVDKYIGESARLIR-----EMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSAD 323
V + IG + ++ R I+ +DEI+ A
Sbjct: 47 -------SVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSIVLIDEIE-----------KAH 88
Query: 324 REIQRTLMELL 334
+Q L+++L
Sbjct: 89 PGVQNDLLQIL 99
>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA
replication, recombination, and repair].
Length = 332
Score = 43.3 bits (103), Expect = 3e-04
Identities = 18/37 (48%), Positives = 25/37 (67%), Gaps = 1/37 (2%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDK 563
LL+GPPG GKT LA +A++L N LK+ S ++K
Sbjct: 55 VLLFGPPGLGKTTLAHIIANELGVN-LKITSGPALEK 90
Score = 42.2 bits (100), Expect = 7e-04
Identities = 14/26 (53%), Positives = 18/26 (69%)
Query: 208 CLLYGPPGTGKTLLARAVASQLDANF 233
LL+GPPG GKT LA +A++L N
Sbjct: 55 VLLFGPPGLGKTTLAHIIANELGVNL 80
>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional.
Length = 316
Score = 42.7 bits (101), Expect = 4e-04
Identities = 34/157 (21%), Positives = 62/157 (39%), Gaps = 38/157 (24%)
Query: 524 PKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARL--IR-EMFNYAR 580
P L PGTGKT +A+A+ +++ A L V G R+ +R + +A
Sbjct: 43 PNMLLHSPSPGTGKTTVAKALCNEVGAEVLFV---------NGSDCRIDFVRNRLTRFAS 93
Query: 581 ------NHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIM 634
+ +I +DE D G + + R+ ME + I+
Sbjct: 94 TVSLTGGGK--VIIIDEFD-------RLGLADAQRHLRSFMEAYS--------KNCSFII 136
Query: 635 ATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILK 671
N + + L R R I+ +P ++ ++E++K
Sbjct: 137 TANNKNGIIEPLR--SRC-RVIDFGVPTKEEQIEMMK 170
Score = 37.3 bits (87), Expect = 0.021
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 205 PKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSS 239
P L PGTGKT +A+A+ +++ A L V S
Sbjct: 43 PNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGS 77
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 42.4 bits (101), Expect = 6e-04
Identities = 15/31 (48%), Positives = 22/31 (70%), Gaps = 1/31 (3%)
Query: 208 CLLYGPPGTGKTLLARAVASQLDANFLKVVS 238
LLYGPPG GKT LA +A+++ N +++ S
Sbjct: 54 VLLYGPPGLGKTTLANIIANEMGVN-IRITS 83
Score = 42.4 bits (101), Expect = 6e-04
Identities = 15/31 (48%), Positives = 22/31 (70%), Gaps = 1/31 (3%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANFLKVVS 557
LLYGPPG GKT LA +A+++ N +++ S
Sbjct: 54 VLLYGPPGLGKTTLANIIANEMGVN-IRITS 83
>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 = 42.3 bits (100), Expect = 6e-04
Identities = 23/71 (32%), Positives = 37/71 (52%), Gaps = 10/71 (14%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMFNYARNHQPC- 585
LLYGPPG GKT LA +A+++ N LK+ S ++K ++ N +
Sbjct: 33 LLLYGPPGLGKTTLAHIIANEMGVN-LKITSGPALEK--------PGDLAAILTNLEEGD 83
Query: 586 IIFMDEIDAIG 596
++F+DEI +
Sbjct: 84 VLFIDEIHRLS 94
Score = 40.7 bits (96), Expect = 0.002
Identities = 17/31 (54%), Positives = 22/31 (70%), Gaps = 1/31 (3%)
Query: 208 CLLYGPPGTGKTLLARAVASQLDANFLKVVS 238
LLYGPPG GKT LA +A+++ N LK+ S
Sbjct: 33 LLLYGPPGLGKTTLAHIIANEMGVN-LKITS 62
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 42.0 bits (99), Expect = 0.001
Identities = 24/68 (35%), Positives = 37/68 (54%), Gaps = 8/68 (11%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANF--LKVVSSAIVD-KYIGESARLIREMFNYARNHQP 584
+LYGPPG GKT LAR +A+ A+F L V + + D + + A+ E +
Sbjct: 56 ILYGPPGVGKTTLARIIANHTRAHFSSLNAVLAGVKDLRAEVDRAKERLERHG-----KR 110
Query: 585 CIIFMDEI 592
I+F+DE+
Sbjct: 111 TILFIDEV 118
Score = 40.4 bits (95), Expect = 0.004
Identities = 16/32 (50%), Positives = 22/32 (68%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSSL 240
+LYGPPG GKT LAR +A+ A+F + + L
Sbjct: 56 ILYGPPGVGKTTLARIIANHTRAHFSSLNAVL 87
>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 = 39.2 bits (92), Expect = 0.001
Identities = 33/144 (22%), Positives = 54/144 (37%), Gaps = 36/144 (25%)
Query: 528 LLYGPPGTGKTLLARAVASQLD-ANFLKVV------SSAIVDKYI---GESARLIREMFN 577
LL GPPGTGK+ LA +A+ L V + + G ++ + +
Sbjct: 3 LLVGPPGTGKSELAERLAAALSNRPVFYVQLTRDTTEEDLKGRRNIDPGGASWVDGPLVR 62
Query: 578 YARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLN-----QMDGF----DSLG 628
AR I +DEI+ A+ ++ +L+ LL+ +G +
Sbjct: 63 AARE--GEIAVLDEIN-----------RANPDVLNSLLSLLDERRLLLPEGGELVKAAPD 109
Query: 629 QVKMIMATNRPDT----LDPALLR 648
++I N D L PAL
Sbjct: 110 GFRLIATMNPLDRGLNELSPALRS 133
Score = 36.9 bits (86), Expect = 0.007
Identities = 37/172 (21%), Positives = 60/172 (34%), Gaps = 57/172 (33%)
Query: 209 LLYGPPGTGKTLLARAVASQLD-ANFLKVVSSLFVTSKEDM--AILMGNQLKRRSTHHLE 265
LL GPPGTGK+ LA +A+ L V + T++ED+ +
Sbjct: 3 LLVGPPGTGKSELAERLAAALSNRPVFYVQLTRD-TTEEDLKGRRNIDPGGASW------ 55
Query: 266 KTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADRE 325
VD + +AR + I +DEI+ A+ +
Sbjct: 56 -----------VDGPLVRAAR------------EGEIAVLDEIN-----------RANPD 81
Query: 326 IQRTLMELLN-----QMDGF----DSLGQVKMIMATNRPDT----LDPALLR 364
+ +L+ LL+ +G + ++I N D L PAL
Sbjct: 82 VLNSLLSLLDERRLLLPEGGELVKAAPDGFRLIATMNPLDRGLNELSPALRS 133
>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 = 39.7 bits (94), Expect = 0.002
Identities = 16/37 (43%), Positives = 24/37 (64%), Gaps = 1/37 (2%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDK 563
LLYGPPG GKT LA +A+++ N ++ S ++K
Sbjct: 53 VLLYGPPGLGKTTLANIIANEMGVNI-RITSGPALEK 88
Score = 39.4 bits (93), Expect = 0.004
Identities = 14/26 (53%), Positives = 18/26 (69%)
Query: 208 CLLYGPPGTGKTLLARAVASQLDANF 233
LLYGPPG GKT LA +A+++ N
Sbjct: 53 VLLYGPPGLGKTTLANIIANEMGVNI 78
>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 = 37.6 bits (88), Expect = 0.003
Identities = 18/74 (24%), Positives = 28/74 (37%), Gaps = 18/74 (24%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIV-----DKYIGESARLIREMFNYARN 581
LYGPPG GK+ LA+ +A L + ++ D + Y
Sbjct: 1 IWLYGPPGCGKSTLAKYLARALLKHLGLPKKDSVYSRNPDDDF----------WDGY--T 48
Query: 582 HQPCIIFMDEIDAI 595
QP +I +D+
Sbjct: 49 GQPVVI-IDDFGQN 61
Score = 34.9 bits (81), Expect = 0.024
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 208 CLLYGPPGTGKTLLARAVASQL-DANFLKVVSSLFVTSKED 247
LYGPPG GK+ LA+ +A L L S++ + +D
Sbjct: 1 IWLYGPPGCGKSTLAKYLARALLKHLGLPKKDSVYSRNPDD 41
>gnl|CDD|214396 CHL00206, ycf2, Ycf2; Provisional.
Length = 2281
Score = 40.7 bits (95), Expect = 0.003
Identities = 42/188 (22%), Positives = 82/188 (43%), Gaps = 22/188 (11%)
Query: 199 RVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSK------EDMAILM 252
R+ ++P +G L+ G GTG++ L + +A+ F+ V + F+ +K +D+ I
Sbjct: 1624 RLALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFLIDDIDIDD 1683
Query: 253 GNQLKRRS--THHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDA 310
+ + L+ ++ +D I F A+ PCII++ I
Sbjct: 1684 SDDIDDSDDIDRDLDTELLTMMNALTMDMMPKIDRFYITLQFELAKAMSPCIIWIPNIHD 1743
Query: 311 IGGRRFSEGTSADREIQRTLMELLNQMDGFD----SLGQVKMIMATNRPDTLDPALLRPG 366
+ + + +L L+N + D S + +I +T+ P +DPAL+ P
Sbjct: 1744 L---------NVNESNYLSLGLLVNSL-SRDCERCSTRNILVIASTHIPQKVDPALIAPN 1793
Query: 367 RLDRKIEI 374
+L+ I+I
Sbjct: 1794 KLNTCIKI 1801
Score = 34.1 bits (78), Expect = 0.35
Identities = 37/197 (18%), Positives = 70/197 (35%), Gaps = 75/197 (38%)
Query: 518 RVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMFN 577
R+ ++P +G L+ G GTG++ L + +A+ F+ V + +D
Sbjct: 1624 RLALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDN-------------- 1669
Query: 578 YARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLN--------QMDGFD---- 625
+P +D+ID + DR++ L+ ++N ++D F
Sbjct: 1670 -----KPKGFLIDDIDIDDSDDIDDSDDIDRDLDTELLTMMNALTMDMMPKIDRFYITLQ 1724
Query: 626 ----------------------------SLGQVK----------------MIMATNRPDT 641
SLG + +I +T+ P
Sbjct: 1725 FELAKAMSPCIIWIPNIHDLNVNESNYLSLGLLVNSLSRDCERCSTRNILVIASTHIPQK 1784
Query: 642 LDPALLRPGRLDRKIEI 658
+DPAL+ P +L+ I+I
Sbjct: 1785 VDPALIAPNKLNTCIKI 1801
>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated.
Length = 268
Score = 39.2 bits (92), Expect = 0.004
Identities = 14/31 (45%), Positives = 20/31 (64%)
Query: 207 GCLLYGPPGTGKTLLARAVASQLDANFLKVV 237
G LL+G GTGKT LA +A++L + V+
Sbjct: 116 GLLLWGSVGTGKTYLAACIANELIEKGVPVI 146
Score = 39.2 bits (92), Expect = 0.004
Identities = 14/31 (45%), Positives = 20/31 (64%)
Query: 526 GCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
G LL+G GTGKT LA +A++L + V+
Sbjct: 116 GLLLWGSVGTGKTYLAACIANELIEKGVPVI 146
>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 = 39.5 bits (93), Expect = 0.004
Identities = 19/52 (36%), Positives = 24/52 (46%), Gaps = 9/52 (17%)
Query: 178 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQL 229
EQI EL + L P L G P +YG GTGKT + + V +L
Sbjct: 22 EQIEELAK-----ALRPILR---GSRPSN-VFIYGKTGTGKTAVTKYVMKEL 64
Score = 37.2 bits (87), Expect = 0.028
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 523 PPKGCLLYGPPGTGKTLLARAVASQL 548
P +YG GTGKT + + V +L
Sbjct: 39 RPSNVFIYGKTGTGKTAVTKYVMKEL 64
>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA
replication, recombination, and repair /
Posttranslational modification, protein turnover,
chaperones].
Length = 366
Score = 39.6 bits (93), Expect = 0.005
Identities = 28/136 (20%), Positives = 47/136 (34%), Gaps = 35/136 (25%)
Query: 524 PKGCLLYGPPGTGKTLLARAVASQLDANFLKV---------------VSSAIVDKYIGES 568
P ++YGP GTGKT + V +L+ + V V S I++K
Sbjct: 42 PSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLGKVP 101
Query: 569 ARLIR--EMFNYARNHQPC-----IIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQM 621
E+ ++ I+ +DE+DA+ + L LL
Sbjct: 102 LTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKD-----------GEVLYSLLRAP 150
Query: 622 DGFDSLGQVKMIMATN 637
+V +I +N
Sbjct: 151 GENKV--KVSIIAVSN 164
Score = 38.5 bits (90), Expect = 0.010
Identities = 17/71 (23%), Positives = 25/71 (35%), Gaps = 10/71 (14%)
Query: 159 NMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGK 218
N I + E+I +L + L P ++YGP GTGK
Sbjct: 6 NKDVLLEDYIP-EELPHREEEINQLASFLAPALRGE---------RPSNIIIYGPTGTGK 55
Query: 219 TLLARAVASQL 229
T + V +L
Sbjct: 56 TATVKFVMEEL 66
>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 39.5 bits (93), Expect = 0.007
Identities = 58/192 (30%), Positives = 83/192 (43%), Gaps = 48/192 (25%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDK---------YIGE-SARLIREMFN 577
L GPPG GKT L +++A L F+++ + D+ YIG ++I+ M
Sbjct: 354 CLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHRRTYIGAMPGKIIQGM-K 412
Query: 578 YARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELL----NQ--MD-----GFDS 626
A P + +DEID +G + SA L+E+L N D +D
Sbjct: 413 KAGVKNP-VFLLDEIDKMGSSFRGDPASA-------LLEVLDPEQNNTFSDHYLEVPYD- 463
Query: 627 LGQVKMIMAT-NRPDTLDPALLRPGRLDR--KIEIPLPNEQARLEILKIHAGP--IAKHG 681
L +V M +AT N DT+ L LDR I + E +LEI K H P + +HG
Sbjct: 464 LSKV-MFIATANSLDTIPAPL-----LDRMEVIRLSGYTEDEKLEIAKRHLIPKQLKEHG 517
Query: 682 ------EIGDAA 687
I D A
Sbjct: 518 LKKGELTITDEA 529
Score = 36.0 bits (84), Expect = 0.073
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKV 236
L GPPG GKT L +++A L F+++
Sbjct: 354 CLVGPPGVGKTSLGKSIAKALGRKFVRI 381
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 39.4 bits (92), Expect = 0.008
Identities = 22/87 (25%), Positives = 44/87 (50%), Gaps = 3/87 (3%)
Query: 8 EVRHKTLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHC 67
R + + +KL E ++E L ++RE+L+EL K+ + E ++ L+S L
Sbjct: 674 LQRIENEEQLEEKLEELEQLEEELEQLREELEELLKKLGEIEQLIEELESRKAE---LEE 730
Query: 68 VREQLKELTKQYDKSENDLKALQSVGQ 94
++++L++L K + E + L G
Sbjct: 731 LKKELEKLEKALELLEELREKLGKAGL 757
Score = 33.2 bits (76), Expect = 0.54
Identities = 10/55 (18%), Positives = 24/55 (43%)
Query: 25 AEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQY 79
+ L E++++L++L K + E + L G +L + Q++ +
Sbjct: 722 ESRKAELEELKKELEKLEKALELLEELREKLGKAGLRADILRNLLAQIEAEANEI 776
Score = 30.9 bits (70), Expect = 3.4
Identities = 17/83 (20%), Positives = 37/83 (44%), Gaps = 3/83 (3%)
Query: 8 EVRHKTLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHC 67
E + L++ ++L E L E E L+ L ++ ++ LK+L+ +
Sbjct: 280 ERLLEELEEKIERLEELEREIEELEEELEGLRALLEELEELLEKLKSLEERLEKLEEKL- 338
Query: 68 VREQLKELTKQYDKSENDLKALQ 90
E+L+ ++ + +N+L L
Sbjct: 339 --EKLESELEELAEEKNELAKLL 359
>gnl|CDD|223505 COG0428, COG0428, Predicted divalent heavy-metal cations
transporter [Inorganic ion transport and metabolism].
Length = 266
Score = 38.1 bits (89), Expect = 0.010
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 1/51 (1%)
Query: 690 WVLPFTAGGFIYIATVSVIPELLEDTSPKQTVKEILALLLGVFMMVIIATF 740
+ L F AG +Y+ ++PE + L G +M ++
Sbjct: 214 FALAFAAGAMVYVVVDELLPEAKRHGGGSE-KLATAGLFAGFLVMAVLDVL 263
>gnl|CDD|223666 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA
replication, recombination, and repair].
Length = 408
Score = 38.0 bits (89), Expect = 0.014
Identities = 35/157 (22%), Positives = 68/157 (43%), Gaps = 26/157 (16%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANF--LKVVSSAIVDKYIGESARLIRE--MFNYARNHQ 583
+YG G GKT L +A+ ++ AN +VV D + + + +R+ M + +
Sbjct: 117 FIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSED-FTNDFVKALRDNEMEKFKEKYS 175
Query: 584 PCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPD--- 640
++ +D+I + G Q N + ++ Q+ ++ ++RP
Sbjct: 176 LDLLLIDDIQFLAG---------KERTQEEFFHTFNAL--LENGKQI--VLTSDRPPKEL 222
Query: 641 -TLDPALLRPGRLDR--KIEIPLPNEQARLEILKIHA 674
L+ L RL+ +EI P+++ RL IL+ A
Sbjct: 223 NGLEDRLRS--RLEWGLVVEIEPPDDETRLAILRKKA 257
Score = 33.4 bits (77), Expect = 0.48
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 6/62 (9%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANF--LKVV---SSLFVTSKEDMAILMGNQLKRRSTHH 263
+YG G GKT L +A+ ++ AN +VV S F T+ A+ K + +
Sbjct: 117 FIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDF-TNDFVKALRDNEMEKFKEKYS 175
Query: 264 LE 265
L+
Sbjct: 176 LD 177
>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 = 36.7 bits (86), Expect = 0.015
Identities = 40/169 (23%), Positives = 60/169 (35%), Gaps = 62/169 (36%)
Query: 197 FQRVGITPPKGCLLY----------------GPPGTGKTLLARAVASQLDANFLKVVSSL 240
+ + + P G +L GP GTGK+ L RA+A L S
Sbjct: 3 LENLSLATPDGRVLLKDLSFEIKPGDRLLITGPSGTGKSSLFRALAG------LWPWGSG 56
Query: 241 FVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYS--SAIVDKY-------IGESARLIREM 291
+ E +L Q + Y P + ++ Y GE RL
Sbjct: 57 RIGMPEGEDLLFLPQ----------RPYLPLGTLREQLI--YPWDDVLSGGEQQRL---- 100
Query: 292 FNYARN--HQPCIIFMDEIDAIGGRRFSEGTSA-DREIQRTLMELLNQM 337
+AR H+P +F+D E TSA D E + L +LL ++
Sbjct: 101 -AFARLLLHKPKFVFLD-----------EATSALDEESEDRLYQLLKEL 137
Score = 34.1 bits (79), Expect = 0.11
Identities = 37/158 (23%), Positives = 52/158 (32%), Gaps = 75/158 (47%)
Query: 516 FQRVGITPPKGCLLY----------------GPPGTGKTLLARAVA-------------S 546
+ + + P G +L GP GTGK+ L RA+A
Sbjct: 3 LENLSLATPDGRVLLKDLSFEIKPGDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPE 62
Query: 547 QLDANFL--------------------KVVSSAIVDKYIGESARLIREMFNYARN--HQP 584
D FL V+S GE RL +AR H+P
Sbjct: 63 GEDLLFLPQRPYLPLGTLREQLIYPWDDVLSG-------GEQQRL-----AFARLLLHKP 110
Query: 585 CIIFMDEIDAIGGRRFSEGTSA-DREIQRTLMELLNQM 621
+F+D E TSA D E + L +LL ++
Sbjct: 111 KFVFLD-----------EATSALDEESEDRLYQLLKEL 137
>gnl|CDD|202833 pfam03962, Mnd1, Mnd1 family. This family of proteins includes
MND1 from S. cerevisiae. The mnd1 protein forms a
complex with hop2 to promote homologous chromosome
pairing and meiotic double-strand break repair.
Length = 188
Score = 36.8 bits (86), Expect = 0.017
Identities = 18/79 (22%), Positives = 42/79 (53%), Gaps = 5/79 (6%)
Query: 15 QDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLL--LHCVREQL 72
Q K T +++ L E+++++ EL Q +K + ++ + +LL L + ++L
Sbjct: 62 QALNKLKTRLEKLKKELEELKQRIAELQAQIEKLKK--GREETEERTELLEELKQLEKEL 119
Query: 73 KELTKQYDK-SENDLKALQ 90
K+L + +K +ND + ++
Sbjct: 120 KKLKAELEKYEKNDPERIE 138
>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 = 36.7 bits (86), Expect = 0.019
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 209 LLYGPPGTGKTLLARAVASQL 229
L+ GPPG+GKT+LA+ + L
Sbjct: 26 LMIGPPGSGKTMLAKRLPGIL 46
Score = 36.7 bits (86), Expect = 0.019
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 528 LLYGPPGTGKTLLARAVASQL 548
L+ GPPG+GKT+LA+ + L
Sbjct: 26 LMIGPPGSGKTMLAKRLPGIL 46
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 37.8 bits (88), Expect = 0.026
Identities = 20/91 (21%), Positives = 45/91 (49%), Gaps = 9/91 (9%)
Query: 7 DEVRHKTLQDYRKKLTEHAEVEGRLREMREQLKELTKQ------YDKSENDLKALQ-SVG 59
E + + + + +E L E+ +QL++L +Q Y + + +L+ L+ ++
Sbjct: 171 KERKEEAERKLERTEENLERLEDLLEELEKQLEKLERQAEKAERYQELKAELRELELALL 230
Query: 60 QHDLLLHCVREQLKELTKQYDKSENDLKALQ 90
L R++L+EL ++ + E +L+ LQ
Sbjct: 231 LAKLKEL--RKELEELEEELSRLEEELEELQ 259
Score = 31.2 bits (71), Expect = 2.4
Identities = 22/93 (23%), Positives = 45/93 (48%), Gaps = 8/93 (8%)
Query: 6 VDEVRHKTLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQS-------- 57
+ E + ++ + E E+EG + +RE+L+EL + ++ E L+ L+
Sbjct: 279 LREELEELQEELLELKEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEE 338
Query: 58 VGQHDLLLHCVREQLKELTKQYDKSENDLKALQ 90
+ + + LL + + L EL + ++ E L AL
Sbjct: 339 LEERETLLEELEQLLAELEEAKEELEEKLSALL 371
Score = 30.5 bits (69), Expect = 4.8
Identities = 18/69 (26%), Positives = 37/69 (53%), Gaps = 13/69 (18%)
Query: 26 EVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQYDKSEND 85
E+E L E++E+L+EL + ++ E++LK L E+ +EL ++ + E++
Sbjct: 853 ELEKELEELKEELEELEAEKEELEDELKEL-------------EEEKEELEEELRELESE 899
Query: 86 LKALQSVGQ 94
L L+ +
Sbjct: 900 LAELKEEIE 908
>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 = 35.9 bits (83), Expect = 0.028
Identities = 27/128 (21%), Positives = 46/128 (35%), Gaps = 10/128 (7%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTY 268
L++GP G+GKT LA +A + KVV +V +E++ L + L+
Sbjct: 3 LVFGPTGSGKTTLALQLALNIATKGGKVV---YVDIEEEIEELTERLIGESLKGALDNLI 59
Query: 269 FPFYSSAIVDKYIGESARLIREMFNYARNHQPC-IIFMDEIDAIGGRRFSEGTSADREIQ 327
+ +A + R +I +DE+ + E+
Sbjct: 60 I------VFATADDPAAARLLSKAERLRERGGDDLIILDELTRLVRALREIREGYPGELD 113
Query: 328 RTLMELLN 335
L ELL
Sbjct: 114 EELRELLE 121
Score = 32.1 bits (73), Expect = 0.54
Identities = 26/119 (21%), Positives = 40/119 (33%), Gaps = 27/119 (22%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVV-------SSAIVDKYIGESA----------- 569
L++GP G+GKT LA +A + KVV + ++ IGES
Sbjct: 3 LVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVF 62
Query: 570 --------RLIREMFNYARNHQPC-IIFMDEIDAIGGRRFSEGTSADREIQRTLMELLN 619
+ R +I +DE+ + E+ L ELL
Sbjct: 63 ATADDPAAARLLSKAERLRERGGDDLIILDELTRLVRALREIREGYPGELDEELRELLE 121
>gnl|CDD|235871 PRK06835, PRK06835, DNA replication protein DnaC; Validated.
Length = 329
Score = 36.8 bits (86), Expect = 0.029
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 5/56 (8%)
Query: 203 TPPKGCLLYGPPGTGKTLLARAVASQL-DANFLKVVSSLFVTSKEDMAILMGNQLK 257
+ L YG GTGKT L+ +A +L D S ++ T+ E + IL +
Sbjct: 181 KNNENLLFYGNTGTGKTFLSNCIAKELLDRGK----SVIYRTADELIEILREIRFN 232
Score = 34.9 bits (81), Expect = 0.13
Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 522 TPPKGCLLYGPPGTGKTLLARAVASQL-DANFL 553
+ L YG GTGKT L+ +A +L D
Sbjct: 181 KNNENLLFYGNTGTGKTFLSNCIAKELLDRGKS 213
>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 = 37.1 bits (86), Expect = 0.030
Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 209 LLYGPPGTGKTLLARAVASQL-DANFLKVVSSLFVTSKEDMAILMGNQLKR--RSTHH 263
LL+GPPG+GKT+LA + L + + + + S I +R RS HH
Sbjct: 215 LLFGPPGSGKTMLASRLQGILPPLTNEEAIETARIWSLVGKLIDRKQIKQRPFRSPHH 272
Score = 32.9 bits (75), Expect = 0.74
Identities = 13/35 (37%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 528 LLYGPPGTGKTLLARAVASQL-DANFLKVVSSAIV 561
LL+GPPG+GKT+LA + L + + +A +
Sbjct: 215 LLFGPPGSGKTMLASRLQGILPPLTNEEAIETARI 249
>gnl|CDD|219186 pfam06810, Phage_GP20, Phage minor structural protein GP20. This
family consists of several phage minor structural
protein GP20 sequences of around 180 residues in
length. The function of this family is unknown.
Length = 156
Score = 35.4 bits (82), Expect = 0.032
Identities = 14/84 (16%), Positives = 37/84 (44%), Gaps = 15/84 (17%)
Query: 6 VDEVRHKTLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQ-SVGQHDLL 64
+ K +Q+ + KL + E+ L KQ + ++ L+ V ++ L
Sbjct: 7 IMAEYGKDIQNPKSKLDK----------ANEERDSLKKQLKNRDKQIEDLKKKVKDNEEL 56
Query: 65 LHCVREQLKELTKQYDKSENDLKA 88
++++++L +Q ++ + +A
Sbjct: 57 ----QKKIEKLKQQNKTAKEEYEA 76
Score = 29.6 bits (67), Expect = 3.4
Identities = 11/44 (25%), Positives = 28/44 (63%)
Query: 10 RHKTLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLK 53
R K ++D +KK+ ++ E++ ++ ++++Q K ++Y+ D K
Sbjct: 39 RDKQIEDLKKKVKDNEELQKKIEKLKQQNKTAKEEYEAKLADTK 82
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 36.9 bits (86), Expect = 0.040
Identities = 18/38 (47%), Positives = 24/38 (63%), Gaps = 2/38 (5%)
Query: 525 KGCLLYGPPGTGKTLLARAVASQL--DANFLKVVSSAI 560
+G L+ GPPGTGKT LA +A +L D F+ + S I
Sbjct: 66 RGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEI 103
Score = 35.8 bits (83), Expect = 0.088
Identities = 17/36 (47%), Positives = 23/36 (63%), Gaps = 2/36 (5%)
Query: 206 KGCLLYGPPGTGKTLLARAVASQL--DANFLKVVSS 239
+G L+ GPPGTGKT LA +A +L D F+ + S
Sbjct: 66 RGILIVGPPGTGKTALAMGIARELGEDVPFVAISGS 101
>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 = 36.0 bits (84), Expect = 0.047
Identities = 32/152 (21%), Positives = 59/152 (38%), Gaps = 28/152 (18%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYI--GESARLIREMFNYARNHQPCI 586
L+G G+GK+ L +A + + + Y+ E A+ E+ +
Sbjct: 43 LWGESGSGKSHLLQAACAAAEERGKSAI-------YLPLAELAQADPEVLEGLEQAD--L 93
Query: 587 IFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPAL 646
+ +D+++AI G E Q L L N++ G +I P L L
Sbjct: 94 VCLDDVEAIAG---------QPEWQEALFHLYNRV---REAGGRLLIAGRAAPAQLPLRL 141
Query: 647 --LRPGRLDR--KIEIPLPNEQARLEILKIHA 674
LR RL ++P +++ ++ L+ A
Sbjct: 142 PDLR-TRLAWGLVFQLPPLSDEEKIAALQSRA 172
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 34.2 bits (78), Expect = 0.058
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFL 234
L+ GPPG+GK+ LA+ +A +L +
Sbjct: 3 LITGPPGSGKSTLAKKLAEKLGIPVI 28
Score = 34.2 bits (78), Expect = 0.058
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFL 553
L+ GPPG+GK+ LA+ +A +L +
Sbjct: 3 LITGPPGSGKSTLAKKLAEKLGIPVI 28
>gnl|CDD|153271 cd07307, BAR, The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization
module that binds membranes and detects membrane
curvature. BAR domains are dimerization, lipid binding
and curvature sensing modules found in many different
proteins with diverse functions including organelle
biogenesis, membrane trafficking or remodeling, and cell
division and migration. Mutations in BAR containing
proteins have been linked to diseases and their
inactivation in cells leads to altered membrane
dynamics. A BAR domain with an additional N-terminal
amphipathic helix (an N-BAR) can drive membrane
curvature. These N-BAR domains are found in amphiphysins
and endophilins, among others. BAR domains are also
frequently found alongside domains that determine lipid
specificity, such as the Pleckstrin Homology (PH) and
Phox Homology (PX) domains which are present in beta
centaurins (ACAPs and ASAPs) and sorting nexins,
respectively. A FES-CIP4 Homology (FCH) domain together
with a coiled coil region is called the F-BAR domain and
is present in Pombe/Cdc15 homology (PCH) family
proteins, which include Fes/Fes tyrosine kinases, PACSIN
or syndapin, CIP4-like proteins, and srGAPs, among
others. The Inverse (I)-BAR or IRSp53/MIM homology
Domain (IMD) is found in multi-domain proteins, such as
IRSp53 and MIM, that act as scaffolding proteins and
transducers of a variety of signaling pathways that link
membrane dynamics and the underlying actin cytoskeleton.
BAR domains form dimers that bind to membranes, induce
membrane bending and curvature, and may also be involved
in protein-protein interactions. The I-BAR domain
induces membrane protrusions in the opposite direction
compared to classical BAR and F-BAR domains, which
produce membrane invaginations. BAR domains that also
serve as protein interaction domains include those of
arfaptin and OPHN1-like proteins, among others, which
bind to Rac and Rho GAP domains, respectively.
Length = 194
Score = 35.5 bits (82), Expect = 0.058
Identities = 18/90 (20%), Positives = 40/90 (44%), Gaps = 13/90 (14%)
Query: 11 HKTLQDYRKKLTEHAEVE-------------GRLREMREQLKELTKQYDKSENDLKALQS 57
K L+++R +L + E + +++ R++L + YD + LK L+
Sbjct: 63 QKELEEFRDQLEQKLENKVIEPLKEYLKKDLKEIKKRRKKLDKARLDYDAAREKLKKLRK 122
Query: 58 VGQHDLLLHCVREQLKELTKQYDKSENDLK 87
+ L E+L+E ++Y++ +L
Sbjct: 123 KKKDSSKLAEAEEELQEAKEKYEELREELI 152
>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P. syringae 6; Provisional.
Length = 1153
Score = 36.4 bits (84), Expect = 0.061
Identities = 53/219 (24%), Positives = 85/219 (38%), Gaps = 59/219 (26%)
Query: 175 GLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFL 234
G+ + I ++ ++ L E + VGI +G G GKT +ARA+ S+L F
Sbjct: 188 GIEDHIAKMSSLLHL---ESEEVRMVGI--------WGSSGIGKTTIARALFSRLSRQFQ 236
Query: 235 KVVSSLFV----TSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDK------YIGES 284
SS+F+ SK N HL++ + S I+DK ++G
Sbjct: 237 ---SSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFL----SEILDKKDIKIYHLGA- 288
Query: 285 ARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLG 344
+ E H+ +IF+D++D Q L L Q F S
Sbjct: 289 ---MEERL----KHRKVLIFIDDLDD----------------QDVLDALAGQTQWFGSGS 325
Query: 345 QVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARL 383
++ +I T D LR +D E+ LP+ + L
Sbjct: 326 RIIVI-------TKDKHFLRAHGIDHIYEVCLPSNELAL 357
Score = 33.7 bits (77), Expect = 0.40
Identities = 41/157 (26%), Positives = 70/157 (44%), Gaps = 23/157 (14%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMFNYAR------NH 582
++G G GKT +ARA+ S+L F SS +D+ A + + M Y+ N
Sbjct: 212 IWGSSGIGKTTIARALFSRLSRQFQ---SSVFIDR-----AFISKSMEIYSSANPDDYNM 263
Query: 583 QPCI--IFMDEI-DAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSL----GQVKMIMA 635
+ + F+ EI D + + G +R R ++ ++ +D D L GQ + +
Sbjct: 264 KLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGS 323
Query: 636 TNR--PDTLDPALLRPGRLDRKIEIPLPNEQARLEIL 670
+R T D LR +D E+ LP+ + LE+
Sbjct: 324 GSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMF 360
>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 = 36.2 bits (84), Expect = 0.074
Identities = 18/73 (24%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 18 RKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQS-VGQHDLLLHCVREQLKELT 76
+ E E+E LR++ +L +L K+ D+ E L+ L+ + + + + R++L EL
Sbjct: 864 EELEEELEELEAALRDLESRLGDLKKERDELEAQLRELERKIEELEAQIEKKRKRLSELK 923
Query: 77 KQYDKSENDLKAL 89
+ + E +L +
Sbjct: 924 AKLEALEEELSEI 936
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 35.1 bits (81), Expect = 0.086
Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 205 PKGC--LLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGN 254
P+G L+ GPPGTGKT+ A + V L+V+++E L+ N
Sbjct: 21 PRGSVVLITGPPGTGKTIFALQFLYEGAREGEPV---LYVSTEESPEELLEN 69
Score = 33.6 bits (77), Expect = 0.29
Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 11/58 (18%)
Query: 524 PKGC--LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYI--GESARLIREMFN 577
P+G L+ GPPGTGKT+ A + V+ Y+ ES + E
Sbjct: 21 PRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVL-------YVSTEESPEELLENAR 71
>gnl|CDD|234751 PRK00411, cdc6, cell division control protein 6; Reviewed.
Length = 394
Score = 35.6 bits (83), Expect = 0.088
Identities = 24/60 (40%), Positives = 30/60 (50%), Gaps = 9/60 (15%)
Query: 178 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 237
EQI EL + P L G P L+YGPPGTGKT + V +L+ +KVV
Sbjct: 37 EQIEELAFALR-PALR-------GSRPLN-VLIYGPPGTGKTTTVKKVFEELEEIAVKVV 87
Score = 31.7 bits (73), Expect = 1.3
Identities = 15/30 (50%), Positives = 20/30 (66%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANFLKVV 556
L+YGPPGTGKT + V +L+ +KVV
Sbjct: 58 VLIYGPPGTGKTTTVKKVFEELEEIAVKVV 87
>gnl|CDD|223775 COG0703, AroK, Shikimate kinase [Amino acid transport and
metabolism].
Length = 172
Score = 34.5 bits (80), Expect = 0.093
Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 13/71 (18%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFL----------KVVSSAIVDKYIGESA--RLIREMF 576
L G G GK+ + RA+A L+ F+ + + I ++ GE RL E+
Sbjct: 7 LIGFMGAGKSTIGRALAKALNLPFIDTDQEIEKRTGMSIAEIFEEE-GEEGFRRLETEVL 65
Query: 577 NYARNHQPCII 587
+I
Sbjct: 66 KELLEEDNAVI 76
Score = 31.8 bits (73), Expect = 0.78
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFL 234
L G G GK+ + RA+A L+ F+
Sbjct: 7 LIGFMGAGKSTIGRALAKALNLPFI 31
>gnl|CDD|215031 PLN00020, PLN00020, ribulose bisphosphate carboxylase/oxygenase
activase -RuBisCO activase (RCA); Provisional.
Length = 413
Score = 35.5 bits (82), Expect = 0.098
Identities = 41/172 (23%), Positives = 74/172 (43%), Gaps = 42/172 (24%)
Query: 504 PVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSA--IV 561
P I++PL+ +GI KG GK+ V ++ +V SA +
Sbjct: 143 PNIKVPLI-------LGIWGGKGQ--------GKSFQCELVFKKMGIE--PIVMSAGELE 185
Query: 562 DKYIGESARLIREMFNYARNH-----QPCIIFMDEIDAIGGR-RFSEGTSADREIQRTLM 615
+ GE +LIR+ + A + + +F++++DA GR ++ T ++ + TLM
Sbjct: 186 SENAGEPGKLIRQRYREAADIIKKKGKMSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLM 245
Query: 616 ELL---NQMDGFDSLGQ----------VKMIMATNRPDTLDPALLRPGRLDR 654
+ + SLG V +I+ N TL L+R GR+++
Sbjct: 246 NIADNPTNV----SLGGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEK 293
Score = 32.0 bits (73), Expect = 1.2
Identities = 27/108 (25%), Positives = 50/108 (46%), Gaps = 23/108 (21%)
Query: 282 GESARLIREMFNYARNH-----QPCIIFMDEIDAIGGR-RFSEGTSADREIQRTLMELL- 334
GE +LIR+ + A + + +F++++DA GR ++ T ++ + TLM +
Sbjct: 190 GEPGKLIRQRYREAADIIKKKGKMSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIAD 249
Query: 335 --NQMDGFDSLGQ----------VKMIMATNRPDTLDPALLRPGRLDR 370
+ SLG V +I+ N TL L+R GR+++
Sbjct: 250 NPTNV----SLGGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEK 293
>gnl|CDD|213250 cd03283, ABC_MutS-like, ATP-binding cassette domain of MutS-like
homolog. The MutS protein initiates DNA mismatch repair
by recognizing mispaired and unpaired bases embedded in
duplex DNA and activating endo- and exonucleases to
remove the mismatch. Members of the MutS family possess
C-terminal domain with a conserved ATPase activity that
belongs to the ATP binding cassette (ABC) superfamily.
MutS homologs (MSH) have been identified in most
prokaryotic and all eukaryotic organisms examined.
Prokaryotes have two homologs (MutS1 and MutS2), whereas
seven MSH proteins (MSH1 to MSH7) have been identified
in eukaryotes. The homodimer MutS1 and heterodimers
MSH2-MSH3 and MSH2-MSH6 are primarily involved in
mitotic mismatch repair, whereas MSH4-MSH5 is involved
in resolution of Holliday junctions during meiosis. All
members of the MutS family contain the highly conserved
Walker A/B ATPase domain, and many share a common
mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and
MSH4-MSH5 dimerize to form sliding clamps, and
recognition of specific DNA structures or lesions
results in ADP/ATP exchange.
Length = 199
Score = 34.6 bits (80), Expect = 0.099
Identities = 30/133 (22%), Positives = 51/133 (38%), Gaps = 29/133 (21%)
Query: 509 PLLNPELFQRVG----ITPPKGCLLYGPPGTGKTLLARAV--------------ASQLDA 550
PL+ E +RV + G L+ G +GK+ R + AS +
Sbjct: 8 PLIGRE--KRVANDIDMEKKNGILITGSNMSGKSTFLRTIGVNVILAQAGAPVCASSFEL 65
Query: 551 NFLKVVSSAIV--DKYIGES-----ARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEG 603
+K+ +S V D G S R ++E+ A+ +P + +DEI G E
Sbjct: 66 PPVKIFTSIRVSDDLRDGISYFYAELRRLKEIVEKAKKGEPVLFLLDEI--FKGTNSRER 123
Query: 604 TSADREIQRTLME 616
+A + + L
Sbjct: 124 QAASAAVLKFLKN 136
>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 = 34.5 bits (80), Expect = 0.11
Identities = 12/21 (57%), Positives = 13/21 (61%)
Query: 209 LLYGPPGTGKTLLARAVASQL 229
L GP G GK LLA A+A L
Sbjct: 18 LFAGPEGVGKELLALALAKAL 38
Score = 34.5 bits (80), Expect = 0.11
Identities = 12/21 (57%), Positives = 13/21 (61%)
Query: 528 LLYGPPGTGKTLLARAVASQL 548
L GP G GK LLA A+A L
Sbjct: 18 LFAGPEGVGKELLALALAKAL 38
>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 = 35.1 bits (81), Expect = 0.11
Identities = 21/68 (30%), Positives = 35/68 (51%), Gaps = 10/68 (14%)
Query: 531 GPPGTGKTLLARAVASQL-------DANFLKVVSSAIVDKYIGESARLIREMFNYARNHQ 583
G PGTGKT +AR + + ++V + +V +YIG +A+ RE+ A
Sbjct: 49 GNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERADLVGEYIGHTAQKTREVIKKA---L 105
Query: 584 PCIIFMDE 591
++F+DE
Sbjct: 106 GGVLFIDE 113
>gnl|CDD|224141 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 444
Score = 35.3 bits (82), Expect = 0.11
Identities = 22/51 (43%), Positives = 29/51 (56%), Gaps = 3/51 (5%)
Query: 191 LLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLF 241
L EL R +TP K L+ GP G GKT +AR +A A F+KV ++ F
Sbjct: 39 QLEEEL--RDEVTP-KNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKF 86
Score = 34.9 bits (81), Expect = 0.13
Identities = 21/46 (45%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 510 LLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 555
L EL R +TP K L+ GP G GKT +AR +A A F+KV
Sbjct: 39 QLEEEL--RDEVTP-KNILMIGPTGVGKTEIARRLAKLAGAPFIKV 81
Score = 32.2 bits (74), Expect = 1.0
Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 9/59 (15%)
Query: 283 ESARLI------REMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADRE-IQRTLMELL 334
E+ +LI +E + A + I+F+DEID I R S G RE +QR L+ L+
Sbjct: 230 EADKLIDQEEIKQEAIDAAEQNG--IVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLV 286
Score = 32.2 bits (74), Expect = 1.0
Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 9/59 (15%)
Query: 567 ESARLI------REMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADRE-IQRTLMELL 618
E+ +LI +E + A + I+F+DEID I R S G RE +QR L+ L+
Sbjct: 230 EADKLIDQEEIKQEAIDAAEQNG--IVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLV 286
>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 = 34.6 bits (80), Expect = 0.13
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 203 TPPKGCL-LYGPPGTGKTLLARAVA 226
+ + YGP TGKT LA+A+A
Sbjct: 110 GGKRNTVWFYGPASTGKTNLAQAIA 134
Score = 34.6 bits (80), Expect = 0.13
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 522 TPPKGCL-LYGPPGTGKTLLARAVA 545
+ + YGP TGKT LA+A+A
Sbjct: 110 GGKRNTVWFYGPASTGKTNLAQAIA 134
>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 = 0.16
Identities = 17/37 (45%), Positives = 24/37 (64%)
Query: 205 PKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLF 241
PK L+ GP G GKT +AR +A +A F+KV ++ F
Sbjct: 47 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKF 83
Score = 34.4 bits (79), Expect = 0.20
Identities = 20/58 (34%), Positives = 35/58 (60%), Gaps = 2/58 (3%)
Query: 524 PKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVD-KYIG-ESARLIREMFNYA 579
PK L+ GP G GKT +AR +A +A F+KV ++ + Y+G + ++R++ + A
Sbjct: 47 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRDVESMVRDLVDIA 104
Score = 29.4 bits (66), Expect = 8.5
Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 302 IIFMDEIDAIGGRRFSEGTSADRE-IQRTLMELL 334
IIF+DEID I + S G RE +QR L+ ++
Sbjct: 250 IIFIDEIDKIAKKGESSGADVSREGVQRDLLPIV 283
Score = 29.4 bits (66), Expect = 8.5
Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 586 IIFMDEIDAIGGRRFSEGTSADRE-IQRTLMELL 618
IIF+DEID I + S G RE +QR L+ ++
Sbjct: 250 IIFIDEIDKIAKKGESSGADVSREGVQRDLLPIV 283
>gnl|CDD|215758 pfam00158, Sigma54_activat, Sigma-54 interaction domain.
Length = 168
Score = 33.5 bits (78), Expect = 0.18
Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 11/53 (20%)
Query: 173 IGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAV 225
+ G S ++E+ E+ + RV T L+ G GTGK L ARA+
Sbjct: 1 LIGESPAMQEVLELAK----------RVAPTD-ATVLITGESGTGKELFARAI 42
Score = 31.6 bits (73), Expect = 0.86
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 528 LLYGPPGTGKTLLARAV 544
L+ G GTGK L ARA+
Sbjct: 26 LITGESGTGKELFARAI 42
>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 = 34.0 bits (79), Expect = 0.18
Identities = 19/61 (31%), Positives = 27/61 (44%), Gaps = 14/61 (22%)
Query: 517 QRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMF 576
QR+GI +G GTGKT+L +A A+ ++V IGE R + E
Sbjct: 16 QRIGI--------FGGSGTGKTVLLGMIARNAKADVVEVYVL------IGERGREVAEFI 61
Query: 577 N 577
Sbjct: 62 E 62
Score = 29.7 bits (68), Expect = 3.7
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 8/40 (20%)
Query: 198 QRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 237
QR+GI +G GTGKT+L +A A+ ++V
Sbjct: 16 QRIGI--------FGGSGTGKTVLLGMIARNAKADVVEVY 47
>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 = 34.6 bits (80), Expect = 0.19
Identities = 16/38 (42%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 525 KGCLLYGPPGTGKTLLARAVASQL--DANFLKVVSSAI 560
+ L+ GPPGTGKT LA A++ +L D F + S +
Sbjct: 51 RAVLIAGPPGTGKTALAIAISKELGEDTPFCPISGSEV 88
Score = 34.2 bits (79), Expect = 0.27
Identities = 13/24 (54%), Positives = 18/24 (75%)
Query: 206 KGCLLYGPPGTGKTLLARAVASQL 229
+ L+ GPPGTGKT LA A++ +L
Sbjct: 51 RAVLIAGPPGTGKTALAIAISKEL 74
>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 = 33.0 bits (76), Expect = 0.20
Identities = 21/74 (28%), Positives = 26/74 (35%), Gaps = 10/74 (13%)
Query: 527 CLLYGPPGTGKTLL----ARAVASQLDANFLKVVSSAIV------DKYIGESARLIREMF 576
LL G PGTGK+ L A AVA+ V V D G RL
Sbjct: 36 TLLAGAPGTGKSTLALDLAAAVATGRPFLGPFPVEPGRVLYLDGEDSEAGLRRRLRALGE 95
Query: 577 NYARNHQPCIIFMD 590
P ++ +D
Sbjct: 96 ALEEIEGPDLVVID 109
Score = 31.5 bits (72), Expect = 0.74
Identities = 21/69 (30%), Positives = 31/69 (44%), Gaps = 17/69 (24%)
Query: 164 DPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKG-CLLYGPPGTGKTLL- 221
+P ++ S+ L LR +++ G+ P G LL G PGTGK+ L
Sbjct: 3 EPSELLPSSAEDLDAPPPPLRWLVK------------GLLPRGGLTLLAGAPGTGKSTLA 50
Query: 222 ---ARAVAS 227
A AVA+
Sbjct: 51 LDLAAAVAT 59
>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 = 33.9 bits (78), Expect = 0.21
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 202 ITPPKGCLLYGPPGTGKTLLARAVASQLDANFLK 235
++ L+ GPPGTGKT + QL +N
Sbjct: 14 LSSSDITLIQGPPGTGKTTTIVEIIKQLLSNAPG 47
Score = 33.9 bits (78), Expect = 0.21
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 521 ITPPKGCLLYGPPGTGKTLLARAVASQLDANFLK 554
++ L+ GPPGTGKT + QL +N
Sbjct: 14 LSSSDITLIQGPPGTGKTTTIVEIIKQLLSNAPG 47
>gnl|CDD|215599 PLN03140, PLN03140, ABC transporter G family member; Provisional.
Length = 1470
Score = 34.8 bits (80), Expect = 0.21
Identities = 18/35 (51%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 202 ITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 236
I P + LL GPP +GKT L A+A +LD + LKV
Sbjct: 188 IKPSRMTLLLGPPSSGKTTLLLALAGKLDPS-LKV 221
Score = 34.8 bits (80), Expect = 0.21
Identities = 18/35 (51%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 521 ITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 555
I P + LL GPP +GKT L A+A +LD + LKV
Sbjct: 188 IKPSRMTLLLGPPSSGKTTLLLALAGKLDPS-LKV 221
>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 = 34.4 bits (79), Expect = 0.23
Identities = 20/66 (30%), Positives = 28/66 (42%), Gaps = 10/66 (15%)
Query: 181 RELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQL----------D 230
R E++ L +V P+ +LYGPPG GKT AR + D
Sbjct: 151 RAFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAED 210
Query: 231 ANFLKV 236
A F++V
Sbjct: 211 APFVEV 216
Score = 34.0 bits (78), Expect = 0.34
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 10/42 (23%)
Query: 524 PKGCLLYGPPGTGKTLLARAVASQL----------DANFLKV 555
P+ +LYGPPG GKT AR + DA F++V
Sbjct: 175 PQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEV 216
>gnl|CDD|215967 pfam00519, PPV_E1_C, Papillomavirus helicase. This protein is a
DNA helicase that is required for initiation of viral
DNA replication. This protein forms a complex with the
E2 protein pfam00508.
Length = 432
Score = 34.4 bits (80), Expect = 0.24
Identities = 21/46 (45%), Positives = 26/46 (56%), Gaps = 10/46 (21%)
Query: 203 TPPKGCLL-YGPPGTGKTLLARAVASQLDANFL--KVVSSLFVTSK 245
P K CL+ YGPP TGK++ S + FL KV+S FV SK
Sbjct: 259 IPKKNCLVIYGPPDTGKSMFC---MSLI--KFLGGKVIS--FVNSK 297
Score = 32.1 bits (74), Expect = 1.0
Identities = 11/21 (52%), Positives = 14/21 (66%), Gaps = 1/21 (4%)
Query: 522 TPPKGCLL-YGPPGTGKTLLA 541
P K CL+ YGPP TGK++
Sbjct: 259 IPKKNCLVIYGPPDTGKSMFC 279
>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 = 34.0 bits (78), Expect = 0.26
Identities = 25/68 (36%), Positives = 33/68 (48%), Gaps = 11/68 (16%)
Query: 197 FQRV---GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMG 253
RV GI P L+ G PG GK+ L VA QL N +KV L+V+ +E
Sbjct: 83 LDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKV---LYVSGEES-----L 134
Query: 254 NQLKRRST 261
Q+K R+
Sbjct: 135 QQIKMRAI 142
Score = 29.8 bits (67), Expect = 6.8
Identities = 19/44 (43%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 516 FQRV---GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
RV GI P L+ G PG GK+ L VA QL N +KV+
Sbjct: 83 LDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVL 126
>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 = 34.3 bits (79), Expect = 0.29
Identities = 25/91 (27%), Positives = 46/91 (50%), Gaps = 13/91 (14%)
Query: 10 RHKTLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSE------NDLKALQSVGQHDL 63
R +T + + +E L E+ QLK L +Q +K+E +L+ L + L
Sbjct: 174 RKETERKLERTRENLDRLEDILNELERQLKSLERQAEKAERYKELKAELREL----ELAL 229
Query: 64 L---LHCVREQLKELTKQYDKSENDLKALQS 91
L L +RE+L+EL ++ ++E +L+ L +
Sbjct: 230 LVLRLEELREELEELQEELKEAEEELEELTA 260
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 34.3 bits (79), Expect = 0.29
Identities = 24/83 (28%), Positives = 42/83 (50%), Gaps = 14/83 (16%)
Query: 13 TLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSE-----NDLKALQSVGQHDLLLHC 67
L ++L AE E RL E+R++L+EL K+Y + E + L L
Sbjct: 627 ELDKAFEEL---AETEKRLEELRKELEELEKKYSEEEYEELREEYLELSR------ELAG 677
Query: 68 VREQLKELTKQYDKSENDLKALQ 90
+R +L+EL K+ ++ + L+ L+
Sbjct: 678 LRAELEELEKRREEIKKTLEKLK 700
Score = 32.7 bits (75), Expect = 0.84
Identities = 20/77 (25%), Positives = 41/77 (53%), Gaps = 2/77 (2%)
Query: 14 LQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLK 73
+ +++ E E E RL E++++LKEL K+ ++ E + + L ++++L
Sbjct: 323 INGIEERIKELEEKEERLEELKKKLKELEKRLEELEERHELYEEAKAKKEELERLKKRLT 382
Query: 74 ELTKQYDKSENDLKALQ 90
LT +K E +L+ L+
Sbjct: 383 GLTP--EKLEKELEELE 397
Score = 30.8 bits (70), Expect = 3.7
Identities = 16/79 (20%), Positives = 36/79 (45%), Gaps = 10/79 (12%)
Query: 17 YRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELT 76
Y + L E E+E RL + E++ + ++ + E + L+ ++++LKEL
Sbjct: 302 YEEYLDELREIEKRLSRLEEEINGIEERIKELEEKEERLEE----------LKKKLKELE 351
Query: 77 KQYDKSENDLKALQSVGQV 95
K+ ++ E + +
Sbjct: 352 KRLEELEERHELYEEAKAK 370
Score = 30.4 bits (69), Expect = 4.8
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 6/77 (7%)
Query: 7 DEVRHKTLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLH 66
E R K L+ + + E + E L ++LK+L ++ DK+ +L + L
Sbjct: 590 LEERLKELEPFYNEYLELKDAEKELEREEKELKKLEEELDKAFEELAETEKR------LE 643
Query: 67 CVREQLKELTKQYDKSE 83
+R++L+EL K+Y + E
Sbjct: 644 ELRKELEELEKKYSEEE 660
>gnl|CDD|227569 COG5244, NIP100, Dynactin complex subunit involved in mitotic
spindle partitioning in anaphase B [Cell division and
chromosome partitioning].
Length = 669
Score = 33.9 bits (77), Expect = 0.31
Identities = 18/83 (21%), Positives = 36/83 (43%), Gaps = 1/83 (1%)
Query: 5 VVDEVRHKTLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLL 64
+ E + D + + E++ + RL E +LKE+ Q + + ++ + DL
Sbjct: 499 IFPEQPSQQTSD-SENIKENSLLSDRLNEENIRLKEVLVQKENMLTEETKIKIIIGRDLE 557
Query: 65 LHCVREQLKELTKQYDKSENDLK 87
+ E +K L + + N LK
Sbjct: 558 RKTLEENIKTLKVELNNKNNKLK 580
>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 = 33.0 bits (76), Expect = 0.31
Identities = 31/110 (28%), Positives = 41/110 (37%), Gaps = 23/110 (20%)
Query: 161 SHEDPGDITYSAIGGLSE-QIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKT 219
+ + D + A GL I EL + I + LL GPPG GKT
Sbjct: 15 ARKTLEDFDFRAARGLDRRLIAELAGL-------------DWIEQAENLLLLGPPGVGKT 61
Query: 220 LLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKR-RSTHHLEKTY 268
LA A+ Q V LF + + + QLKR R L +T
Sbjct: 62 HLACALGHQACRAGYSV---LFTRTPD-----LVEQLKRARGDGRLARTL 103
Score = 30.7 bits (70), Expect = 2.0
Identities = 13/22 (59%), Positives = 14/22 (63%)
Query: 526 GCLLYGPPGTGKTLLARAVASQ 547
LL GPPG GKT LA A+ Q
Sbjct: 49 NLLLLGPPGVGKTHLACALGHQ 70
>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 = 33.1 bits (76), Expect = 0.31
Identities = 16/70 (22%), Positives = 37/70 (52%), Gaps = 3/70 (4%)
Query: 22 TEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQYDK 81
E AE++ L E++EQL EL ++ + + +L L++ + L ++K+L+ +
Sbjct: 73 QELAELQEELAELQEQLAELQQENQELKQELSTLEAELER---LQKELARIKQLSANAIE 129
Query: 82 SENDLKALQS 91
+ + + L+
Sbjct: 130 LDEENRELRE 139
>gnl|CDD|148614 pfam07106, TBPIP, Tat binding protein 1(TBP-1)-interacting protein
(TBPIP). This family consists of several eukaryotic
TBP-1 interacting protein (TBPIP) sequences. TBP-1 has
been demonstrated to interact with the human
immunodeficiency virus type 1 (HIV-1) viral protein Tat,
then modulate the essential replication process of HIV.
In addition, TBP-1 has been shown to be a component of
the 26S proteasome, a basic multiprotein complex that
degrades ubiquitinated proteins in an ATP-dependent
fashion. Human TBPIP interacts with human TBP-1 then
modulates the inhibitory action of human TBP-1 on
HIV-Tat-mediated transactivation.
Length = 169
Score = 32.7 bits (75), Expect = 0.31
Identities = 19/69 (27%), Positives = 40/69 (57%), Gaps = 4/69 (5%)
Query: 23 EHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQYDKS 82
E +++ + E+RE+++ L + E +LK+L S DL ++E+++EL K+ +
Sbjct: 73 ELNKLDMEIEELREEVQLLKQDCSTLEIELKSLTS----DLTTEELQEEIQELKKEVREI 128
Query: 83 ENDLKALQS 91
E L++L+
Sbjct: 129 EEKLESLEE 137
>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 = 32.5 bits (75), Expect = 0.31
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 7/49 (14%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESA-RLIREMF 576
L G G GKT + R +A L F+ +D+ I + A I E+F
Sbjct: 4 LIGMMGAGKTTVGRLLAKALGLPFVD------LDELIEQRAGMSIPEIF 46
Score = 32.1 bits (74), Expect = 0.50
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFL 234
L G G GKT + R +A L F+
Sbjct: 4 LIGMMGAGKTTVGRLLAKALGLPFV 28
>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 = 32.6 bits (75), Expect = 0.32
Identities = 33/159 (20%), Positives = 59/159 (37%), Gaps = 42/159 (26%)
Query: 512 NPELFQRVGITPPKGCLLY--GPPGTGKTLLARAVAS---------QLDANFLKVVSSAI 560
V +T G ++ GP G+GK+ L RA+A +D + +
Sbjct: 11 GRTALDNVSLTLKAGEIVALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGKDIAKLPLEE 70
Query: 561 VDKYI--------GESAR--LIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSA-DRE 609
+ + I G+ R L R + P ++ +DE TS D
Sbjct: 71 LRRRIGYVPQLSGGQRQRVALARALL-----LNPDLLLLDEP-----------TSGLDPA 114
Query: 610 IQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLR 648
+ L+ELL ++ + +I+ T+ P+ + A R
Sbjct: 115 SRERLLELLREL----AEEGRTVIIVTHDPELAELAADR 149
Score = 29.9 bits (68), Expect = 2.6
Identities = 43/177 (24%), Positives = 69/177 (38%), Gaps = 43/177 (24%)
Query: 193 NPELFQRVGITPPKGCLLY--GPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAI 250
V +T G ++ GP G+GK+ L RA+A LK S + +D+A
Sbjct: 11 GRTALDNVSLTLKAGEIVALVGPNGSGKSTLLRAIA-----GLLKPTSGEILIDGKDIAK 65
Query: 251 LMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESAR--LIREMFNYARNHQPCIIFMDEI 308
L +L+RR Y P S G+ R L R + P ++ +DE
Sbjct: 66 LPLEELRRRIG------YVPQLSG-------GQRQRVALARALL-----LNPDLLLLDEP 107
Query: 309 DAIGGRRFSEGTSA-DREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLR 364
TS D + L+ELL ++ + +I+ T+ P+ + A R
Sbjct: 108 -----------TSGLDPASRERLLELLREL----AEEGRTVIIVTHDPELAELAADR 149
>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit
clpA. [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 730
Score = 33.8 bits (78), Expect = 0.33
Identities = 24/79 (30%), Positives = 38/79 (48%), Gaps = 16/79 (20%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDK------------YIG-ESARLIRE 574
L GP G GKT LA+ +A +L + L+ S ++K Y+G E L+ +
Sbjct: 487 LFVGPTGVGKTELAKQLAEELGVHLLRFDMSEYMEKHTVSRLIGSPPGYVGFEQGGLLTD 546
Query: 575 MFNYARNHQPCIIFMDEID 593
R H C++ +DEI+
Sbjct: 547 AV---RKHPHCVLLLDEIE 562
Score = 31.5 bits (72), Expect = 1.7
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLK 235
L GP G GKT LA+ +A +L + L+
Sbjct: 487 LFVGPTGVGKTELAKQLAEELGVHLLR 513
Score = 31.5 bits (72), Expect = 1.7
Identities = 41/162 (25%), Positives = 67/162 (41%), Gaps = 31/162 (19%)
Query: 528 LLYGPPGTGKTLLARAVASQLDAN----FLKVVSSAIVD--------KYIGESARLIREM 575
LL G PG GKT + +A ++ LK +D KY G+ ++ +
Sbjct: 206 LLVGEPGVGKTAIVEGLALRIAEGKVPERLKNAKIYSLDMGTLLAGTKYRGDFEERLKAV 265
Query: 576 FNYARNHQPCIIFMDEIDAI-GGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIM 634
+ I+F+DEI I G S G+ M+ N + S G+++ I
Sbjct: 266 VSEIEKEPNAILFIDEIHTIVGAGATSGGS----------MDASNLLKPALSSGKIRCIG 315
Query: 635 AT-----NRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILK 671
+T D AL R R +KI++ P+ + ++ILK
Sbjct: 316 STTYEEYKNHFEKDRALSR--RF-QKIDVGEPSIEETVKILK 354
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 33.8 bits (78), Expect = 0.35
Identities = 37/147 (25%), Positives = 60/147 (40%), Gaps = 42/147 (28%)
Query: 518 RVGITPPK---GCLLY-GPPGTGKTLLARAVASQL---DANFLKVVSSAIVDKYIGESAR 570
R G+ P G L+ GP G GKT LA+A+A L + +++ S ++K+ +R
Sbjct: 511 RAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKH--SVSR 568
Query: 571 LIREMFNY------------ARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELL 618
LI Y R +I +DEI+ A ++ L+++L
Sbjct: 569 LIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIE-----------KAHPDVFNLLLQVL 617
Query: 619 NQMDG--FDSLG------QVKMIMATN 637
+ DG D G +IM +N
Sbjct: 618 D--DGRLTDGQGRTVDFRNTIIIMTSN 642
Score = 33.8 bits (78), Expect = 0.37
Identities = 42/167 (25%), Positives = 68/167 (40%), Gaps = 41/167 (24%)
Query: 528 LLYGPPGTGKT----LLARAVAS-----QLDANFLKVVSSAIVD-----KYIGESARLIR 573
+L G PG GKT LA+ + + L ++ S + KY GE ++
Sbjct: 195 VLVGEPGVGKTAIVEGLAQRIVNGDVPESLK--DKRIYSLDLGSLVAGAKYRGEFEERLK 252
Query: 574 EMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMI 633
+ + I+F+DEI I G +EG + D LL + G+++ I
Sbjct: 253 AVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMD------AANLLKPA---LARGELRCI 303
Query: 634 MATNRPDTL---------DPALLRPGRLDRKIEIPLPNEQARLEILK 671
AT TL D AL R R +K+ + P+ + + IL+
Sbjct: 304 GAT----TLDEYRKYIEKDAALER--RF-QKVLVDEPSVEDTIAILR 343
>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional.
Length = 880
Score = 33.9 bits (78), Expect = 0.38
Identities = 22/88 (25%), Positives = 46/88 (52%), Gaps = 18/88 (20%)
Query: 6 VDEVRHKTLQDYRKKLTEH-AEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLL 64
DE R + ++ +++ E+ +VE +L E+RE+ +L + EN+L+ L+
Sbjct: 643 FDEARIEEAREDKERAEEYLEQVEEKLDELREERDDLQAEIGAVENELEELEE------- 695
Query: 65 LHCVREQLKELTKQYDKSENDLKALQSV 92
+RE+ + L EN ++AL+++
Sbjct: 696 ---LRERREAL-------ENRVEALEAL 713
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 33.6 bits (78), Expect = 0.41
Identities = 14/84 (16%), Positives = 41/84 (48%), Gaps = 7/84 (8%)
Query: 10 RHKTLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVR 69
R++ ++ R++ E ++E RL + E L + +K E +L+ + +
Sbjct: 70 RNEFEKELRERRNELQKLEKRLLQKEENLDRKLELLEKREEELEKKEKELEQKQ------ 123
Query: 70 EQLKELTKQYDKSEND-LKALQSV 92
++L++ ++ ++ + L+ L+ +
Sbjct: 124 QELEKKEEELEELIEEQLQELERI 147
>gnl|CDD|235244 PRK04182, PRK04182, cytidylate kinase; Provisional.
Length = 180
Score = 32.5 bits (75), Expect = 0.45
Identities = 32/100 (32%), Positives = 42/100 (42%), Gaps = 39/100 (39%)
Query: 531 GPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESAR-LIREM------FN-YARNH 582
GPPG+GKT +AR +A +L LK VS+ GE R L +E FN YA
Sbjct: 7 GPPGSGKTTVARLLAEKLG---LKHVSA-------GEIFRELAKERGMSLEEFNKYAEED 56
Query: 583 QPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMD 622
EI D+EI R +E+ + D
Sbjct: 57 -------PEI--------------DKEIDRRQLEIAEKED 75
Score = 30.9 bits (71), Expect = 1.5
Identities = 15/31 (48%), Positives = 21/31 (67%), Gaps = 3/31 (9%)
Query: 212 GPPGTGKTLLARAVASQLDANFLKVVSSLFV 242
GPPG+GKT +AR +A +L LK VS+ +
Sbjct: 7 GPPGSGKTTVARLLAEKLG---LKHVSAGEI 34
>gnl|CDD|236353 PRK08939, PRK08939, primosomal protein DnaI; Reviewed.
Length = 306
Score = 33.3 bits (77), Expect = 0.45
Identities = 24/71 (33%), Positives = 36/71 (50%), Gaps = 12/71 (16%)
Query: 525 KGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMFNYARNHQP 584
KG LYG G GK+ L A+A++L K VSS ++ + E IRE+ N +
Sbjct: 157 KGLYLYGDFGVGKSYLLAAIANEL---AKKGVSSTLL--HFPE---FIRELKNSISDGS- 207
Query: 585 CIIFMDEIDAI 595
++IDA+
Sbjct: 208 ---VKEKIDAV 215
Score = 30.6 bits (70), Expect = 2.8
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 206 KGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFV 242
KG LYG G GK+ L A+A++L K VSS +
Sbjct: 157 KGLYLYGDFGVGKSYLLAAIANEL---AKKGVSSTLL 190
>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 = 32.8 bits (75), Expect = 0.46
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 210 LYGPPGTGKTLLARAVASQLD 230
L GP GTGKT LA VA + D
Sbjct: 26 LRGPAGTGKTTLAMHVARKRD 46
Score = 32.8 bits (75), Expect = 0.46
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 529 LYGPPGTGKTLLARAVASQLD 549
L GP GTGKT LA VA + D
Sbjct: 26 LRGPAGTGKTTLAMHVARKRD 46
>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 = 32.1 bits (74), Expect = 0.50
Identities = 9/23 (39%), Positives = 16/23 (69%)
Query: 212 GPPGTGKTLLARAVASQLDANFL 234
GP G+GK+ +A+ +A +L +L
Sbjct: 6 GPAGSGKSTVAKLLAKKLGLPYL 28
Score = 32.1 bits (74), Expect = 0.50
Identities = 9/23 (39%), Positives = 16/23 (69%)
Query: 531 GPPGTGKTLLARAVASQLDANFL 553
GP G+GK+ +A+ +A +L +L
Sbjct: 6 GPAGSGKSTVAKLLAKKLGLPYL 28
>gnl|CDD|222927 PHA02774, PHA02774, E1; Provisional.
Length = 613
Score = 33.3 bits (77), Expect = 0.50
Identities = 21/46 (45%), Positives = 26/46 (56%), Gaps = 10/46 (21%)
Query: 203 TPPKGCLL-YGPPGTGKTLLARAVASQLDANFL--KVVSSLFVTSK 245
P K CL+ YGPP TGK++ S + FL KV+S FV SK
Sbjct: 431 IPKKNCLVIYGPPDTGKSMFC---MSLI--KFLKGKVIS--FVNSK 469
Score = 31.0 bits (71), Expect = 2.8
Identities = 11/21 (52%), Positives = 14/21 (66%), Gaps = 1/21 (4%)
Query: 522 TPPKGCLL-YGPPGTGKTLLA 541
P K CL+ YGPP TGK++
Sbjct: 431 IPKKNCLVIYGPPDTGKSMFC 451
>gnl|CDD|223718 COG0645, COG0645, Predicted kinase [General function prediction
only].
Length = 170
Score = 32.4 bits (74), Expect = 0.52
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 205 PKGCLLYGPPGTGKTLLARAVASQLDA 231
+ L+ G PG+GK+ LAR +A L A
Sbjct: 1 GRLVLVGGLPGSGKSTLARGLAELLGA 27
Score = 32.4 bits (74), Expect = 0.52
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 524 PKGCLLYGPPGTGKTLLARAVASQLDA 550
+ L+ G PG+GK+ LAR +A L A
Sbjct: 1 GRLVLVGGLPGSGKSTLARGLAELLGA 27
>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed.
Length = 337
Score = 32.7 bits (75), Expect = 0.61
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 6/39 (15%)
Query: 209 LLYGPPGTGKTLLARAVASQL-----DANFLKV-VSSLF 241
L+ GPPG+GKT RA+A +L + NF + V+ F
Sbjct: 40 LVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFF 78
Score = 32.7 bits (75), Expect = 0.63
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 5/30 (16%)
Query: 528 LLYGPPGTGKTLLARAVASQL-----DANF 552
L+ GPPG+GKT RA+A +L + NF
Sbjct: 40 LVQGPPGSGKTAAVRALARELYGDPWENNF 69
>gnl|CDD|107157 PHA02244, PHA02244, ATPase-like protein.
Length = 383
Score = 32.8 bits (74), Expect = 0.65
Identities = 22/71 (30%), Positives = 35/71 (49%), Gaps = 8/71 (11%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDK-----YIGESARLIREMFNYARNHQ 583
L G G+GK +A +A LD +F +AI+D+ +I + + F Y +
Sbjct: 124 LKGGAGSGKNHIAEQIAEALDLDFY--FMNAIMDEFELKGFIDANGKFHETPF-YEAFKK 180
Query: 584 PCIIFMDEIDA 594
+ F+DEIDA
Sbjct: 181 GGLFFIDEIDA 191
>gnl|CDD|220366 pfam09728, Taxilin, Myosin-like coiled-coil protein. Taxilin
contains an extraordinarily long coiled-coil domain in
its C-terminal half and is ubiquitously expressed. It is
a novel binding partner of several syntaxin family
members and is possibly involved in Ca2+-dependent
exocytosis in neuroendocrine cells. Gamma-taxilin,
described as leucine zipper protein Factor Inhibiting
ATF4-mediated Transcription (FIAT), localises to the
nucleus in osteoblasts and dimerises with ATF4 to form
inactive dimers, thus inhibiting ATF4-mediated
transcription.
Length = 309
Score = 32.7 bits (75), Expect = 0.65
Identities = 22/81 (27%), Positives = 40/81 (49%), Gaps = 6/81 (7%)
Query: 13 TLQDYRKKLTEHAEVEGRLRE----MREQLKELTKQYDKSENDLKALQSVGQHDLLLHCV 68
TL+D + ++ EH+ +L E +RE+LKEL +QY+ E + L DL
Sbjct: 115 TLKDIQDQMEEHSNPNHKLCEENEELREKLKELIEQYELREQHFEKLLK--TKDLEQQLN 172
Query: 69 REQLKELTKQYDKSENDLKAL 89
+L++ +Q ++ + K
Sbjct: 173 DAKLEQAQEQAEQEQEKHKRE 193
>gnl|CDD|205039 pfam12718, Tropomyosin_1, Tropomyosin like. This family is a set
of eukaryotic tropomyosins. Within the yeast Tmp1 and
Tmp2, biochemical and sequence analyses indicate that
Tpm2p spans four actin monomers along a filament,
whereas Tpmlp spans five. Despite its shorter length,
Tpm2p can compete with Tpm1p for binding to F-actin.
Over-expression of Tpm2p in vivo alters the axial
budding of haploids to a bipolar pattern, and this can
be partially suppressed by co-over-expression of Tpm1p.
This suggests distinct functions for the two
tropomyosins, and indicates that the ratio between them
is important for correct morphogenesis. The family also
contains higher eukaryote Tmp3 members.
Length = 143
Score = 31.4 bits (72), Expect = 0.71
Identities = 20/65 (30%), Positives = 36/65 (55%), Gaps = 4/65 (6%)
Query: 30 RLREMREQLKELTKQYDKSENDLKALQSVGQH-DLLLHCVREQLKELTKQYDKSENDL-- 86
R E+ E+LKEL ++ + E ++ +LQ Q + + + EQLKE ++ ++SE
Sbjct: 15 RAEELEEKLKELEQENLEKEQEITSLQKKNQQLEEEVEKLEEQLKEAKEKLEESEKLATN 74
Query: 87 -KALQ 90
+AL
Sbjct: 75 AEALT 79
>gnl|CDD|233761 TIGR02173, cyt_kin_arch, cytidylate kinase, putative. Proteins in
this family are believed to be cytidylate kinase.
Members of this family are found in the archaea and in
spirochaetes, and differ considerably from the common
bacterial form of cytidylate kinase described by
TIGR00017.
Length = 171
Score = 31.6 bits (72), Expect = 0.72
Identities = 24/81 (29%), Positives = 40/81 (49%), Gaps = 11/81 (13%)
Query: 531 GPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARL-IREMFNYARNHQPCIIFM 589
GPPG+GKT +A+ +A +L LK++S+ + + + L + E NYA +
Sbjct: 7 GPPGSGKTTVAKILAEKLS---LKLISAGDIFRELAAKMGLDLIEFLNYAEEN------- 56
Query: 590 DEIDAIGGRRFSEGTSADREI 610
EID RR E ++ +
Sbjct: 57 PEIDKKIDRRIHEIALKEKNV 77
Score = 30.9 bits (70), Expect = 1.7
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 5/53 (9%)
Query: 212 GPPGTGKTLLARAVASQLDANFLKVVSS--LFVTSKEDMAILMGNQLKRRSTH 262
GPPG+GKT +A+ +A +L LK++S+ +F M + + L +
Sbjct: 7 GPPGSGKTTVAKILAEKLS---LKLISAGDIFRELAAKMGLDLIEFLNYAEEN 56
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 31.3 bits (71), Expect = 0.72
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVV 237
L+ G PG+GKT LA+ +A +L +
Sbjct: 2 LITGTPGSGKTTLAKELAERLGDVLRDLA 30
Score = 31.3 bits (71), Expect = 0.72
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVV 556
L+ G PG+GKT LA+ +A +L +
Sbjct: 2 LITGTPGSGKTTLAKELAERLGDVLRDLA 30
>gnl|CDD|149160 pfam07926, TPR_MLP1_2, TPR/MLP1/MLP2-like protein. The sequences
featured in this family are similar to a region of human
TPR protein and to yeast myosin-like proteins 1 (MLP1)
and 2 (MLP2). These proteins share a number of features;
for example, they all have coiled-coil regions and all
three are associated with nuclear pores. TPR is thought
to be a component of nuclear pore complex- attached
intra-nuclear filaments, and is implicated in nuclear
protein import. Moreover, its N-terminal region is
involved in the activation of oncogenic kinases,
possibly by mediating the dimerisation of kinase domains
or by targeting these kinases to the nuclear pore
complex. MLP1 and MLP2 are involved in the process of
telomere length regulation, where they are thought to
interact with proteins such as Tel1p and modulate their
activity.
Length = 132
Score = 31.1 bits (71), Expect = 0.74
Identities = 19/73 (26%), Positives = 37/73 (50%), Gaps = 6/73 (8%)
Query: 15 QDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKE 74
Q Y ++L +HAE L+ +R+QL EL K+ + + + ++ Q+ L E +E
Sbjct: 45 QKYERELVKHAEDIEELQALRKQLNELKKEIAQLKAEAESAQA------ELSEAEESWEE 98
Query: 75 LTKQYDKSENDLK 87
K + ++L+
Sbjct: 99 QKKMLEDELSELE 111
>gnl|CDD|222005 pfam13245, AAA_19, Part of AAA domain.
Length = 73
Score = 30.0 bits (68), Expect = 0.74
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 212 GPPGTGKTLLARAVASQL 229
G PGTGKT A A+ ++L
Sbjct: 17 GGPGTGKTATAAAIIARL 34
Score = 30.0 bits (68), Expect = 0.74
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 531 GPPGTGKTLLARAVASQL 548
G PGTGKT A A+ ++L
Sbjct: 17 GGPGTGKTATAAAIIARL 34
>gnl|CDD|129587 TIGR00496, frr, ribosome recycling factor. This model finds only
eubacterial proteins. Mitochondrial and/or chloroplast
forms might be expected but are not currently known.
This protein was previously called ribosome releasing
factor. By releasing ribosomes from mRNA at the end of
protein biosynthesis, it prevents inappropriate
translation from 3-prime regions of the mRNA and frees
the ribosome for new rounds of translation.
EGAD|53116|YHR038W is part of the frr superfamily
[Protein synthesis, Translation factors].
Length = 176
Score = 31.7 bits (72), Expect = 0.76
Identities = 24/80 (30%), Positives = 42/80 (52%), Gaps = 15/80 (18%)
Query: 4 PVVDEVRHKTLQDYRKKLTEHAEVEGR--LREMREQLKELTKQYDKSENDLKALQSVGQH 61
P + E R K L + KK+ E A+V R R+ +++K+L K + SE++ + LQ
Sbjct: 94 PPLTEERRKELVKHAKKIAEQAKVAVRNVRRDANDKVKKLEKDKEISEDEERRLQ----- 148
Query: 62 DLLLHCVREQLKELTKQYDK 81
E++++LT +Y K
Sbjct: 149 --------EEIQKLTDEYIK 160
>gnl|CDD|226372 COG3854, SpoIIIAA, ncharacterized protein conserved in bacteria
[Function unknown].
Length = 308
Score = 32.5 bits (74), Expect = 0.78
Identities = 43/194 (22%), Positives = 67/194 (34%), Gaps = 43/194 (22%)
Query: 430 AIRSEREYVTQEDFMKAVRKVS---------DNKKLDHCNSYRTEAGLFAIRSEREYVTQ 480
+ VT+ED K + ++S + + Y T G + +
Sbjct: 46 PVYLSYIGVTKEDLQKTLNRLSGYSIYSVEEELRA-----GYITIRGGHRVGLAGNVTLE 100
Query: 481 EDFMKAVRKVSDNKKLESKLDYKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLL 540
E +K +R +S L ++ + L +L+Q L+ GPP GKT L
Sbjct: 101 EGKVKTIRDISS---LNIRVARQVFGTANPLIKDLYQ----NGWLNTLIIGPPQVGKTTL 153
Query: 541 ARAVASQLD---ANFL--KVV----SSAIV--DKYIGESARLIRE-----------MFNY 578
R +A L FL KV S I + + R R M
Sbjct: 154 LRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQHGRGRRMDVLDPCPKAEGMMMA 213
Query: 579 ARNHQPCIIFMDEI 592
R+ P +I +DEI
Sbjct: 214 IRSMSPEVIIVDEI 227
>gnl|CDD|220387 pfam09763, Sec3, Exocyst complex component Sec3. This entry is the
conserved middle and C-terminus of the Sec3 protein.
Sec3 binds to the C-terminal cytoplasmic domain of GLYT1
(glycine transporter protein 1). Sec3 is the exocyst
component that is closest to the plasma membrane docking
site and it serves as a spatial landmark in the plasma
membrane for incoming secretory vesicles. Sec3 is
recruited to the sites of polarised membrane growth
through its interaction with Rho1p, a small GTP-binding
protein.
Length = 691
Score = 32.7 bits (75), Expect = 0.81
Identities = 22/87 (25%), Positives = 35/87 (40%), Gaps = 8/87 (9%)
Query: 8 EVRHKTLQDYRKK-LTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQ--SVGQHDLL 64
+ R L Y + L E E++ L +L L++ + E+ LQ S Q L
Sbjct: 29 DKRVNELMKYLDEALAECDELDPTLSLYSMELSSLSEDIEYIESQNNGLQVQSANQKLLW 88
Query: 65 LHCVREQLKELTKQYDKSENDLKALQS 91
+L+ L E+DL+AL
Sbjct: 89 -----NELESLLNTVSLPESDLRALLE 110
>gnl|CDD|214361 CHL00095, clpC, Clp protease ATP binding subunit.
Length = 821
Score = 32.7 bits (75), Expect = 0.83
Identities = 38/161 (23%), Positives = 64/161 (39%), Gaps = 32/161 (19%)
Query: 529 LYGPPGTGKTLLARAVASQLDANF-------------LKVVSSAIVDKYIGESARLIREM 575
L G PG GKT +A +A Q N L + KY GE ++ +
Sbjct: 205 LIGEPGVGKTAIAEGLA-QRIVNRDVPDILEDKLVITLDIGLLLAGTKYRGEFEERLKRI 263
Query: 576 FNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMA 635
F+ + + I+ +DE+ + G +EG + L L + G+++ I A
Sbjct: 264 FDEIQENNNIILVIDEVHTLIGAGAAEG---AIDAANILKPAL-------ARGELQCIGA 313
Query: 636 TNRPD-----TLDPALLRPGRLDRKIEIPLPNEQARLEILK 671
T + DPAL R + + + P+ + +EIL
Sbjct: 314 TTLDEYRKHIEKDPAL---ERRFQPVYVGEPSVEETIEILF 351
Score = 29.3 bits (66), Expect = 8.8
Identities = 15/33 (45%), Positives = 18/33 (54%), Gaps = 4/33 (12%)
Query: 199 RVGITPPK----GCLLYGPPGTGKTLLARAVAS 227
RVG+ P L GP G GKT L +A+AS
Sbjct: 529 RVGLKNPNRPIASFLFSGPTGVGKTELTKALAS 561
Score = 29.3 bits (66), Expect = 8.8
Identities = 15/33 (45%), Positives = 18/33 (54%), Gaps = 4/33 (12%)
Query: 518 RVGITPPK----GCLLYGPPGTGKTLLARAVAS 546
RVG+ P L GP G GKT L +A+AS
Sbjct: 529 RVGLKNPNRPIASFLFSGPTGVGKTELTKALAS 561
>gnl|CDD|225822 COG3284, AcoR, Transcriptional activator of acetoin/glycerol
metabolism [Secondary metabolites biosynthesis,
transport, and catabolism / Transcription].
Length = 606
Score = 32.7 bits (75), Expect = 0.87
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 8/55 (14%)
Query: 528 LLYGPPGTGKTLLARAV--ASQLDANFLKVVSSAIVDKYIGESARLIREMFNYAR 580
LL G GTGK +LARA+ S+ F+ V +AI + I E+F Y
Sbjct: 340 LLQGETGTGKEVLARAIHQNSEAAGPFVAVNCAAIPEALIES------ELFGYVA 388
>gnl|CDD|119379 cd06417, GH25_LysA-like, LysA is a cell wall endolysin produced by
Lactobacillus fermentum, which degrades bacterial cell
walls by catalyzing the hydrolysis of 1,4-beta-linkages
between N-acetylmuramic acid and N-acetyl-D-glucosamine
residues. The N-terminal glycosyl hydrolase family 25
(GH25) domain of LysA has sequence similarity with other
murein hydrolase catalytic domains while the C-terminal
domain has sequence similarity with putative bacterial
cell wall-binding SH3b domains. This domain family also
includes LysL of Lactococcus lactis.
Length = 195
Score = 31.6 bits (72), Expect = 0.89
Identities = 18/49 (36%), Positives = 23/49 (46%), Gaps = 2/49 (4%)
Query: 91 SVGQVSLSTSVSKCWTVIVKATNGPRYV-VGCRRQLDKAKLKSGTRVAL 138
S Q + T+V VIVKAT G YV R Q +A +G + L
Sbjct: 7 SSWQSRIVTTVVPADFVIVKATQGTGYVNPSWRSQAAQAI-AAGKLLGL 54
>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 = 32.4 bits (74), Expect = 0.94
Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 13/57 (22%)
Query: 169 TYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAV 225
++ I G E I+ L+ + P NP Q V ++YGPPG GKT AR V
Sbjct: 63 SFDEIIGQEEGIKALKAALCGP--NP---QHV--------IIYGPPGVGKTAAARLV 106
Score = 32.1 bits (73), Expect = 1.1
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 524 PKGCLLYGPPGTGKTLLARAV 544
P+ ++YGPPG GKT AR V
Sbjct: 86 PQHVIIYGPPGVGKTAAARLV 106
>gnl|CDD|224292 COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 398
Score = 32.4 bits (74), Expect = 0.94
Identities = 19/87 (21%), Positives = 34/87 (39%), Gaps = 7/87 (8%)
Query: 513 PELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLI 572
P L +++ + P L+ GP GKT L + + L + + + I L+
Sbjct: 27 PRLIKKLDLRPFI-ILILGPRQVGKTTLLKLLIKGLLEEIIYINFDDLRLDRI----ELL 81
Query: 573 REMFNYARNHQP--CIIFMDEIDAIGG 597
+ Y + IF+DEI +
Sbjct: 82 DLLRAYIELKEREKSYIFLDEIQNVPD 108
>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 = 31.5 bits (72), Expect = 1.1
Identities = 27/132 (20%), Positives = 40/132 (30%), Gaps = 41/132 (31%)
Query: 528 LLYGPPGTGKTLLA--------------------------RAVASQLDAN---FLKVVSS 558
LL G PGTGKT A A L +
Sbjct: 3 LLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEESPEELIENAESLGWDLERLEDEGLL 62
Query: 559 AIVDKYIGESA--------RLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREI 610
AIVD E LI+ + + + + +D + + E ++A EI
Sbjct: 63 AIVDADPDEIGPAESSLRLELIQRLKDAIEEFKAKRVVIDSVSGL---LLMEQSTARLEI 119
Query: 611 QRTLMELLNQMD 622
+R L L +
Sbjct: 120 RRLLF-ALKRFG 130
Score = 30.8 bits (70), Expect = 1.7
Identities = 37/149 (24%), Positives = 55/149 (36%), Gaps = 40/149 (26%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFL-KVVS----SLFVTSKEDMAIL------MGNQLK 257
LL G PGTGKT A FL ++ L+VT +E L +G L+
Sbjct: 3 LLSGGPGTGKTTFA--------LQFLYAGLARGEPGLYVTLEESPEELIENAESLGWDLE 54
Query: 258 RRSTHHLEKTYFPFYSSAIVDKYIGESA--------RLIREMFNYARNHQPCIIFMDEID 309
R LE AIVD E LI+ + + + + +D +
Sbjct: 55 R-----LEDE----GLLAIVDADPDEIGPAESSLRLELIQRLKDAIEEFKAKRVVIDSVS 105
Query: 310 AIGGRRFSEGTSADREIQRTLMELLNQMD 338
+ E ++A EI+R L L +
Sbjct: 106 GL---LLMEQSTARLEIRRLLF-ALKRFG 130
>gnl|CDD|238005 cd00046, DEXDc, DEAD-like helicases superfamily. A diverse family
of proteins involved in ATP-dependent RNA or DNA
unwinding. This domain contains the ATP-binding region.
Length = 144
Score = 30.8 bits (70), Expect = 1.1
Identities = 23/123 (18%), Positives = 45/123 (36%), Gaps = 13/123 (10%)
Query: 206 KGCLLYGPPGTGKTL-LARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHL 264
+ LL P G+GKTL + LD+ V L + ++A + +LK +
Sbjct: 1 RDVLLAAPTGSGKTLAALLPILELLDSLKGGQV--LVLAPTRELANQVAERLKELFGEGI 58
Query: 265 EKTYFPFYSSAIVDKYIGES---------ARLIREMFN-YARNHQPCIIFMDEIDAIGGR 314
+ Y +S + + RL+ E+ + ++ +DE + +
Sbjct: 59 KVGYLIGGTSIKQQEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQ 118
Query: 315 RFS 317
F
Sbjct: 119 GFG 121
>gnl|CDD|235364 PRK05201, hslU, ATP-dependent protease ATP-binding subunit HslU;
Provisional.
Length = 443
Score = 32.0 bits (74), Expect = 1.1
Identities = 21/45 (46%), Positives = 27/45 (60%), Gaps = 3/45 (6%)
Query: 192 LNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 236
L EL R +TP K L+ GP G GKT +AR +A +A F+KV
Sbjct: 40 LPEEL--RDEVTP-KNILMIGPTGVGKTEIARRLAKLANAPFIKV 81
Score = 32.0 bits (74), Expect = 1.1
Identities = 21/45 (46%), Positives = 27/45 (60%), Gaps = 3/45 (6%)
Query: 511 LNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 555
L EL R +TP K L+ GP G GKT +AR +A +A F+KV
Sbjct: 40 LPEEL--RDEVTP-KNILMIGPTGVGKTEIARRLAKLANAPFIKV 81
Score = 29.7 bits (68), Expect = 6.5
Identities = 15/30 (50%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 302 IIFMDEIDAIGGRRFSEGTSADRE-IQRTL 330
I+F+DEID I R S G RE +QR L
Sbjct: 252 IVFIDEIDKIAARGGSSGPDVSREGVQRDL 281
Score = 29.7 bits (68), Expect = 6.5
Identities = 15/30 (50%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 586 IIFMDEIDAIGGRRFSEGTSADRE-IQRTL 614
I+F+DEID I R S G RE +QR L
Sbjct: 252 IVFIDEIDKIAARGGSSGPDVSREGVQRDL 281
>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 = 1.1
Identities = 30/132 (22%), Positives = 46/132 (34%), Gaps = 28/132 (21%)
Query: 104 CWTVIVKATNGPRYVVGCRRQLDKAKLKSGT-----RVALDMTTLTIMRYLPREVDPLVY 158
++ N + G R+ D AK+ A M+ LT ++ L + P
Sbjct: 14 IAEQLMLRANVSHELNGLGREGDLAKINGRPVIFLPSEAFSMSELTELQALLPQARPY-- 71
Query: 159 NMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKG--CLLYGPPGT 216
+ G S ++ELRE I+ P G L+ G GT
Sbjct: 72 ------LKSEALDDLIGESPSLQELREQIKA-------------YAPSGLPVLIIGETGT 112
Query: 217 GKTLLARAVASQ 228
GK L AR + +
Sbjct: 113 GKELFARLIHAL 124
Score = 30.4 bits (69), Expect = 3.4
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 527 CLLYGPPGTGKTLLARAVASQ 547
L+ G GTGK L AR + +
Sbjct: 104 VLIIGETGTGKELFARLIHAL 124
>gnl|CDD|224160 COG1239, ChlI, Mg-chelatase subunit ChlI [Coenzyme metabolism].
Length = 423
Score = 32.0 bits (73), Expect = 1.2
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 9/49 (18%)
Query: 182 ELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLD 230
L+ + L ++P++ G L+ G GT K+ LARA+A L
Sbjct: 24 PLKLALGLNAVDPQI---------GGALIAGEKGTAKSTLARALADLLP 63
Score = 31.6 bits (72), Expect = 1.4
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 525 KGCLLYGPPGTGKTLLARAVASQLD 549
G L+ G GT K+ LARA+A L
Sbjct: 39 GGALIAGEKGTAKSTLARALADLLP 63
>gnl|CDD|223679 COG0606, COG0606, Predicted ATPase with chaperone activity
[Posttranslational modification, protein turnover,
chaperones].
Length = 490
Score = 32.2 bits (74), Expect = 1.2
Identities = 21/63 (33%), Positives = 27/63 (42%), Gaps = 12/63 (19%)
Query: 209 LLYGPPGTGKTLLARAVASQL----DANFLKVVSSLFVTSKEDMAILMGNQLKR----RS 260
LL GPPGTGKT+LA + L L+V + + G LK R+
Sbjct: 202 LLVGPPGTGKTMLASRLPGLLPPLSIPEALEVSAIHSLAGDL----HEGCPLKIHRPFRA 257
Query: 261 THH 263
HH
Sbjct: 258 PHH 260
Score = 30.3 bits (69), Expect = 4.0
Identities = 12/15 (80%), Positives = 13/15 (86%)
Query: 528 LLYGPPGTGKTLLAR 542
LL GPPGTGKT+LA
Sbjct: 202 LLVGPPGTGKTMLAS 216
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 31.8 bits (73), Expect = 1.2
Identities = 28/81 (34%), Positives = 36/81 (44%), Gaps = 23/81 (28%)
Query: 528 LLYGPPGTGKTLLARAVASQL-----DANFLKVVSSAIVDKYIGESAR---LIREMF-NY 578
L GPPGTGKT A A+A +L NFL++ +S R +IR +
Sbjct: 42 LFAGPPGTGKTTAALALARELYGEDWRENFLELNAS---------DERGIDVIRNKIKEF 92
Query: 579 ARNHQPC-----IIFMDEIDA 594
AR IIF+DE D
Sbjct: 93 ARTAPVGGAPFKIIFLDEADN 113
Score = 31.4 bits (72), Expect = 1.5
Identities = 13/21 (61%), Positives = 15/21 (71%)
Query: 209 LLYGPPGTGKTLLARAVASQL 229
L GPPGTGKT A A+A +L
Sbjct: 42 LFAGPPGTGKTTAALALAREL 62
>gnl|CDD|221955 pfam13173, AAA_14, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily.
Length = 127
Score = 30.6 bits (70), Expect = 1.2
Identities = 15/66 (22%), Positives = 28/66 (42%), Gaps = 3/66 (4%)
Query: 528 LLYGPPGTGKTLLARAVASQLDA-NFLKVVSSAIVDKYIGESARLIREMFNYARNHQPCI 586
++ GP GKT L +L + N L + + +++ + + E F
Sbjct: 6 VITGPRQVGKTTLLLQFLKELLSENILYI--NLDDPRFLRLALLDLLEEFLKLLLPGKKY 63
Query: 587 IFMDEI 592
+F+DEI
Sbjct: 64 LFLDEI 69
>gnl|CDD|221919 pfam13094, CENP-Q, CENP-A-nucleosome distal (CAD) centromere
subunit. CENP-Q is one of the components that assembles
onto the CENP-A-nucleosome distal (CAD) centromere. The
centromere, which is the basic element of chromosome
inheritance, is epigenetically determined in mammals.
CENP-A, the centromere-specific histone H3 variant,
assembles an array of nucleosomes and it is this that
seems to be the prime candidate for specifying
centromere identity. CENP-A nucleosomes directly recruit
a proximal CENP-A nucleosome associated complex (NAC)
comprised of CENP-M, CENP-N and CENP-T, CENP-U(50),
CENP-C and CENP-H. Assembly of the CENP-A NAC at
centromeres is dependent on CENP-M, CENP-N and CENP-T.
Additionally, there are seven other subunits which make
up the CENP-A-nucleosome distal (CAD) centromere,
CENP-K, CENP-L, CENP-O, CENP-P, CENP-Q, CENP-R and
CENP-S, also assembling on the CENP-A NAC. Fta7 is the
equivalent component of the fission yeast Sim4 complex.
Length = 159
Score = 30.8 bits (70), Expect = 1.3
Identities = 11/71 (15%), Positives = 29/71 (40%)
Query: 16 DYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKEL 75
+ R++ E + L+E+ + K L ++ ++ +L + + + ++L Q L
Sbjct: 49 EIRREEAELEKDLEYLQELEKNAKALEREREEESKNLHPVLRLLESEVLEENELLQDSLL 108
Query: 76 TKQYDKSENDL 86
+L
Sbjct: 109 ELSERNFSPNL 119
>gnl|CDD|221803 pfam12846, AAA_10, AAA-like domain. This family of domains contain
a P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins.
Length = 316
Score = 31.6 bits (72), Expect = 1.4
Identities = 23/104 (22%), Positives = 42/104 (40%), Gaps = 9/104 (8%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIR----EMFNYARNH 582
L+ GP G+GK+ L + +A +L A +V+ ++D GE + L R E+ +
Sbjct: 4 MLIVGPSGSGKSTLLKLLALRLLARGGRVI---VIDP-KGEYSGLARALGGEVIDLGPGS 59
Query: 583 QPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDS 626
+ +D E + R++ L+ LL
Sbjct: 60 GISLNPLDIFPTGEDAEELEADAHARKLD-LLLALLELAALLGR 102
>gnl|CDD|222163 pfam13479, AAA_24, AAA domain. This AAA domain is found in a wide
variety of presumed phage proteins.
Length = 201
Score = 31.1 bits (71), Expect = 1.5
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 209 LLYGPPGTGKTLLAR 223
L+YGPPG GKT LA+
Sbjct: 7 LIYGPPGIGKTSLAK 21
Score = 31.1 bits (71), Expect = 1.5
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 528 LLYGPPGTGKTLLAR 542
L+YGPPG GKT LA+
Sbjct: 7 LIYGPPGIGKTSLAK 21
>gnl|CDD|213213 cd03246, ABCC_Protease_Secretion, ATP-binding cassette domain of
PrtD, subfamily C. This family represents the ABC
component of the protease secretion system PrtD, a
60-kDa integral membrane protein sharing 37% identity
with HlyB, the ABC component of the alpha-hemolysin
secretion pathway, in the C-terminal domain. They export
degradative enzymes by using a type I protein secretion
system and lack an N-terminal signal peptide, but
contain a C-terminal secretion signal. The Type I
secretion apparatus is made up of three components, an
ABC transporter, a membrane fusion protein (MFP), and an
outer membrane protein (OMP). For the HlyA transporter
complex, HlyB (ABC transporter) and HlyD (MFP) reside in
the inner membrane of E. coli. The OMP component is
TolC, which is thought to interact with the MFP to form
a continuous channel across the periplasm from the
cytoplasm to the exterior. HlyB belongs to the family of
ABC transporters, which are ubiquitous, ATP-dependent
transmembrane pumps or channels. The spectrum of
transport substrates ranges from inorganic ions,
nutrients such as amino acids, sugars, or peptides,
hydrophobic drugs, to large polypeptides, such as HlyA.
Length = 173
Score = 30.6 bits (70), Expect = 1.5
Identities = 40/179 (22%), Positives = 67/179 (37%), Gaps = 57/179 (31%)
Query: 512 NPELFQRVGITPPKGCLL--YGPPGTGKTLLARAVA-----------------SQLDANF 552
P + + V + G L GP G+GK+ LAR + SQ D N
Sbjct: 14 EPPVLRNVSFSIEPGESLAIIGPSGSGKSTLARLILGLLRPTSGRVRLDGADISQWDPNE 73
Query: 553 L-----------KVVSSAIVDKYI--GESAR--LIREMFNYARNHQPCIIFMDEIDAIGG 597
L ++ S +I + + G+ R L R ++ P I+ +DE ++
Sbjct: 74 LGDHVGYLPQDDELFSGSIAENILSGGQRQRLGLARALYG-----NPRILVLDEPNS--- 125
Query: 598 RRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPA----LLRPGRL 652
D E +R L + + + I+ +RP+TL A +L GR+
Sbjct: 126 -------HLDVEGERALNQAIAAL----KAAGATRIVIAHRPETLASADRILVLEDGRV 173
Score = 29.9 bits (68), Expect = 2.7
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 193 NPELFQRVGITPPKGCLL--YGPPGTGKTLLARAVA 226
P + + V + G L GP G+GK+ LAR +
Sbjct: 14 EPPVLRNVSFSIEPGESLAIIGPSGSGKSTLARLIL 49
>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 = 1.5
Identities = 20/61 (32%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 30 RLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQYDKSENDLKAL 89
L+E+ E+LKEL ++ +K + LK L L REQL++L + +K +L+ L
Sbjct: 335 ELKELEEELKELEEELEKIKKLLKKLPK-KARGQLPPEKREQLEKLLETKEKLSEELEEL 393
Query: 90 Q 90
+
Sbjct: 394 E 394
>gnl|CDD|177083 CHL00181, cbbX, CbbX; Provisional.
Length = 287
Score = 31.2 bits (71), Expect = 1.5
Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 10/68 (14%)
Query: 531 GPPGTGKTLLARAVASQL-------DANFLKVVSSAIVDKYIGESARLIREMFNYARNHQ 583
G PGTGKT +A +A L + L V +V +YIG +A +E+ A
Sbjct: 66 GSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDLVGQYIGHTAPKTKEVLKKAMGG- 124
Query: 584 PCIIFMDE 591
++F+DE
Sbjct: 125 --VLFIDE 130
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 31.7 bits (73), Expect = 1.6
Identities = 21/60 (35%), Positives = 30/60 (50%), Gaps = 12/60 (20%)
Query: 486 AVRKVSDNKKLESKLDYKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 545
AVR V LE DY L+ +L +R+ +G L+ G PG GK+ A+A+A
Sbjct: 231 AVRPVVK-LSLE---DYN-------LSEKLKERL-EERAEGILIAGAPGAGKSTFAQALA 278
>gnl|CDD|218685 pfam05673, DUF815, Protein of unknown function (DUF815). This
family consists of several bacterial proteins of unknown
function.
Length = 248
Score = 30.9 bits (71), Expect = 1.7
Identities = 17/64 (26%), Positives = 32/64 (50%), Gaps = 7/64 (10%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDK-YIGESARLIREMFNYARNHQPCI 586
LL+G GTGK+ L +A+ ++ L+++ VDK +G+ ++ + I
Sbjct: 57 LLWGARGTGKSSLVKALLNEYADQGLRLIE---VDKDDLGDLPDIVDLLRGRP---YRFI 110
Query: 587 IFMD 590
+F D
Sbjct: 111 LFCD 114
Score = 29.4 bits (67), Expect = 6.2
Identities = 13/43 (30%), Positives = 24/43 (55%), Gaps = 4/43 (9%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAIL 251
LL+G GTGK+ L +A+ ++ L+++ K+D+ L
Sbjct: 57 LLWGARGTGKSSLVKALLNEYADQGLRLIE----VDKDDLGDL 95
>gnl|CDD|233208 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family
protein. [Transport and binding proteins, Other].
Length = 1394
Score = 31.6 bits (72), Expect = 1.7
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 521 ITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAI 560
I P + ++ G PG+G + L + +AS D F V I
Sbjct: 84 IKPGELTVVLGRPGSGCSTLLKTIASNTD-GFHIGVEGVI 122
Score = 30.5 bits (69), Expect = 4.3
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 202 ITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSS 239
I P + ++ G PG+G + L + +AS D F V
Sbjct: 84 IKPGELTVVLGRPGSGCSTLLKTIASNTD-GFHIGVEG 120
>gnl|CDD|220440 pfam09848, DUF2075, Uncharacterized conserved protein (DUF2075).
This domain, found in various prokaryotic proteins
(including putative ATP/GTP binding proteins), has no
known function.
Length = 348
Score = 31.4 bits (72), Expect = 1.7
Identities = 21/86 (24%), Positives = 35/86 (40%), Gaps = 23/86 (26%)
Query: 527 CLLYGPPGTGKTLLARAVASQLD-------ANFLKVVSSAIVDKY----IGESARLIREM 575
L+ G PGTGKT++A + ++L A FL + +V G+ +++
Sbjct: 4 FLVTGGPGTGKTVVALNLFAELSDSDLGRTAVFL-SGNHPLVLVLYEALAGDLKVRKKKL 62
Query: 576 FNY----------ARNHQPCIIFMDE 591
F A H+ +I DE
Sbjct: 63 FRKPTSFINNLHKAPPHEDVVIV-DE 87
Score = 29.5 bits (67), Expect = 7.1
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 208 CLLYGPPGTGKTLLARAVASQL 229
L+ G PGTGKT++A + ++L
Sbjct: 4 FLVTGGPGTGKTVVALNLFAEL 25
>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 = 30.9 bits (71), Expect = 1.8
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 212 GPPGTGKTLLARAVASQL 229
GP GTGKT LA A A
Sbjct: 26 GPAGTGKTYLAVAAAVDA 43
Score = 30.9 bits (71), Expect = 1.8
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 531 GPPGTGKTLLARAVASQL 548
GP GTGKT LA A A
Sbjct: 26 GPAGTGKTYLAVAAAVDA 43
>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 = 31.1 bits (71), Expect = 1.9
Identities = 16/67 (23%), Positives = 27/67 (40%), Gaps = 7/67 (10%)
Query: 195 ELFQRVGITPPKGCL-LYGPPGTGKT-LLARAVASQLDANFLKVVS----SLFVTSKEDM 248
+ + + L G G+GK+ LLA+A+A ++ V+ +V D
Sbjct: 12 KKLKEADASKKVVRFVLTGERGSGKSVLLAQAMAYAFTQGWI-VLHVPEAEDWVNGTTDY 70
Query: 249 AILMGNQ 255
A GN
Sbjct: 71 APDPGNP 77
Score = 31.1 bits (71), Expect = 2.0
Identities = 10/42 (23%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 514 ELFQRVGITPPKGCL-LYGPPGTGKT-LLARAVASQLDANFL 553
+ + + L G G+GK+ LLA+A+A ++
Sbjct: 12 KKLKEADASKKVVRFVLTGERGSGKSVLLAQAMAYAFTQGWI 53
>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 = 30.9 bits (70), Expect = 1.9
Identities = 29/128 (22%), Positives = 49/128 (38%), Gaps = 14/128 (10%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYF 269
+YGPPGTGKT +A +A + KV ++ D L + ++ + E+
Sbjct: 24 VYGPPGTGKTNIAIQLAVETAGQGKKVA---YI----DTEGLSSERFRQIAGDRPERAAS 76
Query: 270 PFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRT 329
+D E R I+E +A ++ +D+ E D I +
Sbjct: 77 SIIVFEPMD--FNEQGRAIQETETFADEKVDLVV----VDSATALYRLELGDDDTTI-KN 129
Query: 330 LMELLNQM 337
EL Q+
Sbjct: 130 YRELAKQL 137
Score = 30.5 bits (69), Expect = 2.4
Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMF 576
+YGPPGTGKT +A +A + KV +D S R R++
Sbjct: 24 VYGPPGTGKTNIAIQLAVETAGQGKKVA---YIDTEGLSSER-FRQIA 67
>gnl|CDD|182120 PRK09862, PRK09862, putative ATP-dependent protease; Provisional.
Length = 506
Score = 31.1 bits (70), Expect = 2.1
Identities = 21/58 (36%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 209 LLYGPPGTGKTLLARAVASQL-DANFLKVVSSLFVTSKEDMAILMGNQLKR--RSTHH 263
LL GPPGTGKT+LA + L D + + + S + S + + +R RS HH
Sbjct: 214 LLIGPPGTGKTMLASRINGLLPDLSNEEALESAAILSLVNAESVQKQWRQRPFRSPHH 271
Score = 30.3 bits (68), Expect = 3.7
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 10/46 (21%)
Query: 528 LLYGPPGTGKTLLARAVASQL----------DANFLKVVSSAIVDK 563
LL GPPGTGKT+LA + L A L +V++ V K
Sbjct: 214 LLIGPPGTGKTMLASRINGLLPDLSNEEALESAAILSLVNAESVQK 259
>gnl|CDD|237495 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional.
Length = 637
Score = 31.5 bits (72), Expect = 2.2
Identities = 11/21 (52%), Positives = 17/21 (80%)
Query: 209 LLYGPPGTGKTLLARAVASQL 229
++ G PGTGK++LA+A+A L
Sbjct: 54 MMIGSPGTGKSMLAKAMAELL 74
Score = 31.5 bits (72), Expect = 2.2
Identities = 11/21 (52%), Positives = 17/21 (80%)
Query: 528 LLYGPPGTGKTLLARAVASQL 548
++ G PGTGK++LA+A+A L
Sbjct: 54 MMIGSPGTGKSMLAKAMAELL 74
>gnl|CDD|173962 cd07978, TAF13, The TATA Binding Protein (TBP) Associated Factor 13
(TAF13) is one of several TAFs that bind TBP and is
involved in forming Transcription Factor IID (TFIID)
complex. The TATA Binding Protein (TBP) Associated
Factor 13 (TAF13) is one of several TAFs that bind TBP
and is involved in forming the Transcription Factor
IID (TFIID) complex. TFIID is one of seven General
Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE,
TFIIF, and TFIID) that are involved in accurate
initiation of transcription by RNA polymerase II in
eukaryotes. TFIID plays an important role in the
recognition of promoter DNA and assembly of the
pre-initiation complex. TFIID complex is composed of the
TBP and at least 13 TAFs. TAFs from various species were
originally named by their predicted molecular weight or
their electrophoretic mobility in polyacrylamide gels. A
new, unified nomenclature for the pol II TAFs has been
suggested to show the relationship between TAFs
orthologs and paralogs. Several hypotheses are proposed
for TAFs functions such as serving as activator-binding
sites, core-promoter recognition or a role in essential
catalytic activity. Each TAF, with the help of a
specific activator, is required only for expression of
subset of genes and is not universally involved for
transcription as are GTFs. In yeast and human cells,
TAFs have been found as components of other complexes
besides TFIID. Several TAFs interact via histone-fold
(HFD) motifs; the HFD is the interaction motif involved
in heterodimerization of the core histones and their
assembly into nucleosome octamers. The minimal HFD
contains three alpha-helices linked by two loops and are
found in core histones, TAFs and many other
transcription factors. TFIID has a histone octamer-like
substructure. TAF13 interacts with TAF11 and makes a
histone-like heterodimer similar to H3/H4-like proteins.
The dimer may be structurally and functionally similar
to the spt3 protein within the SAGA histone
acetyltransferase complex.
Length = 92
Score = 29.0 bits (66), Expect = 2.2
Identities = 20/74 (27%), Positives = 30/74 (40%), Gaps = 18/74 (24%)
Query: 419 LRNVCTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKKLDHCNSYRTEAGLFAIRSEREYV 478
+ +C +A A + R V ED + +RK D KKL RE +
Sbjct: 37 IIELCHKAAEVA-QRRRGKVKVEDLIFLLRK--DPKKLARL---------------RELL 78
Query: 479 TQEDFMKAVRKVSD 492
+ +D +K RK D
Sbjct: 79 SMKDELKKARKAFD 92
>gnl|CDD|224027 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 30.4 bits (69), Expect = 2.3
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 531 GPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARL-IREMFNYARNH 582
G PG+GKT +AR +A L LK+VS+ + + + + + E YA
Sbjct: 7 GLPGSGKTTVARELAEHLG---LKLVSAGTIFREMARERGMSLEEFSRYAEED 56
>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 = 31.1 bits (70), Expect = 2.3
Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 6/48 (12%)
Query: 195 ELFQRVGITPPKGCLLYGPPGTGKTLLARAVAS------QLDANFLKV 236
E +RV I LL GP G GK+ LAR + Q F++V
Sbjct: 198 EQIERVAIRSRAPILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEV 245
Score = 31.1 bits (70), Expect = 2.3
Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 6/48 (12%)
Query: 514 ELFQRVGITPPKGCLLYGPPGTGKTLLARAVAS------QLDANFLKV 555
E +RV I LL GP G GK+ LAR + Q F++V
Sbjct: 198 EQIERVAIRSRAPILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEV 245
>gnl|CDD|224616 COG1702, PhoH, Phosphate starvation-inducible protein PhoH,
predicted ATPase [Signal transduction mechanisms].
Length = 348
Score = 31.1 bits (71), Expect = 2.4
Identities = 11/19 (57%), Positives = 11/19 (57%)
Query: 212 GPPGTGKTLLARAVASQLD 230
GP GTGKT LA A A
Sbjct: 150 GPAGTGKTYLAVAKAVDAL 168
Score = 31.1 bits (71), Expect = 2.4
Identities = 11/19 (57%), Positives = 11/19 (57%)
Query: 531 GPPGTGKTLLARAVASQLD 549
GP GTGKT LA A A
Sbjct: 150 GPAGTGKTYLAVAKAVDAL 168
>gnl|CDD|218956 pfam06248, Zw10, Centromere/kinetochore Zw10. Zw10 and rough deal
proteins are both required for correct metaphase
check-pointing during mitosis. These proteins bind to
the centromere/kinetochore.
Length = 593
Score = 31.2 bits (71), Expect = 2.5
Identities = 20/80 (25%), Positives = 30/80 (37%), Gaps = 8/80 (10%)
Query: 26 EVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQYDKSEND 85
E+ L + E+L EL +Q ++ LK LQ + + L E L K Y
Sbjct: 73 EILQDLNDAVEELAELKRQLEEKILGLKILQKLLKIHEALEETNEALSG--KDY------ 124
Query: 86 LKALQSVGQVSLSTSVSKCW 105
LKA + + K
Sbjct: 125 LKAADLLEKAKSLLDGLKSR 144
>gnl|CDD|224768 COG1855, COG1855, ATPase (PilT family) [General function prediction
only].
Length = 604
Score = 31.2 bits (71), Expect = 2.5
Identities = 17/47 (36%), Positives = 29/47 (61%), Gaps = 5/47 (10%)
Query: 503 KPVIELPL----LNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 545
+PV++L L L+ +L +R+ +G L+ G PG GK+ A+A+A
Sbjct: 239 RPVVKLSLEDYGLSDKLKERL-EERAEGILIAGAPGAGKSTFAQALA 284
Score = 30.0 bits (68), Expect = 5.2
Identities = 22/100 (22%), Positives = 35/100 (35%), Gaps = 23/100 (23%)
Query: 149 LPREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELP------------------ 190
L ++ + I G Q+R R VI P
Sbjct: 186 LEEIAREIIERAKRDPDSFIEIDRPGATVVQLRNYRIVIARPPFSDRWEITAVRPVVKLS 245
Query: 191 ----LLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 226
L+ +L +R+ +G L+ G PG GK+ A+A+A
Sbjct: 246 LEDYGLSDKLKERL-EERAEGILIAGAPGAGKSTFAQALA 284
>gnl|CDD|225804 COG3265, GntK, Gluconate kinase [Carbohydrate transport and
metabolism].
Length = 161
Score = 30.0 bits (68), Expect = 2.6
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 212 GPPGTGKTLLARAVASQLDANFL 234
G G+GK+ + A+A +L A F+
Sbjct: 2 GVSGSGKSTVGSALAERLGAKFI 24
Score = 30.0 bits (68), Expect = 2.6
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 531 GPPGTGKTLLARAVASQLDANFL 553
G G+GK+ + A+A +L A F+
Sbjct: 2 GVSGSGKSTVGSALAERLGAKFI 24
>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 = 30.7 bits (70), Expect = 2.7
Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 15/58 (25%)
Query: 517 QRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIRE 574
QR+GI + G GK+ L +A A+ V IGE R +RE
Sbjct: 146 QRIGI--------FAGAGVGKSTLLGMIARGASAD-------VNVIALIGERGREVRE 188
>gnl|CDD|223994 COG1067, LonB, Predicted ATP-dependent protease [Posttranslational
modification, protein turnover, chaperones].
Length = 647
Score = 31.2 bits (71), Expect = 2.7
Identities = 30/128 (23%), Positives = 54/128 (42%), Gaps = 28/128 (21%)
Query: 345 QVKMIMATNRPD-----TLDPALLRPGRLDRKIEIPLPN---EQARLAHTWPISIHAGPI 396
+K+I+A NR D D + + + + E +P +++L + +
Sbjct: 276 DLKLILAGNREDLEDLHEPDRSRIEGFGYEAEFEDTMPITDANRSKLVQFY-----VQEL 330
Query: 397 AKHGEI---DYEAVVKL------------SDSFNGADLRNVCTEAGLFAIRSEREYVTQE 441
A+ G I D +AV +L + DL N+ EAG A+ R+ +T E
Sbjct: 331 ARDGNIPHLDKDAVEELIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEGRKLITAE 390
Query: 442 DFMKAVRK 449
D +A++K
Sbjct: 391 DVEEALQK 398
>gnl|CDD|236482 PRK09361, radB, DNA repair and recombination protein RadB;
Provisional.
Length = 225
Score = 30.2 bits (69), Expect = 2.8
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFLKVV 237
+YGPPG+GKT + +A + N KV+
Sbjct: 28 IYGPPGSGKTNICLQLAVEAAKNGKKVI 55
Score = 30.2 bits (69), Expect = 2.8
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVV 556
+YGPPG+GKT + +A + N KV+
Sbjct: 28 IYGPPGSGKTNICLQLAVEAAKNGKKVI 55
>gnl|CDD|222444 pfam13901, DUF4206, Domain of unknown function (DUF4206). This is
a family of cysteine-rich proteins. Many members also
carry a pleckstrin-homology domain, pfam00169.
Length = 202
Score = 29.9 bits (68), Expect = 3.1
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 482 DFMKAVRKVSD-NKKLESKLDYKPVIELPLLNPELFQRV 519
DF K VS K+L ++ +P+ +L LNP L+ +V
Sbjct: 31 DFTK--YPVSRFAKRLLEQIYEQPLFDLRDLNPSLYSKV 67
>gnl|CDD|216004 pfam00580, UvrD-helicase, UvrD/REP helicase N-terminal domain. The
Rep family helicases are composed of four structural
domains. The Rep family function as dimers. REP
helicases catalyze ATP dependent unwinding of double
stranded DNA to single stranded DNA. Some members have
large insertions near to the carboxy-terminus relative
to other members of the family.
Length = 267
Score = 30.3 bits (69), Expect = 3.4
Identities = 23/80 (28%), Positives = 32/80 (40%), Gaps = 8/80 (10%)
Query: 192 LNPELFQRVGITPPKG-CLLYGPPGTGKT-LLARAVASQLDANFLKVVSSLFVTSKEDMA 249
LNPE QR +T G L+ G+GKT +L +A + + L VT A
Sbjct: 1 LNPE--QRKAVTHLGGPLLVLAGAGSGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAA 58
Query: 250 ILMGNQLKRRSTHHLEKTYF 269
++K R L K
Sbjct: 59 ----REMKERILKLLGKAEL 74
Score = 29.9 bits (68), Expect = 4.0
Identities = 13/29 (44%), Positives = 16/29 (55%), Gaps = 3/29 (10%)
Query: 511 LNPELFQRVGITPPKG-CLLYGPPGTGKT 538
LNPE QR +T G L+ G+GKT
Sbjct: 1 LNPE--QRKAVTHLGGPLLVLAGAGSGKT 27
>gnl|CDD|183088 PRK11331, PRK11331, 5-methylcytosine-specific restriction enzyme
subunit McrB; Provisional.
Length = 459
Score = 30.4 bits (68), Expect = 3.4
Identities = 14/28 (50%), Positives = 18/28 (64%)
Query: 202 ITPPKGCLLYGPPGTGKTLLARAVASQL 229
+T K +L GPPG GKT +AR +A L
Sbjct: 191 LTIKKNIILQGPPGVGKTFVARRLAYLL 218
Score = 30.4 bits (68), Expect = 3.4
Identities = 14/28 (50%), Positives = 18/28 (64%)
Query: 521 ITPPKGCLLYGPPGTGKTLLARAVASQL 548
+T K +L GPPG GKT +AR +A L
Sbjct: 191 LTIKKNIILQGPPGVGKTFVARRLAYLL 218
>gnl|CDD|225713 COG3172, NadR, Predicted ATPase/kinase involved in NAD metabolism
[Coenzyme metabolism].
Length = 187
Score = 29.7 bits (67), Expect = 3.5
Identities = 14/83 (16%), Positives = 31/83 (37%), Gaps = 12/83 (14%)
Query: 531 GPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIG--------ESARLIREMFNY---A 579
G +GK+ L +A+ + V +++G + A++ Y A
Sbjct: 15 GGESSGKSTLVNKLANIFNTTSAWEYGREYVFEHLGGDEALQYSDYAKIALGQAAYEDAA 74
Query: 580 RNHQPCIIFMDEIDAIGGRRFSE 602
+ + F+D D + + F +
Sbjct: 75 VRYANKVAFID-TDFLTTQAFCK 96
>gnl|CDD|217465 pfam03266, NTPase_1, NTPase. This domain is found across all
species from bacteria to human, and the function was
determined first in a hyperthermophilic bacterium to be
an NTPase. The structure of one member-sequence
represents a variation of the RecA fold, and implies
that the function might be that of a DNA/RNA modifying
enzyme. The sequence carries both a Walker A and Walker
B motif which together are characteristic of ATPases or
GTPases. The protein exhibits an increased expression
profile in human liver cholangiocarcinoma when compared
to normal tissue.
Length = 168
Score = 29.5 bits (67), Expect = 3.5
Identities = 15/38 (39%), Positives = 19/38 (50%), Gaps = 8/38 (21%)
Query: 199 RVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 236
R+ IT GPPG GKT L + V L + +KV
Sbjct: 1 RIFIT--------GPPGVGKTTLVKKVIELLKSEGVKV 30
Score = 29.5 bits (67), Expect = 3.5
Identities = 15/38 (39%), Positives = 19/38 (50%), Gaps = 8/38 (21%)
Query: 518 RVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 555
R+ IT GPPG GKT L + V L + +KV
Sbjct: 1 RIFIT--------GPPGVGKTTLVKKVIELLKSEGVKV 30
>gnl|CDD|223311 COG0233, Frr, Ribosome recycling factor [Translation, ribosomal
structure and biogenesis].
Length = 187
Score = 29.9 bits (68), Expect = 3.6
Identities = 17/63 (26%), Positives = 33/63 (52%), Gaps = 15/63 (23%)
Query: 19 KKLTEHAEVEGR--LREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELT 76
KK E A+V R R+ +++K+L K + SE+++K + E++++LT
Sbjct: 120 KKYAEEAKVAVRNIRRDANDKIKKLEKDKEISEDEVKKAE-------------EEIQKLT 166
Query: 77 KQY 79
+Y
Sbjct: 167 DEY 169
>gnl|CDD|183521 PRK12422, PRK12422, chromosomal replication initiation protein;
Provisional.
Length = 445
Score = 30.6 bits (69), Expect = 3.6
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 3/35 (8%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTS 244
L+GP G+GKT L +A L + K+ L+V S
Sbjct: 146 LFGPEGSGKTHLMQAAVHALRESGGKI---LYVRS 177
>gnl|CDD|182730 PRK10787, PRK10787, DNA-binding ATP-dependent protease La;
Provisional.
Length = 784
Score = 30.7 bits (69), Expect = 3.8
Identities = 27/100 (27%), Positives = 46/100 (46%), Gaps = 13/100 (13%)
Query: 521 ITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDK---------YIGE-SAR 570
I P CL+ GPPG GKT L +++A ++++ + D+ YIG +
Sbjct: 347 IKGPILCLV-GPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHRRTYIGSMPGK 405
Query: 571 LIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREI 610
LI++M + + +DEID + + SA E+
Sbjct: 406 LIQKMAKVGVKNP--LFLLDEIDKMSSDMRGDPASALLEV 443
>gnl|CDD|200217 TIGR02880, cbbX_cfxQ, probable Rubsico expression protein CbbX.
Proteins in this family are now designated CbbX. Some
previously were CfxQ (carbon fixation Q). Its gene is
often found immmediately downstream of the Rubisco large
and small chain genes, and it is suggested to be
necessary for Rubisco expression. CbbX has been shown to
be necessary for photoautotrophic growth. This protein
belongs to the larger family of pfam00004, ATPase family
Associated with various cellular Activities. Within that
larger family, members of this family are most closely
related to the stage V sporulation protein K, or SpoVK,
in endospore-forming bacteria such as Bacillus subtilis.
Length = 284
Score = 30.2 bits (68), Expect = 3.9
Identities = 21/68 (30%), Positives = 33/68 (48%), Gaps = 10/68 (14%)
Query: 531 GPPGTGKTLLARAVASQL-------DANFLKVVSSAIVDKYIGESARLIREMFNYARNHQ 583
G PGTGKT +A +A L + + V +V +YIG +A +E+ A
Sbjct: 65 GNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRA---M 121
Query: 584 PCIIFMDE 591
++F+DE
Sbjct: 122 GGVLFIDE 129
>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 = 29.5 bits (67), Expect = 4.0
Identities = 29/127 (22%), Positives = 49/127 (38%), Gaps = 22/127 (17%)
Query: 524 PKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVD-----KYIGESARLIRE--MF 576
P LL G PG GKT LARA+ +L + +D Y + L +
Sbjct: 12 PVAVLLGGQPGAGKTELARALLEELGG-----GNVVRIDPDELRTYHPDYDELQKADPKD 66
Query: 577 NYARNHQPCIIFMDE-IDAIGGRRFS---EGTSADREIQRTLMELLNQMDGFDSLGQVK- 631
++++ ID R ++ EGT ++ R L L + G+ +V+
Sbjct: 67 ASELTQPDASRWVEKLIDYAIERGYNIILEGTLRSPDVARKLARKL-KAAGY----EVEV 121
Query: 632 MIMATNR 638
++A
Sbjct: 122 YVVAVPP 128
>gnl|CDD|235331 PRK05022, PRK05022, anaerobic nitric oxide reductase transcription
regulator; Provisional.
Length = 509
Score = 30.5 bits (70), Expect = 4.0
Identities = 23/91 (25%), Positives = 39/91 (42%), Gaps = 17/91 (18%)
Query: 135 RVALDMTTLTIMRYLPREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNP 194
R AL + L LP++V G++ G S +++L++ IE+ +
Sbjct: 157 RNALLIEQLESQAELPQDVAE-FLRQEALKEGEMI-----GQSPAMQQLKKEIEV-VAAS 209
Query: 195 ELFQRVGITPPKGCLLYGPPGTGKTLLARAV 225
+L L+ G G GK L+ARA+
Sbjct: 210 DLN----------VLILGETGVGKELVARAI 230
>gnl|CDD|225114 COG2204, AtoC, Response regulator containing CheY-like receiver,
AAA-type ATPase, and DNA-binding domains [Signal
transduction mechanisms].
Length = 464
Score = 30.4 bits (69), Expect = 4.3
Identities = 35/128 (27%), Positives = 56/128 (43%), Gaps = 25/128 (19%)
Query: 528 LLYGPPGTGKTLLARAV---ASQLDANFLKVVSSAIVDKYIGESARLIREMFNYAR---- 580
L+ G GTGK L+ARA+ + + F+ V +AI + L E+F + +
Sbjct: 168 LITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPE------NLLESELFGHEKGAFT 221
Query: 581 -NHQPCIIFMDEIDAIGGRRF-SEGTSADREIQRTLMELLNQMDGFDSLG-------QVK 631
I ++ + GG F E E+Q L+ +L Q F+ +G V+
Sbjct: 222 GAITRRIGRFEQAN--GGTLFLDEIGEMPLELQVKLLRVL-QEREFERVGGNKPIKVDVR 278
Query: 632 MIMATNRP 639
+I ATNR
Sbjct: 279 IIAATNRD 286
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 29.1 bits (66), Expect = 4.9
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 210 LYGPPGTGKTLLARAVASQ 228
+ G P TGKT L A+A++
Sbjct: 4 ITGGPSTGKTTLLEALAAR 22
Score = 29.1 bits (66), Expect = 4.9
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 529 LYGPPGTGKTLLARAVASQ 547
+ G P TGKT L A+A++
Sbjct: 4 ITGGPSTGKTTLLEALAAR 22
>gnl|CDD|227278 COG4942, COG4942, Membrane-bound metallopeptidase [Cell division
and chromosome partitioning].
Length = 420
Score = 30.1 bits (68), Expect = 5.0
Identities = 16/86 (18%), Positives = 29/86 (33%), Gaps = 13/86 (15%)
Query: 5 VVDEVRHKTLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLL 64
D+ + ++ + E + + ++ +QLK L + E L
Sbjct: 35 ADDKQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETAD------- 87
Query: 65 LHCVREQLKELTKQYDKSENDLKALQ 90
LK+L KQ L AL+
Sbjct: 88 ------DLKKLRKQIADLNARLNALE 107
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 30.0 bits (68), Expect = 5.1
Identities = 17/74 (22%), Positives = 28/74 (37%), Gaps = 21/74 (28%)
Query: 476 EYVTQEDFMKAVRKVS----DNKKLESKLDYKPVIELPLLNPELFQRVGITPPKGCLLYG 531
++ D + +S D + L S+L+ + P + L+ G
Sbjct: 384 DFDDNADHGITLENLSLRTPDGQTLLSELN-----------------FEVRPGERLLITG 426
Query: 532 PPGTGKTLLARAVA 545
G GKT L RA+A
Sbjct: 427 ESGAGKTSLLRALA 440
Score = 30.0 bits (68), Expect = 6.0
Identities = 13/37 (35%), Positives = 18/37 (48%), Gaps = 3/37 (8%)
Query: 190 PLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 226
LL+ + P + L+ G G GKT L RA+A
Sbjct: 407 TLLSE---LNFEVRPGERLLITGESGAGKTSLLRALA 440
>gnl|CDD|206034 pfam13863, DUF4200, Domain of unknown function (DUF4200). This
family is found in eukaryotes. It is a coiled-coil
domain of unknwon function.
Length = 126
Score = 28.7 bits (65), Expect = 5.1
Identities = 17/82 (20%), Positives = 41/82 (50%), Gaps = 5/82 (6%)
Query: 14 LQDYRKKLTEHAEVEGRLREMREQLKELTKQYDK--SENDLK---ALQSVGQHDLLLHCV 68
+++ ++ + E L + E+L+E ++DK EN+ K A + + L
Sbjct: 20 REEFERREELLKQREEELEKKEEELQESLIKFDKFLKENEAKRRRAEKKAEEEKKLRKEK 79
Query: 69 REQLKELTKQYDKSENDLKALQ 90
E++KEL + ++ + +++ L+
Sbjct: 80 EEEIKELKAELEELKAEIEKLE 101
>gnl|CDD|233793 TIGR02237, recomb_radB, DNA repair and recombination protein RadB.
This family consists exclusively of archaeal RadB
protein, a homolog of bacterial RecA (TIGR02012),
eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and
archaeal RadA (TIGR02236).
Length = 209
Score = 29.3 bits (66), Expect = 5.4
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFLKVV 237
+YGPPG+GKT + +A KVV
Sbjct: 17 IYGPPGSGKTNICMILAVNAARQGKKVV 44
Score = 29.3 bits (66), Expect = 5.4
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVV 556
+YGPPG+GKT + +A KVV
Sbjct: 17 IYGPPGSGKTNICMILAVNAARQGKKVV 44
>gnl|CDD|189476 pfam00261, Tropomyosin, Tropomyosin.
Length = 237
Score = 29.5 bits (67), Expect = 5.4
Identities = 27/85 (31%), Positives = 43/85 (50%), Gaps = 12/85 (14%)
Query: 19 KKL----TEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQ---HDL-----LLH 66
KK+ E + E RL E +E+L+E K+ +K+E ++ +L Q DL L
Sbjct: 1 KKIKQLEEELDKAEERLEEAQEKLEEAEKRAEKAEAEVASLNRRIQLLEEDLERSEERLA 60
Query: 67 CVREQLKELTKQYDKSENDLKALQS 91
E+L+E K D+SE K L++
Sbjct: 61 TALEKLEEAEKAADESERGRKVLEN 85
>gnl|CDD|136670 PRK08181, PRK08181, transposase; Validated.
Length = 269
Score = 29.5 bits (66), Expect = 5.4
Identities = 15/35 (42%), Positives = 21/35 (60%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVD 562
LL+GPPG GK+ LA A+ L N +V+ + D
Sbjct: 110 LLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTD 144
Score = 29.1 bits (65), Expect = 8.1
Identities = 14/29 (48%), Positives = 19/29 (65%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVV 237
LL+GPPG GK+ LA A+ L N +V+
Sbjct: 110 LLFGPPGGGKSHLAAAIGLALIENGWRVL 138
>gnl|CDD|217803 pfam03938, OmpH, Outer membrane protein (OmpH-like). This family
includes outer membrane proteins such as OmpH among
others. Skp (OmpH) has been characterized as a molecular
chaperone that interacts with unfolded proteins as they
emerge in the periplasm from the Sec translocation
machinery.
Length = 157
Score = 29.1 bits (66), Expect = 5.5
Identities = 13/86 (15%), Positives = 33/86 (38%), Gaps = 16/86 (18%)
Query: 15 QDYRKKL-TEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLK 73
+ +K+L E +++ L++ ++L++ ++ K L E K
Sbjct: 34 KAAQKQLEKEFKKLQAELQKKEKELQKEEQKLQKQAATLSE---------------EARK 78
Query: 74 ELTKQYDKSENDLKALQSVGQVSLST 99
++ + + +L+ Q Q L
Sbjct: 79 AKQQELQQKQQELQQKQQAAQQELQQ 104
>gnl|CDD|216548 pfam01519, DUF16, Protein of unknown function DUF16. The
function of this protein is unknown. It appears to only
occur in Mycoplasma pneumoniae. The crystal structure
revealed that this domain is composed of two separated
homotrimeric coiled-coils.
Length = 96
Score = 27.8 bits (62), Expect = 5.6
Identities = 23/80 (28%), Positives = 41/80 (51%), Gaps = 8/80 (10%)
Query: 9 VRHKTLQDYR----KKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQ-SVGQHDL 63
V HK +++ ++LT+ +E +L EQ+++LT+ DK +K LQ
Sbjct: 19 VTHKQFDEFKDANNQRLTK---IETKLDAQGEQIRKLTQTVDKQGEQIKELQVEQKAQGE 75
Query: 64 LLHCVREQLKELTKQYDKSE 83
L + E L+++ K+ DK E
Sbjct: 76 TLQLILETLQKINKRLDKIE 95
>gnl|CDD|213200 cd03233, ABCG_PDR_domain1, First domain of the pleiotropic drug
resistance-like subfamily G of ATP-binding cassette
transporters. The pleiotropic drug resistance (PDR) is
a well-described phenomenon occurring in fungi and
shares several similarities with processes in bacteria
and higher eukaryotes. This PDR subfamily represents
domain I of its (ABC-IM)2 organization. ABC transporters
are a large family of proteins involved in the transport
of a wide variety of different compounds including
sugars, ions, peptides, and more complex organic
molecules. The nucleotide-binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 202
Score = 29.2 bits (66), Expect = 5.7
Identities = 9/24 (37%), Positives = 17/24 (70%)
Query: 209 LLYGPPGTGKTLLARAVASQLDAN 232
L+ G PG+G + L +A+A++ + N
Sbjct: 37 LVLGRPGSGCSTLLKALANRTEGN 60
Score = 29.2 bits (66), Expect = 5.7
Identities = 9/24 (37%), Positives = 17/24 (70%)
Query: 528 LLYGPPGTGKTLLARAVASQLDAN 551
L+ G PG+G + L +A+A++ + N
Sbjct: 37 LVLGRPGSGCSTLLKALANRTEGN 60
>gnl|CDD|220388 pfam09766, FimP, Fms-interacting protein. This entry carries part
of the crucial 144 N-terminal residues of the FmiP
protein, which is essential for the binding of the
protein to the cytoplasmic domain of activated
Fms-molecules in M-CSF induced haematopoietic
differentiation of macrophages. The C-terminus contains
a putative nuclear localisation sequence and a leucine
zipper which suggest further, as yet unknown, nuclear
functions. The level of FMIP expression might form a
threshold that determines whether cells differentiate
into macrophages or into granulocytes.
Length = 352
Score = 29.6 bits (67), Expect = 5.7
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 19 KKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQS 57
L EH + RL EQ KEL ++ + E++ + LQ
Sbjct: 84 TPLDEHNLMLARLEWELEQRKELAEKLKELESEKEKLQQ 122
>gnl|CDD|116541 pfam07931, CPT, Chloramphenicol phosphotransferase-like protein.
The members of this family are all similar to
chloramphenicol 3-O phosphotransferase (CPT) expressed
by Streptomyces venezuelae. Chloramphenicol (Cm) is a
metabolite produced by this bacterium that can inhibit
ribosomal peptidyl transferase activity and therefore
protein production. By transferring a phosphate group to
the C-3 hydroxyl group of Cm, CPT inactivates this
potentially lethal metabolite.
Length = 174
Score = 28.9 bits (65), Expect = 5.8
Identities = 13/34 (38%), Positives = 18/34 (52%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSSLFV 242
LL G +GK+ +ARA+ LD +L FV
Sbjct: 5 LLNGGSSSGKSSIARALQDILDGPWLHFGVDAFV 38
>gnl|CDD|144046 pfam00308, Bac_DnaA, Bacterial dnaA protein.
Length = 219
Score = 29.2 bits (66), Expect = 5.9
Identities = 22/76 (28%), Positives = 35/76 (46%), Gaps = 9/76 (11%)
Query: 198 QRVGITPPKG---CLLYGPPGTGKTLLARAVASQLDANF--LKVVSSLFVTSKEDMAILM 252
V P K +YG G GKT L A+ + NF L+VV ++TS+E + +
Sbjct: 24 LAVAEAPGKAYNPLFIYGGVGLGKTHLLHAIGNYALRNFPNLRVV---YLTSEEFLNDFV 80
Query: 253 GNQLKRRSTHHLEKTY 268
+ L+ +K+Y
Sbjct: 81 -DALRDNKIEAFKKSY 95
>gnl|CDD|183703 PRK12724, PRK12724, flagellar biosynthesis regulator FlhF;
Provisional.
Length = 432
Score = 29.9 bits (67), Expect = 6.0
Identities = 27/95 (28%), Positives = 42/95 (44%), Gaps = 7/95 (7%)
Query: 192 LNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAIL 251
++ +LF G K GP G+GKT +A++ + K V SL+ T +A +
Sbjct: 210 VDSDLFSGTGKNQRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSV-SLYTTDNYRIAAI 268
Query: 252 MGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESAR 286
QLKR + + PFY + K+ AR
Sbjct: 269 --EQLKR----YADTMGMPFYPVKDIKKFKETLAR 297
>gnl|CDD|238288 cd00520, RRF, Ribosome recycling factor (RRF). Ribosome recycling
factor dissociates the posttermination complex, composed
of the ribosome, deacylated tRNA, and mRNA, after
termination of translation. Thus ribosomes are
"recycled" and ready for another round of protein
synthesis. RRF is believed to bind the ribosome at the
A-site in a manner that mimics tRNA, but the specific
mechanisms remain unclear. RRF is essential for
bacterial growth. It is not necessary for cell growth
in archaea or eukaryotes, but is found in mitochondria
or chloroplasts of some eukaryotic species.
Length = 179
Score = 29.2 bits (66), Expect = 6.4
Identities = 17/74 (22%), Positives = 38/74 (51%), Gaps = 22/74 (29%)
Query: 15 QDYRKKLTEHAE---VEGRL------REMREQLKELTKQYDKSENDLKALQSVGQHDLLL 65
++ RK+L + A+ E ++ R+ +++K+L K+ + SE+++K +
Sbjct: 103 EERRKELVKDAKKIAEEAKVAIRNIRRDANDKIKKLEKEKEISEDEVKKAE--------- 153
Query: 66 HCVREQLKELTKQY 79
E L++LT +Y
Sbjct: 154 ----EDLQKLTDEY 163
>gnl|CDD|216689 pfam01765, RRF, Ribosome recycling factor. The ribosome recycling
factor (RRF / ribosome release factor) dissociates the
ribosome from the mRNA after termination of translation,
and is essential bacterial growth. Thus ribosomes are
"recycled" and ready for another round of protein
synthesis.
Length = 165
Score = 29.0 bits (66), Expect = 6.4
Identities = 19/65 (29%), Positives = 35/65 (53%), Gaps = 15/65 (23%)
Query: 19 KKLTEHAEVEGRL--REMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELT 76
KKL E A+V R R+ ++LK+L K + SE+++K + +++++LT
Sbjct: 100 KKLAEEAKVAIRNIRRDANDKLKKLEKDKEISEDEVKRAE-------------KEIQKLT 146
Query: 77 KQYDK 81
+Y K
Sbjct: 147 DKYIK 151
>gnl|CDD|148827 pfam07445, priB_priC, Primosomal replication protein priB and priC.
This family contains the bacterial primosomal
replication proteins priB and priC (approximately 180
residues long). In Escherichia coli, these function in
the assembly of the primosome.
Length = 172
Score = 28.8 bits (65), Expect = 6.6
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 12 KTLQDYRKKLTEHAEVEGRLREM-REQLKELTKQYDKSE 49
K + D + L +H E E RL M R++ +L + SE
Sbjct: 100 KPINDLYQDLAQHQEWERRLLAMVRDRELQLEQATSLSE 138
>gnl|CDD|222258 pfam13604, AAA_30, 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. There is a Walker A and
Walker B.
Length = 195
Score = 29.1 bits (66), Expect = 6.6
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 3/49 (6%)
Query: 192 LNPE---LFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 237
L+ E + V + + ++ GP GTGKT +A +A +V+
Sbjct: 2 LSAEQREAVRHVLTSGDRVAVVQGPAGTGKTTSLKAAREAWEAAGYRVI 50
Score = 29.1 bits (66), Expect = 6.6
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 3/49 (6%)
Query: 511 LNPE---LFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
L+ E + V + + ++ GP GTGKT +A +A +V+
Sbjct: 2 LSAEQREAVRHVLTSGDRVAVVQGPAGTGKTTSLKAAREAWEAAGYRVI 50
>gnl|CDD|236926 PRK11545, gntK, gluconate kinase 1; Provisional.
Length = 163
Score = 28.9 bits (65), Expect = 6.8
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 212 GPPGTGKTLLARAVASQLDANFL 234
G G+GK+ +A VA QL A FL
Sbjct: 2 GVSGSGKSAVASEVAHQLHAAFL 24
Score = 28.9 bits (65), Expect = 6.8
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 531 GPPGTGKTLLARAVASQLDANFL 553
G G+GK+ +A VA QL A FL
Sbjct: 2 GVSGSGKSAVASEVAHQLHAAFL 24
>gnl|CDD|222290 pfam13654, AAA_32, AAA domain. This family includes a wide variety
of AAA domains including some that have lost essential
nucleotide binding residues in the P-loop.
Length = 509
Score = 29.7 bits (68), Expect = 6.9
Identities = 24/99 (24%), Positives = 43/99 (43%), Gaps = 14/99 (14%)
Query: 1 MTTPVVDEVRHK-----TL-QDYRKKLTEH-AEVEGRLREMREQLKELTKQYDKSENDLK 53
+ P+ D L ++ R++L E E+E L+E+ QL+EL ++ + +L
Sbjct: 154 VFAPLKDGEPLTEEEFEALPEEEREELEEKIDELEEELQEILRQLRELEREAREKLRELD 213
Query: 54 ALQSVGQHDLLLHCVREQLKELTKQYDKSENDLKALQSV 92
++ L V L EL ++Y L L +V
Sbjct: 214 -------REVALFAVGPLLDELKEKYADLPKVLAYLDAV 245
>gnl|CDD|188340 TIGR03575, selen_PSTK_euk, L-seryl-tRNA(Sec) kinase, eukaryotic.
Members of this protein are L-seryl-tRNA(Sec) kinase.
This enzyme is part of a two-step pathway in Eukaryota
and Archaea for performing selenocysteine biosynthesis
by changing serine misacylated on selenocysteine-tRNA to
selenocysteine. This enzyme performs the first step,
phosphorylation of the OH group of the serine side
chain. This family represents eukaryotic proteins with
this activity.
Length = 340
Score = 29.5 bits (66), Expect = 6.9
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 208 CLLYGPPGTGKTLLARAVASQL 229
C+L G P GK+ LAR++++ L
Sbjct: 2 CVLCGLPAAGKSTLARSLSATL 23
Score = 29.5 bits (66), Expect = 6.9
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 527 CLLYGPPGTGKTLLARAVASQL 548
C+L G P GK+ LAR++++ L
Sbjct: 2 CVLCGLPAAGKSTLARSLSATL 23
>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 = 28.5 bits (64), Expect = 7.3
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFL 234
L G G+GK+ +A A+A +L A F+
Sbjct: 3 LMGVAGSGKSTIASALAHRLGAKFI 27
Score = 28.5 bits (64), Expect = 7.3
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFL 553
L G G+GK+ +A A+A +L A F+
Sbjct: 3 LMGVAGSGKSTIASALAHRLGAKFI 27
>gnl|CDD|236997 PRK11831, PRK11831, putative ABC transporter ATP-binding protein
YrbF; Provisional.
Length = 269
Score = 29.3 bits (66), Expect = 7.4
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 193 NPELFQRVGITPPKGCL--LYGPPGTGKTLLARAVASQL 229
N +F + +T P+G + + GP G GKT L R + Q+
Sbjct: 19 NRCIFDNISLTVPRGKITAIMGPSGIGKTTLLRLIGGQI 57
Score = 29.3 bits (66), Expect = 7.4
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 512 NPELFQRVGITPPKGCL--LYGPPGTGKTLLARAVASQL 548
N +F + +T P+G + + GP G GKT L R + Q+
Sbjct: 19 NRCIFDNISLTVPRGKITAIMGPSGIGKTTLLRLIGGQI 57
>gnl|CDD|223360 COG0283, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 222
Score = 29.1 bits (66), Expect = 7.4
Identities = 9/23 (39%), Positives = 17/23 (73%)
Query: 212 GPPGTGKTLLARAVASQLDANFL 234
GP G+GK+ +A+ +A +L ++L
Sbjct: 11 GPAGSGKSTVAKILAEKLGFHYL 33
Score = 29.1 bits (66), Expect = 7.4
Identities = 9/23 (39%), Positives = 17/23 (73%)
Query: 531 GPPGTGKTLLARAVASQLDANFL 553
GP G+GK+ +A+ +A +L ++L
Sbjct: 11 GPAGSGKSTVAKILAEKLGFHYL 33
>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 = 29.5 bits (67), Expect = 7.6
Identities = 26/81 (32%), Positives = 36/81 (44%), Gaps = 12/81 (14%)
Query: 182 ELREVIELPLLNPELFQRV---GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVS 238
E E +P E RV G+ P L+ G PG GK+ L VA++L KV
Sbjct: 57 EAEEEERIPTGIEE-LDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKV-- 113
Query: 239 SLFVTSKEDMAILMGNQLKRR 259
L+V+ +E Q+K R
Sbjct: 114 -LYVSGEES-----PEQIKLR 128
>gnl|CDD|236546 PRK09518, PRK09518, bifunctional cytidylate kinase/GTPase Der;
Reviewed.
Length = 712
Score = 29.4 bits (66), Expect = 7.9
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 212 GPPGTGKTLLARAVASQLDANFL 234
GP G GK+ ++RA+A L +L
Sbjct: 8 GPAGVGKSSVSRALAQYLGYAYL 30
Score = 29.4 bits (66), Expect = 7.9
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 531 GPPGTGKTLLARAVASQLDANFL 553
GP G GK+ ++RA+A L +L
Sbjct: 8 GPAGVGKSSVSRALAQYLGYAYL 30
>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 = 29.4 bits (67), Expect = 8.1
Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 6/62 (9%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANF--LKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEK 266
+YG G GKT L A+ +++ N KVV +V+S E N L+ ++
Sbjct: 140 FIYGGVGLGKTHLLHAIGNEILENNPNAKVV---YVSS-EKFTNDFVNALRNNKMEEFKE 195
Query: 267 TY 268
Y
Sbjct: 196 KY 197
>gnl|CDD|220640 pfam10234, Cluap1, Clusterin-associated protein-1. This protein is
conserved from worms to humans. The protein of 413 amino
acids contains a central coiled-coil domain, possibly
the region that binds to clusterin. Cluap1 expression is
highest in the nucleus and gradually increases during
late S to G2/M phases of the cell cycle and returns to
the basal level in the G0/G1 phases. In addition, it is
upregulated in colon cancer tissues compared to
corresponding non-cancerous mucosa. It thus plays a
crucial role in the life of the cell.
Length = 269
Score = 28.8 bits (65), Expect = 8.4
Identities = 22/89 (24%), Positives = 42/89 (47%), Gaps = 21/89 (23%)
Query: 8 EVRHKTLQDYRKKLTEHAEVEGRLRE----MREQLKELTKQYDKSENDLKALQSVGQHDL 63
E R K L + E AEVE L+E + +L++L + D ++D L+
Sbjct: 150 ESRQKALS----RPLELAEVEKALKEAIKNLAARLQQLQAELDNLKSDEANLE------- 198
Query: 64 LLHCVREQLKELTKQYDKSENDLKALQSV 92
+++ ++ ++++ L+ALQSV
Sbjct: 199 ------AKIERKKQELERTQKRLQALQSV 221
>gnl|CDD|237475 PRK13695, PRK13695, putative NTPase; Provisional.
Length = 174
Score = 28.3 bits (64), Expect = 8.7
Identities = 17/47 (36%), Positives = 21/47 (44%), Gaps = 10/47 (21%)
Query: 199 RVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSK 245
++GIT GPPG GKT L +A L KV F T +
Sbjct: 2 KIGIT--------GPPGVGKTTLVLKIAELLKEEGYKVGG--FYTEE 38
>gnl|CDD|220716 pfam10359, Fmp27_WPPW, RNA pol II promoter Fmp27 protein domain.
Fmp27_WPPW is a conserved domain of a family of proteins
involved in RNA polymerase II transcription initiation.
It contains characteristic HQR and WPPW sequence motifs.
and is towards the C-terminal in members which contain
Fmp27_SW pfam10305.
Length = 470
Score = 29.2 bits (66), Expect = 8.9
Identities = 21/72 (29%), Positives = 38/72 (52%), Gaps = 7/72 (9%)
Query: 30 RLREMREQLKELTKQYDKSE-NDLKALQSVGQHDLLLHCVREQLKELTKQYDKSENDLKA 88
RL+++ EQ+K+L ++ D E ND + LQS + E+L L ++ + E L+
Sbjct: 169 RLKQLEEQIKKLEEKLDDLELNDTEELQSDLEELE------EELSVLKERLEFLEKLLED 222
Query: 89 LQSVGQVSLSTS 100
L+ + S +S
Sbjct: 223 LERSEESSDRSS 234
>gnl|CDD|223401 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase
[Translation, ribosomal structure and biogenesis].
Length = 308
Score = 29.1 bits (66), Expect = 9.0
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 205 PKGCLLYGPPGTGKTLLARAVASQLDA 231
PK ++ GP +GKT LA A+A +L
Sbjct: 3 PKLIVIAGPTASGKTALAIALAKRLGG 29
Score = 29.1 bits (66), Expect = 9.0
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 524 PKGCLLYGPPGTGKTLLARAVASQLDA 550
PK ++ GP +GKT LA A+A +L
Sbjct: 3 PKLIVIAGPTASGKTALAIALAKRLGG 29
>gnl|CDD|238986 cd02028, UMPK_like, Uridine monophosphate kinase_like (UMPK_like)
is a family of proteins highly similar to the uridine
monophosphate kinase (UMPK, EC 2.7.1.48), also known as
uridine kinase or uridine-cytidine kinase (UCK).
Length = 179
Score = 28.4 bits (64), Expect = 9.0
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 531 GPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIG 566
GP G+GKT A+ +++QL N + V ++ D Y+
Sbjct: 6 GPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDYYVP 41
>gnl|CDD|235316 PRK04863, mukB, cell division protein MukB; Provisional.
Length = 1486
Score = 29.5 bits (67), Expect = 9.0
Identities = 17/67 (25%), Positives = 32/67 (47%), Gaps = 12/67 (17%)
Query: 30 RLREMREQLKELT------KQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQYDKSE 83
R+ E+REQL E +Q+ + L+ + SV Q D EQ ++L + Y +++
Sbjct: 895 RVEEIREQLDEAEEAKRFVQQHGNALAQLEPIVSVLQSD------PEQFEQLKQDYQQAQ 948
Query: 84 NDLKALQ 90
+ +
Sbjct: 949 QTQRDAK 955
>gnl|CDD|226115 COG3587, COG3587, Restriction endonuclease [Defense mechanisms].
Length = 985
Score = 29.4 bits (66), Expect = 9.3
Identities = 38/147 (25%), Positives = 59/147 (40%), Gaps = 29/147 (19%)
Query: 215 GTGKTLLARAVASQLDAN-----FLKVVSSLFVTSKEDMAILMGNQLK-RRSTHHLEKTY 268
GTGKT +L F+ VV SL AI G L + +T H K+
Sbjct: 84 GTGKTYTYLRTMFELHKKYGLFKFIIVVPSL--------AIKEGVFLTSKETTEHFFKS- 134
Query: 269 FPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 328
Y + ++ YI + E F + N++PC++ + + A E +A+ I
Sbjct: 135 --EYENTRLESYIYDE---DIEKFKFKSNNKPCVLLIF-VSAFN----KEEINANM-INS 183
Query: 329 TLMELLNQMDGFDSLGQVKMIMATNRP 355
ME N +G S +A+ RP
Sbjct: 184 ESMENTNLFNGATSPVDA---LASMRP 207
>gnl|CDD|222307 pfam13671, AAA_33, AAA domain. This family of domains contain only
a P-loop motif, that is characteristic of the AAA
superfamily. Many of the proteins in this family are
just short fragments so there is no Walker B motif.
Length = 143
Score = 28.0 bits (63), Expect = 9.4
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 9/53 (16%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSS------LFVTSKEDMAILMGNQ 255
L+ G PG+GK+ AR + +L A V+SS L D++
Sbjct: 3 LMVGLPGSGKSTFARRLLRELGA---VVLSSDTLRKRLRGDGPPDISYYARAS 52
>gnl|CDD|234654 PRK00131, aroK, shikimate kinase; Reviewed.
Length = 175
Score = 28.2 bits (64), Expect = 9.4
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFL 234
L G G GK+ + R +A +L +F+
Sbjct: 9 LIGFMGAGKSTIGRLLAKRLGYDFI 33
Score = 28.2 bits (64), Expect = 9.4
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFL 553
L G G GK+ + R +A +L +F+
Sbjct: 9 LIGFMGAGKSTIGRLLAKRLGYDFI 33
>gnl|CDD|112483 pfam03668, ATP_bind_2, P-loop ATPase protein family. This family
contains an ATP-binding site and could be an ATPase
(personal obs:C Yeats).
Length = 284
Score = 29.0 bits (65), Expect = 9.4
Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 1/39 (2%)
Query: 281 IGESARLIRE-MFNYARNHQPCIIFMDEIDAIGGRRFSE 318
S L + R P I+F++ D RR+S+
Sbjct: 63 RPFSGDLDEQRNELATRAITPRILFLEADDDTLVRRYSD 101
Score = 29.0 bits (65), Expect = 9.4
Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 1/39 (2%)
Query: 565 IGESARLIRE-MFNYARNHQPCIIFMDEIDAIGGRRFSE 602
S L + R P I+F++ D RR+S+
Sbjct: 63 RPFSGDLDEQRNELATRAITPRILFLEADDDTLVRRYSD 101
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.136 0.390
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: 38,616,163
Number of extensions: 3939579
Number of successful extensions: 6745
Number of sequences better than 10.0: 1
Number of HSP's gapped: 6589
Number of HSP's successfully gapped: 548
Length of query: 741
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 637
Effective length of database: 6,324,786
Effective search space: 4028888682
Effective search space used: 4028888682
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 63 (28.1 bits)