RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11253
(515 letters)
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 216 bits (553), Expect = 3e-65
Identities = 74/128 (57%), Positives = 96/128 (75%)
Query: 34 TTNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMRYLPREVDPLVYNMSHEDPGDITY 93
++ GP++VV +D+ L+ G RVAL+ + +I+R LP EVDP V M E+ D+TY
Sbjct: 91 SSTGPKFVVNILSFVDRDLLEPGMRVALNRDSYSIVRVLPPEVDPRVSVMEVEEKPDVTY 150
Query: 94 SAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLD 153
IGGL EQI+E+REV+ELPL NPELF+ +GI PPKG LLYGPPGTGKTLLA+AVA+Q D
Sbjct: 151 EDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTD 210
Query: 154 ANFLKVVS 161
A F++VV
Sbjct: 211 ATFIRVVG 218
Score = 149 bits (378), Expect = 5e-40
Identities = 46/71 (64%), Positives = 56/71 (78%)
Query: 445 AIVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELL 504
+V KYIGE ARL+RE+F AR+ P IIF+DEIDAIG +RF GTS DRE+QRT++ELL
Sbjct: 220 ELVQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELL 279
Query: 505 NQMDGFDSLGQ 515
NQ+DGFD G
Sbjct: 280 NQLDGFDPRGN 290
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 186 bits (475), Expect = 5e-54
Identities = 70/126 (55%), Positives = 90/126 (71%)
Query: 35 TNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMRYLPREVDPLVYNMSHEDPGDITYS 94
+ GP+++V +D+ KLK G RVAL+ +L I+ LP E DP V M + ++TY
Sbjct: 72 SGGPQFLVNVSPFIDREKLKPGARVALNQQSLAIVEVLPSEKDPRVQAMEVIESPNVTYE 131
Query: 95 AIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDA 154
IGGL EQIRE+RE +ELPL PELF+ VGI PPKG LLYGPPGTGKTLLA+AVA + +A
Sbjct: 132 DIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNA 191
Query: 155 NFLKVV 160
F++VV
Sbjct: 192 TFIRVV 197
Score = 127 bits (322), Expect = 2e-32
Identities = 43/68 (63%), Positives = 52/68 (76%)
Query: 447 VDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQ 506
V K+IGE ARL+RE+F AR+ P IIF+DEIDAI +R GTS DRE+QRTLM+LL +
Sbjct: 202 VQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAE 261
Query: 507 MDGFDSLG 514
MDGFD G
Sbjct: 262 MDGFDPRG 269
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 171 bits (434), Expect = 2e-48
Identities = 72/128 (56%), Positives = 93/128 (72%)
Query: 33 ETTNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMRYLPREVDPLVYNMSHEDPGDIT 92
+++ GP +VV +D+ LK G RVAL+ TLTI+ LP DPLV M E+ +++
Sbjct: 61 KSSTGPNFVVNVSAFIDRKSLKPGARVALNQQTLTIVDVLPTSKDPLVKGMEVEERPNVS 120
Query: 93 YSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQL 152
Y IGGL EQIRE+RE +ELPL +PELF+ VGI PPKG LLYGPPGTGKTLLA+AVA +
Sbjct: 121 YEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET 180
Query: 153 DANFLKVV 160
+A F++VV
Sbjct: 181 NATFIRVV 188
Score = 107 bits (268), Expect = 2e-25
Identities = 42/69 (60%), Positives = 53/69 (76%)
Query: 446 IVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLN 505
+V KYIGE ARL+RE+F A++ P IIF+DEIDAI +R GTS DRE+QRTLM+LL
Sbjct: 192 LVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLA 251
Query: 506 QMDGFDSLG 514
++DGFD G
Sbjct: 252 ELDGFDPRG 260
>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 = 162 bits (413), Expect = 6e-46
Identities = 71/228 (31%), Positives = 101/228 (44%), Gaps = 17/228 (7%)
Query: 225 VWGEALLSTILISLAPFLILFVVPLDTATGNENFLKVLLSFGSGGLLGDAFLHLIPHAIG 284
+ A+ + ++ SL L+ ++PL + + + L LL+F +G LLG AFLHL+P A+
Sbjct: 3 LKIYAIFAILITSLIGLLLPLLIPLISKSRSSKLLSFLLAFAAGVLLGTAFLHLLPEALE 62
Query: 285 ASKEHSHSHSHGGSHEHSHSIADLSVGLWVLFGILAFLCVEKFVRYVKG---GHGHSHGK 341
A + HG H GL VL G L VEK + Y KG HGH HG
Sbjct: 63 ALESSPCLGDHGPWH--------PFAGLIVLLGFFLVLLVEKLLTYYKGRGHSHGHDHGH 114
Query: 342 PIEKK---KHTSSGEDSDLS-DDEDDSDDVDYKKTKRVKAKTSSQSNDDIAVAGYLNLAA 397
E SG E + K ++ +S + +L
Sbjct: 115 DGEHSHTVPDEESGAVESNVVHHEHGEGPHHHHHEGHEKGESDKESGLRVRDIAWLLELG 174
Query: 398 DFTHNFTDGLAIGASYLAGKHVGIVTTITILFHEIPHEIGDFAILIHA 445
H+F +GLAIG S+ + GI I ILFHE+P +G AIL+ A
Sbjct: 175 IILHSFFEGLAIGVSFSSST--GISLFIAILFHELPEGLGLGAILLQA 220
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 138 bits (350), Expect = 4e-36
Identities = 62/127 (48%), Positives = 86/127 (67%)
Query: 34 TTNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMRYLPREVDPLVYNMSHEDPGDITY 93
++ GP Y V +DK +L+ G V L T +++ L EVDPLV M + +Y
Sbjct: 123 SSVGPEYYVNILSFVDKEQLEPGCSVLLHNKTHSVVGILLDEVDPLVSVMKVDKAPLESY 182
Query: 94 SAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLD 153
+ IGGL +QI+E++E +ELPL +PEL+ +GI PPKG +LYGPPGTGKTLLA+AVA++
Sbjct: 183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETS 242
Query: 154 ANFLKVV 160
A FL+VV
Sbjct: 243 ATFLRVV 249
Score = 98.7 bits (246), Expect = 4e-22
Identities = 35/69 (50%), Positives = 54/69 (78%)
Query: 446 IVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLN 505
++ KY+G+ +L+RE+F A ++ P I+F+DEIDAIG +R+ + ++EIQRT++ELLN
Sbjct: 253 LIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLN 312
Query: 506 QMDGFDSLG 514
Q+DGFDS G
Sbjct: 313 QLDGFDSRG 321
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 133 bits (336), Expect = 2e-34
Identities = 58/127 (45%), Positives = 81/127 (63%)
Query: 34 TTNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMRYLPREVDPLVYNMSHEDPGDITY 93
+T+G Y V L++ LK VAL + ++ LP E D + + + D+TY
Sbjct: 85 STSGSNYYVRILSTLNRELLKPNASVALHRHSHAVVDILPPEADSSIQLLQMSEKPDVTY 144
Query: 94 SAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLD 153
S IGGL Q +E+RE +ELPL PEL++++GI PP+G LLYGPPGTGKT+LA+AVA
Sbjct: 145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTT 204
Query: 154 ANFLKVV 160
A F++VV
Sbjct: 205 ATFIRVV 211
Score = 100 bits (251), Expect = 6e-23
Identities = 38/65 (58%), Positives = 51/65 (78%)
Query: 447 VDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQ 506
V KY+GE R++R++F AR++ P IIF+DE+D+I +RF T ADRE+QR L+ELLNQ
Sbjct: 216 VQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQ 275
Query: 507 MDGFD 511
MDGFD
Sbjct: 276 MDGFD 280
>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 = 108 bits (271), Expect = 6e-25
Identities = 41/70 (58%), Positives = 55/70 (78%)
Query: 90 DITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 149
+TY IGGL E ++RE++ELP+ +PELF+ +GI PPKG LLYGPPGTGKTLLA+AVA
Sbjct: 174 KVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVA 233
Query: 150 SQLDANFLKV 159
++ A F+ +
Sbjct: 234 NEAGAYFISI 243
Score = 100 bits (251), Expect = 2e-22
Identities = 48/100 (48%), Positives = 66/100 (66%), Gaps = 12/100 (12%)
Query: 60 ALDMTTLTIMRYLPREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPEL 119
AL M + +R + EV ++ +S IGGL E +ELRE +E PL +PE+
Sbjct: 431 ALKMVEPSAIREVLVEVP------------NVRWSDIGGLEEVKQELREAVEWPLKHPEI 478
Query: 120 FQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 159
F+++GI PPKG LL+GPPGTGKTLLA+AVA++ ANF+ V
Sbjct: 479 FEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAV 518
Score = 64.2 bits (156), Expect = 1e-10
Identities = 37/95 (38%), Positives = 55/95 (57%), Gaps = 5/95 (5%)
Query: 423 TTITILFHEIPHEIGDFAILIHA--IVDKYIGESARLIREMFNYARDHQPCIIFMDEIDA 480
T T+L + +E G + I I+ I+ KY GES +RE+F A ++ P IIF+DEIDA
Sbjct: 223 TGKTLLAKAVANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDA 282
Query: 481 IGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQ 515
I +R E + + E +R + +LL MDG G+
Sbjct: 283 IAPKR--EEVTGEVE-KRVVAQLLTLMDGLKGRGR 314
Score = 63.8 bits (155), Expect = 1e-10
Identities = 31/71 (43%), Positives = 40/71 (56%), Gaps = 8/71 (11%)
Query: 446 IVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIG---GRRFSEGTSADREIQRTLME 502
I+ K++GES + IRE+F AR P IIF DEIDAI G RF + R + +
Sbjct: 523 ILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVT-----DRIVNQ 577
Query: 503 LLNQMDGFDSL 513
LL +MDG L
Sbjct: 578 LLTEMDGIQEL 588
>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 = 106 bits (266), Expect = 2e-24
Identities = 52/117 (44%), Positives = 71/117 (60%), Gaps = 5/117 (4%)
Query: 37 GPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMRYLPR-EVDPLVYNMSHEDPGDITYSA 95
G VV L L+ G + +D +PR EV+ LV E+ D+TY+
Sbjct: 128 GEERVVKLAGALADEGLRPGDTLLVDPRAGYAFEAIPRTEVEDLVL----EEVPDVTYAD 183
Query: 96 IGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQL 152
IGGL QI ++R+ +ELP L+PEL++ G+ PPKG LLYGPPG GKTL+A+AVA+ L
Sbjct: 184 IGGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLLYGPPGCGKTLIAKAVANSL 240
Score = 51.2 bits (123), Expect = 7e-07
Identities = 29/74 (39%), Positives = 48/74 (64%), Gaps = 8/74 (10%)
Query: 446 IVDKYIGESARLIREMFNYAR----DHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLM 501
+++KY+GE+ R IR +F AR + +P I+F DE+D++ R S G S+D E T++
Sbjct: 262 LLNKYVGETERQIRLIFQRAREKASEGRPVIVFFDEMDSLFRTRGS-GVSSDVE--TTVV 318
Query: 502 -ELLNQMDGFDSLG 514
+LL ++DG +SL
Sbjct: 319 PQLLAEIDGVESLD 332
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 102 bits (255), Expect = 3e-23
Identities = 44/79 (55%), Positives = 55/79 (69%), Gaps = 1/79 (1%)
Query: 86 EDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLA 145
ED D+T IGGL E EL+E IE PL PELF+++G+ PPKG LLYGPPGTGKTLLA
Sbjct: 235 EDE-DVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLA 293
Query: 146 RAVASQLDANFLKVVSRTI 164
+AVA + + F+ V +
Sbjct: 294 KAVALESRSRFISVKGSEL 312
Score = 75.6 bits (186), Expect = 1e-14
Identities = 27/68 (39%), Positives = 42/68 (61%), Gaps = 3/68 (4%)
Query: 446 IVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLN 505
++ K++GES + IRE+F AR P IIF+DEID++ R G S D +R + +LL
Sbjct: 312 LLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGR---GPSEDGSGRRVVGQLLT 368
Query: 506 QMDGFDSL 513
++DG +
Sbjct: 369 ELDGIEKA 376
Score = 54.1 bits (130), Expect = 1e-07
Identities = 34/54 (62%), Positives = 40/54 (74%), Gaps = 1/54 (1%)
Query: 111 ELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSRTI 164
ELPL PELF+++GI PPKG LL+GPPGTGKTLLARA+A A FL + I
Sbjct: 1 ELPLKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALA-NEGAEFLSINGPEI 53
Score = 52.9 bits (127), Expect = 2e-07
Identities = 28/80 (35%), Positives = 39/80 (48%), Gaps = 3/80 (3%)
Query: 434 HEIGDFAILIHAIVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSAD 493
+I I+ KY+GES +RE+F A P IIF+DEIDA+ +R S+ +
Sbjct: 41 EGAEFLSINGPEILSKYVGESELRLRELFEEAEKLAPSIIFIDEIDALAPKRSSDQGEVE 100
Query: 494 REIQRTLMELLNQMDGFDSL 513
R + LL MDG
Sbjct: 101 RRVVAQ---LLALMDGLKRG 117
>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 = 86.1 bits (214), Expect = 3e-20
Identities = 33/76 (43%), Positives = 47/76 (61%), Gaps = 3/76 (3%)
Query: 439 FAILIHAIVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 498
I +V KY+GES + +RE+F A+ PC+IF+DEIDA+ G R S G D E +R
Sbjct: 27 IEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGG---DSESRR 83
Query: 499 TLMELLNQMDGFDSLG 514
+ +LL ++DGF S
Sbjct: 84 VVNQLLTELDGFTSSL 99
Score = 56.8 bits (138), Expect = 6e-10
Identities = 19/28 (67%), Positives = 24/28 (85%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFLKV 159
LLYGPPGTGKT LA+AVA +L A F+++
Sbjct: 2 LLYGPPGTGKTTLAKAVAKELGAPFIEI 29
>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 = 77.7 bits (192), Expect = 4e-15
Identities = 31/69 (44%), Positives = 43/69 (62%), Gaps = 1/69 (1%)
Query: 91 ITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVAS 150
+T+ + G+ E EL E+++ L NP F ++G PKG LL GPPGTGKTLLA+AVA
Sbjct: 52 VTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAG 110
Query: 151 QLDANFLKV 159
+ F +
Sbjct: 111 EAGVPFFSI 119
Score = 69.6 bits (171), Expect = 1e-12
Identities = 27/66 (40%), Positives = 45/66 (68%)
Query: 447 VDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQ 506
V+ ++G A +R++F A+ + PCIIF+DEIDA+G +R + + E ++TL +LL +
Sbjct: 125 VEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVE 184
Query: 507 MDGFDS 512
MDGF +
Sbjct: 185 MDGFGT 190
>gnl|CDD|223505 COG0428, COG0428, Predicted divalent heavy-metal cations
transporter [Inorganic ion transport and metabolism].
Length = 266
Score = 75.1 bits (185), Expect = 4e-15
Identities = 49/217 (22%), Positives = 71/217 (32%), Gaps = 51/217 (23%)
Query: 229 ALLSTILISLAPFLILFVVPLDTATGNENFLKVLLSFGSGGLLGDAFLHLIPHAIGASKE 288
ALL +L LA L +V L + L +LL F +G +L +F L+P AI AS
Sbjct: 10 ALLLGLLAGLATALGALLVVLAVRKVSPRVLDILLGFAAGVMLAASFTSLLPPAIEASG- 68
Query: 289 HSHSHSHGGSHEHSHSIADLSVGLWVLFGILAFLCVEKFVRYVKGGHGHSHGKPIEKKKH 348
+ L L G+L +++ V H H +
Sbjct: 69 ----------VLGDSTHEFLPALAGFLLGVLFIFLLDRLVP-----HEHEGKSVEGLEGL 113
Query: 349 TSSGEDSDLSDDEDDSDDVDYKKTKRVKAKTSSQSNDDIAVAGYLNLAADFTHNFTDGLA 408
G+L A HNF +GLA
Sbjct: 114 RKPNLRR-----------------------------------GFLLALAISLHNFPEGLA 138
Query: 409 IGASYLAGKHVGIVTTITILFHEIPHEIGDFAILIHA 445
IG ++L+ +GI + I H IP + L A
Sbjct: 139 IGVAFLSNPSLGIALALAIAIHNIPEGLAVALPLAGA 175
Score = 28.9 bits (65), Expect = 5.9
Identities = 25/96 (26%), Positives = 36/96 (37%), Gaps = 15/96 (15%)
Query: 229 ALLSTILISLAPFLILFVVPLDTATGNENFLKVLLSFGSGGLLGDAFLHLIPHAIGASKE 288
ALL +L LA L + + L L+F +G ++ L+P A
Sbjct: 182 ALLVAVLSGLAEPLGAVIGAYLLGISSPLVLPFALAFAAGAMVYVVVDELLPEA------ 235
Query: 289 HSHSHSHGGSHEHSHSIADLSVGLWVLFGILAFLCV 324
HGG E + A L G F ++A L V
Sbjct: 236 ----KRHGGGSEK-LATAGLFAG----FLVMAVLDV 262
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 74.3 bits (183), Expect = 5e-14
Identities = 33/70 (47%), Positives = 41/70 (58%), Gaps = 1/70 (1%)
Query: 90 DITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 149
IT+ I G+ E E EV+ L PE F VG PKG LL GPPGTGKTLLA+A+A
Sbjct: 179 GITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIA 237
Query: 150 SQLDANFLKV 159
+ + F +
Sbjct: 238 GEAEVPFFSI 247
Score = 62.0 bits (151), Expect = 3e-10
Identities = 28/66 (42%), Positives = 47/66 (71%), Gaps = 4/66 (6%)
Query: 447 VDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFS--EGTSADREIQRTLMELL 504
V+ ++G A +R++F A+++ PCI+F+DEIDA+G +R + G + +RE +TL +LL
Sbjct: 253 VEMFVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDERE--QTLNQLL 310
Query: 505 NQMDGF 510
+MDGF
Sbjct: 311 TEMDGF 316
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 70.0 bits (172), Expect = 1e-12
Identities = 31/66 (46%), Positives = 44/66 (66%), Gaps = 1/66 (1%)
Query: 91 ITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVAS 150
+T++ + G+ E EL E+++ L NP+ +Q +G PKG LL GPPGTGKTLLA+AVA
Sbjct: 147 VTFADVAGVDEAKEELSELVD-FLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAG 205
Query: 151 QLDANF 156
+ F
Sbjct: 206 EAGVPF 211
Score = 68.9 bits (169), Expect = 3e-12
Identities = 31/75 (41%), Positives = 47/75 (62%), Gaps = 2/75 (2%)
Query: 439 FAILIHAIVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRR-FSEGTSADREIQ 497
F+I V+ ++G A +R++F A+ + PCIIF+DEIDA+G +R G D E +
Sbjct: 212 FSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGND-ERE 270
Query: 498 RTLMELLNQMDGFDS 512
+TL +LL +MDGF
Sbjct: 271 QTLNQLLVEMDGFGG 285
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 62.4 bits (151), Expect = 3e-10
Identities = 32/77 (41%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 83 MSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKT 142
M ED T++ + G E E+ E++E L P FQ++G PKG L+ GPPGTGKT
Sbjct: 141 MLTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKT 199
Query: 143 LLARAVASQLDANFLKV 159
LLA+A+A + F +
Sbjct: 200 LLAKAIAGEAKVPFFTI 216
Score = 60.8 bits (147), Expect = 8e-10
Identities = 29/73 (39%), Positives = 45/73 (61%)
Query: 439 FAILIHAIVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 498
F I V+ ++G A +R+MF A+ PCIIF+DEIDA+G +R + E ++
Sbjct: 214 FTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQ 273
Query: 499 TLMELLNQMDGFD 511
TL ++L +MDGF+
Sbjct: 274 TLNQMLVEMDGFE 286
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 59.8 bits (145), Expect = 1e-09
Identities = 32/76 (42%), Positives = 41/76 (53%), Gaps = 4/76 (5%)
Query: 84 SHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTL 143
E DIT + G E R+ R +I L NPE F G PK L YGPPGTGKT+
Sbjct: 111 DREIISDITLDDVIGQEEAKRKCR-LIMEYLENPERF---GDWAPKNVLFYGPPGTGKTM 166
Query: 144 LARAVASQLDANFLKV 159
+A+A+A++ L V
Sbjct: 167 MAKALANEAKVPLLLV 182
Score = 58.3 bits (141), Expect = 3e-09
Identities = 27/72 (37%), Positives = 44/72 (61%), Gaps = 6/72 (8%)
Query: 441 ILIHA--IVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIG-GRRFSEGTSADREIQ 497
+L+ A ++ +++G+ AR I E++ AR PCI+F+DE+DAI RR+ E EI
Sbjct: 180 LLVKATELIGEHVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEI- 238
Query: 498 RTLMELLNQMDG 509
+ LL ++DG
Sbjct: 239 --VNALLTELDG 248
>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 = 52.9 bits (127), Expect = 2e-08
Identities = 29/65 (44%), Positives = 34/65 (52%), Gaps = 13/65 (20%)
Query: 97 GGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANF 156
G E I LRE +ELP PPK LLYGPPGTGKT LARA+A++L
Sbjct: 1 VGQEEAIEALREALELP-------------PPKNLLLYGPPGTGKTTLARAIANELFRPG 47
Query: 157 LKVVS 161
+
Sbjct: 48 APFLY 52
Score = 36.7 bits (85), Expect = 0.008
Identities = 14/78 (17%), Positives = 32/78 (41%), Gaps = 10/78 (12%)
Query: 439 FAILIHAIVDKYIGESAR---LIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADRE 495
+ +++ + L+R +F A +P ++F+DEID++ A
Sbjct: 51 LYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSLSRG-------AQNA 103
Query: 496 IQRTLMELLNQMDGFDSL 513
+ R L L + +++
Sbjct: 104 LLRVLETLNDLRIDRENV 121
>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 = 46.4 bits (110), Expect = 4e-06
Identities = 19/80 (23%), Positives = 26/80 (32%), Gaps = 10/80 (12%)
Query: 98 GLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFL 157
G E++ L + + R P LL GP GTGKT L R + L
Sbjct: 4 GREEELERLLDALR----------RARSGGPPSVLLTGPSGTGKTSLLRELLEGLLVAAG 53
Query: 158 KVVSRTIAIVLIFAVIFLHM 177
K F+ +
Sbjct: 54 KCDQAERNPPYAFSQALREL 73
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 48.2 bits (116), Expect = 6e-06
Identities = 16/29 (55%), Positives = 20/29 (68%)
Query: 131 CLLYGPPGTGKTLLARAVASQLDANFLKV 159
+L+GPPGTGKT LAR +A DA F +
Sbjct: 39 MILWGPPGTGKTTLARIIAGATDAPFEAL 67
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 44.9 bits (107), Expect = 6e-05
Identities = 15/27 (55%), Positives = 19/27 (70%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFLKV 159
L+GPPGTGKT LAR +A +A F +
Sbjct: 53 LWGPPGTGKTTLARLIAGTTNAAFEAL 79
>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 = 42.7 bits (100), Expect = 6e-05
Identities = 16/34 (47%), Positives = 22/34 (64%)
Query: 127 PPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 160
P + L+ GPPG+GKT LARA+A +L V+
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVI 34
Score = 34.7 bits (79), Expect = 0.039
Identities = 14/57 (24%), Positives = 24/57 (42%)
Query: 431 EIPHEIGDFAILIHAIVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFS 487
+I E+ D +LI K G +R AR +P ++ +DEI ++
Sbjct: 40 DILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPDVLILDEITSLLDAEQE 96
>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 = 42.1 bits (100), Expect = 8e-05
Identities = 14/26 (53%), Positives = 16/26 (61%)
Query: 131 CLLYGPPGTGKTLLARAVASQLDANF 156
LL G PG KTLLAR +A L +F
Sbjct: 2 VLLEGVPGLAKTLLARTLARSLGLDF 27
>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated.
Length = 268
Score = 43.9 bits (104), Expect = 9e-05
Identities = 15/39 (38%), Positives = 22/39 (56%)
Query: 130 GCLLYGPPGTGKTLLARAVASQLDANFLKVVSRTIAIVL 168
G LL+G GTGKT LA +A++L + V+ +L
Sbjct: 116 GLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLL 154
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 43.6 bits (103), Expect = 1e-04
Identities = 17/28 (60%), Positives = 21/28 (75%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFLKV 159
LL GPPG GKTLLARA+A L F+++
Sbjct: 47 LLEGPPGVGKTLLARALARALGLPFVRI 74
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 43.2 bits (103), Expect = 2e-04
Identities = 15/31 (48%), Positives = 22/31 (70%), Gaps = 1/31 (3%)
Query: 131 CLLYGPPGTGKTLLARAVASQLDANFLKVVS 161
LLYGPPG GKT LA +A+++ N +++ S
Sbjct: 54 VLLYGPPGLGKTTLANIIANEMGVN-IRITS 83
>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA
replication, recombination, and repair].
Length = 332
Score = 42.9 bits (102), Expect = 3e-04
Identities = 14/26 (53%), Positives = 18/26 (69%)
Query: 131 CLLYGPPGTGKTLLARAVASQLDANF 156
LL+GPPG GKT LA +A++L N
Sbjct: 55 VLLFGPPGLGKTTLAHIIANELGVNL 80
>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 = 41.5 bits (98), Expect = 6e-04
Identities = 17/31 (54%), Positives = 22/31 (70%), Gaps = 1/31 (3%)
Query: 131 CLLYGPPGTGKTLLARAVASQLDANFLKVVS 161
LLYGPPG GKT LA +A+++ N LK+ S
Sbjct: 33 LLLYGPPGLGKTTLAHIIANEMGVN-LKITS 62
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 41.1 bits (97), Expect = 0.001
Identities = 16/23 (69%), Positives = 17/23 (73%)
Query: 127 PPKGCLLYGPPGTGKTLLARAVA 149
P K LLYGPPG GKT LA A+A
Sbjct: 38 PKKALLLYGPPGVGKTSLAHALA 60
>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 = 14/26 (53%), Positives = 18/26 (69%)
Query: 131 CLLYGPPGTGKTLLARAVASQLDANF 156
LLYGPPG GKT LA +A+++ N
Sbjct: 53 VLLYGPPGLGKTTLANIIANEMGVNI 78
>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 = 40.3 bits (95), Expect = 0.002
Identities = 19/52 (36%), Positives = 24/52 (46%), Gaps = 9/52 (17%)
Query: 101 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQL 152
EQI EL + L P L G P +YG GTGKT + + V +L
Sbjct: 22 EQIEELAK-----ALRPILR---GSRPSN-VFIYGKTGTGKTAVTKYVMKEL 64
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 40.8 bits (96), Expect = 0.002
Identities = 15/26 (57%), Positives = 19/26 (73%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFL 157
+LYGPPG GKT LAR +A+ A+F
Sbjct: 56 ILYGPPGVGKTTLARIIANHTRAHFS 81
>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 = 0.003
Identities = 17/71 (23%), Positives = 25/71 (35%), Gaps = 10/71 (14%)
Query: 82 NMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGK 141
N I + E+I +L + L P ++YGP GTGK
Sbjct: 6 NKDVLLEDYIP-EELPHREEEINQLASFLAPALRGE---------RPSNIIIYGPTGTGK 55
Query: 142 TLLARAVASQL 152
T + V +L
Sbjct: 56 TATVKFVMEEL 66
>gnl|CDD|235871 PRK06835, PRK06835, DNA replication protein DnaC; Validated.
Length = 329
Score = 38.3 bits (90), Expect = 0.006
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 126 TPPKGCLLYGPPGTGKTLLARAVASQL-DANFLKVVSRTIA 165
+ L YG GTGKT L+ +A +L D V+ RT
Sbjct: 181 KNNENLLFYGNTGTGKTFLSNCIAKELLDRGKS-VIYRTAD 220
>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional.
Length = 489
Score = 38.8 bits (91), Expect = 0.006
Identities = 14/28 (50%), Positives = 20/28 (71%)
Query: 124 GITPPKGCLLYGPPGTGKTLLARAVASQ 151
G+ P+G LL G GTGK+L A+A+A+
Sbjct: 255 GLPTPRGLLLVGIQGTGKSLTAKAIAND 282
Score = 36.2 bits (84), Expect = 0.041
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 451 IGESARLIREMFNYARDHQPCIIFMDEID 479
+GES +R+M A PCI+++DEID
Sbjct: 300 VGESESRMRQMIRIAEALSPCILWIDEID 328
>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional.
Length = 316
Score = 38.0 bits (89), Expect = 0.009
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 128 PKGCLLYGPPGTGKTLLARAVASQLDANFLKV 159
P L PGTGKT +A+A+ +++ A L V
Sbjct: 43 PNMLLHSPSPGTGKTTVAKALCNEVGAEVLFV 74
>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 = 38.3 bits (89), Expect = 0.010
Identities = 19/52 (36%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 101 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQL 152
Q+ L+ + L E V T L GPPGTGKT +AR VA
Sbjct: 286 RQVAALKSSTAMALARAERGLPVAQTS-NHMLFAGPPGTGKTTIARVVAKIY 336
>gnl|CDD|201110 pfam00245, Alk_phosphatase, Alkaline phosphatase.
Length = 421
Score = 37.8 bits (88), Expect = 0.013
Identities = 21/123 (17%), Positives = 42/123 (34%), Gaps = 13/123 (10%)
Query: 282 AIGASKEHSHSHSHG-----GSHEHSHSIADLSVGLWVLFGILAFLCVEKFVRYVKGGHG 336
A+ A+ E + S H H S + W +FG+ + + +G
Sbjct: 288 AVKAALEFAKSEKDTLVVVTADHSHVFSFGGYTPRGWSIFGLAPAKATPDGMAFKLILYG 347
Query: 337 HSHGKPIEKKKHTSSGEDSDLSDDEDDSDDVDYKKTKRVKAKTSSQSNDDIAVAGYLNLA 396
+ G +E G ++ +S + Y+ V + + + +D+ V Y A
Sbjct: 348 NGPGYKVED------GARPNV--TAAESINNIYRTRSAVPLTSETHTGEDVPVFAYGPQA 399
Query: 397 ADF 399
Sbjct: 400 HLV 402
>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 = 0.015
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
L+ GPPG+GKT+LA+ + L
Sbjct: 26 LMIGPPGSGKTMLAKRLPGIL 46
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 34.9 bits (81), Expect = 0.020
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 131 CLLYGPPGTGKTLLARAVASQLD 153
+L G G+GKT L R +A QL
Sbjct: 7 GVLTGESGSGKTTLLRRLARQLP 29
>gnl|CDD|216186 pfam00910, RNA_helicase, RNA helicase. This family includes RNA
helicases thought to be involved in duplex unwinding
during viral RNA replication. Members of this family are
found in a variety of single stranded RNA viruses.
Length = 105
Score = 34.5 bits (80), Expect = 0.024
Identities = 12/22 (54%), Positives = 15/22 (68%)
Query: 131 CLLYGPPGTGKTLLARAVASQL 152
LYGPPG GK+ LA+ +A L
Sbjct: 1 IWLYGPPGCGKSTLAKYLARAL 22
>gnl|CDD|224141 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 444
Score = 36.9 bits (86), Expect = 0.025
Identities = 21/46 (45%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 114 LLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 159
L EL R +TP K L+ GP G GKT +AR +A A F+KV
Sbjct: 39 QLEEEL--RDEVTP-KNILMIGPTGVGKTEIARRLAKLAGAPFIKV 81
Score = 32.6 bits (75), Expect = 0.51
Identities = 23/67 (34%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 439 FAILIHAIVDKYIGESARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSADRE-IQ 497
+LI DK I + + +E + A + I+F+DEID I R S G RE +Q
Sbjct: 223 KKLLIEEEADKLIDQEE-IKQEAIDAAEQNG--IVFIDEIDKIAKRGGSGGPDVSREGVQ 279
Query: 498 RTLMELL 504
R L+ L+
Sbjct: 280 RDLLPLV 286
>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 36.8 bits (86), Expect = 0.028
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFLKV 159
L GPPG GKT L +++A L F+++
Sbjct: 354 CLVGPPGVGKTSLGKSIAKALGRKFVRI 381
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 36.2 bits (84), Expect = 0.035
Identities = 14/24 (58%), Positives = 18/24 (75%)
Query: 129 KGCLLYGPPGTGKTLLARAVASQL 152
+G L+ GPPGTGKT LA +A +L
Sbjct: 66 RGILIVGPPGTGKTALAMGIAREL 89
>gnl|CDD|234751 PRK00411, cdc6, cell division control protein 6; Reviewed.
Length = 394
Score = 36.0 bits (84), Expect = 0.037
Identities = 24/60 (40%), Positives = 30/60 (50%), Gaps = 9/60 (15%)
Query: 101 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 160
EQI EL + P L G P L+YGPPGTGKT + V +L+ +KVV
Sbjct: 37 EQIEELAFALR-PALR-------GSRPLN-VLIYGPPGTGKTTTVKKVFEELEEIAVKVV 87
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 34.2 bits (78), Expect = 0.042
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFL 157
L+ GPPG+GK+ LA+ +A +L +
Sbjct: 3 LITGPPGSGKSTLAKKLAEKLGIPVI 28
>gnl|CDD|233119 TIGR00763, lon, ATP-dependent protease La. This protein is induced
by heat shock and other stresses in E. coli, B.
subtilis, and other species. The yeast member,
designated PIM1, is located in the mitochondrial matrix,
required for mitochondrial function, and also induced by
heat shock [Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 775
Score = 36.1 bits (84), Expect = 0.050
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFLKV 159
L GPPG GKT L +++A L+ F++
Sbjct: 352 LVGPPGVGKTSLGKSIAKALNRKFVRF 378
>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 = 35.4 bits (82), Expect = 0.055
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 126 TPPKGCL-LYGPPGTGKTLLARAVA 149
+ + YGP TGKT LA+A+A
Sbjct: 110 GGKRNTVWFYGPASTGKTNLAQAIA 134
>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 = 33.8 bits (78), Expect = 0.058
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 132 LLYGPPGTGKTLLARAVASQLD 153
LL GPPGTGK+ LA +A+ L
Sbjct: 3 LLVGPPGTGKSELAERLAAALS 24
>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 = 35.6 bits (82), Expect = 0.061
Identities = 21/71 (29%), Positives = 30/71 (42%), Gaps = 10/71 (14%)
Query: 104 RELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQL----------D 153
R E++ L +V P+ +LYGPPG GKT AR + D
Sbjct: 151 RAFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAED 210
Query: 154 ANFLKVVSRTI 164
A F++V T+
Sbjct: 211 APFVEVDGTTL 221
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 35.1 bits (81), Expect = 0.066
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 128 PKGCLLYGPPGTGKTLLARAVASQL 152
+ +L GPPG GKT LA A+ ++L
Sbjct: 105 GENLVLLGPPGVGKTHLAIAIGNEL 129
>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 = 0.068
Identities = 12/21 (57%), Positives = 13/21 (61%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
L GP G GK LLA A+A L
Sbjct: 18 LFAGPEGVGKELLALALAKAL 38
>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 = 35.2 bits (81), Expect = 0.077
Identities = 16/32 (50%), Positives = 21/32 (65%)
Query: 128 PKGCLLYGPPGTGKTLLARAVASQLDANFLKV 159
PK L+ GP G GKT +AR +A +A F+KV
Sbjct: 47 PKNILMIGPTGVGKTEIARRLAKLANAPFIKV 78
Score = 30.6 bits (69), Expect = 2.0
Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 472 IIFMDEIDAIGGRRFSEGTSADRE-IQRTLMELL 504
IIF+DEID I + S G RE +QR L+ ++
Sbjct: 250 IIFIDEIDKIAKKGESSGADVSREGVQRDLLPIV 283
>gnl|CDD|215599 PLN03140, PLN03140, ABC transporter G family member; Provisional.
Length = 1470
Score = 35.2 bits (81), Expect = 0.092
Identities = 18/35 (51%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 125 ITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 159
I P + LL GPP +GKT L A+A +LD + LKV
Sbjct: 188 IKPSRMTLLLGPPSSGKTTLLLALAGKLDPS-LKV 221
>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 = 34.3 bits (79), Expect = 0.099
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 125 ITPPKGCLLYGPPGTGKTLLARAVASQLDANFLK 158
++ L+ GPPGTGKT + QL +N
Sbjct: 14 LSSSDITLIQGPPGTGKTTTIVEIIKQLLSNAPG 47
>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 34.9 bits (81), Expect = 0.100
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANF 156
LL GP G+GKTLLA+ +A L+ F
Sbjct: 101 LLIGPTGSGKTLLAQTLAKILNVPF 125
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 34.7 bits (81), Expect = 0.11
Identities = 14/22 (63%), Positives = 17/22 (77%)
Query: 132 LLYGPPGTGKTLLARAVASQLD 153
LL GP G+GKTLLA+ +A LD
Sbjct: 112 LLIGPTGSGKTLLAQTLARILD 133
>gnl|CDD|215758 pfam00158, Sigma54_activat, Sigma-54 interaction domain.
Length = 168
Score = 33.5 bits (78), Expect = 0.12
Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 11/53 (20%)
Query: 96 IGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAV 148
+ G S ++E+ E+ + RV T L+ G GTGK L ARA+
Sbjct: 1 LIGESPAMQEVLELAK----------RVAPTD-ATVLITGESGTGKELFARAI 42
>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 = 0.13
Identities = 13/24 (54%), Positives = 18/24 (75%)
Query: 129 KGCLLYGPPGTGKTLLARAVASQL 152
+ L+ GPPGTGKT LA A++ +L
Sbjct: 51 RAVLIAGPPGTGKTALAIAISKEL 74
>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 = 34.0 bits (78), Expect = 0.17
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANF 156
LL GP G+GKTLLA+ +A L+ F
Sbjct: 120 LLIGPTGSGKTLLAQTLARILNVPF 144
Score = 30.5 bits (69), Expect = 2.2
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 15/84 (17%)
Query: 431 EIPHEIGDFAILIHAIVDKYIGESARLIREMFNYARDH-----QPCIIFMDEIDAIGGRR 485
+P I D L A Y+GE I A D+ Q II++DEID I R
Sbjct: 141 NVPFAIADATTLTEA---GYVGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKIS--R 195
Query: 486 FSEGTSADRE-----IQRTLMELL 504
SE S R+ +Q+ L++++
Sbjct: 196 KSENPSITRDVSGEGVQQALLKII 219
>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 = 32.5 bits (75), Expect = 0.19
Identities = 9/23 (39%), Positives = 16/23 (69%)
Query: 135 GPPGTGKTLLARAVASQLDANFL 157
GP G+GK+ +A+ +A +L +L
Sbjct: 6 GPAGSGKSTVAKLLAKKLGLPYL 28
>gnl|CDD|235253 PRK04201, PRK04201, zinc transporter ZupT; Provisional.
Length = 265
Score = 33.3 bits (77), Expect = 0.21
Identities = 49/214 (22%), Positives = 71/214 (33%), Gaps = 65/214 (30%)
Query: 229 ALLSTILISLAPF---LILFVVPLDTATGNENFLKVLLSFGSGGLLGDAFLHLIPHAIGA 285
ALL T+L LA LI F N FL L F +G +L +F+ ++P A+ A
Sbjct: 7 ALLLTLLAGLATGIGSLIAFFGK----KPNNRFLSFSLGFAAGVMLYVSFMEILPKALAA 62
Query: 286 SKEHSHSHSHGGSHEHSHSIADLSVGLWV-----LFGILAFLCVEKFVRYVKGGHGHSHG 340
E +G W+ GIL +++ V H + H
Sbjct: 63 LTEAYGEG----------------MGPWLGYGAFFGGILGIFLIDRLVP-----HENPH- 100
Query: 341 KPIEKKKHTSSGEDSDLSDDEDDSDDV-DYKKTKRVKAKTSSQSNDDIAVAGYLNLAADF 399
+L E+ K KR G L A
Sbjct: 101 ---------------ELMQKEEMEFQQPLPKSLKRT---------------GILTALAIS 130
Query: 400 THNFTDGLAIGASYLAGKHVGIVTTITILFHEIP 433
HNF +G+A + L+ +G + I H IP
Sbjct: 131 IHNFPEGIATFVAALSNPELGFPIALAIAIHNIP 164
>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 = 0.23
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFL 157
L G G GKT + R +A L F+
Sbjct: 4 LIGMMGAGKTTVGRLLAKALGLPFV 28
>gnl|CDD|223718 COG0645, COG0645, Predicted kinase [General function prediction
only].
Length = 170
Score = 32.8 bits (75), Expect = 0.23
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 128 PKGCLLYGPPGTGKTLLARAVASQLDA 154
+ L+ G PG+GK+ LAR +A L A
Sbjct: 1 GRLVLVGGLPGSGKSTLARGLAELLGA 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 = 32.5 bits (75), Expect = 0.24
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 132 LLYGPPGTGKTLLARAVASQLD 153
L GP G GKT LA+A+A L
Sbjct: 7 LFLGPTGVGKTELAKALAELLF 28
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 33.2 bits (76), Expect = 0.24
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 128 PKGC--LLYGPPGTGKTLLARAVASQLDANFLKVV 160
P+G L+ GPPGTGKT+ A + V+
Sbjct: 21 PRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVL 55
>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 = 33.2 bits (76), Expect = 0.27
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 133 LYGPPGTGKTLLARAVASQLD 153
L GP GTGKT LA VA + D
Sbjct: 26 LRGPAGTGKTTLAMHVARKRD 46
>gnl|CDD|235364 PRK05201, hslU, ATP-dependent protease ATP-binding subunit HslU;
Provisional.
Length = 443
Score = 33.5 bits (78), Expect = 0.27
Identities = 21/45 (46%), Positives = 27/45 (60%), Gaps = 3/45 (6%)
Query: 115 LNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 159
L EL R +TP K L+ GP G GKT +AR +A +A F+KV
Sbjct: 40 LPEEL--RDEVTP-KNILMIGPTGVGKTEIARRLAKLANAPFIKV 81
Score = 30.8 bits (71), Expect = 2.0
Identities = 15/30 (50%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 472 IIFMDEIDAIGGRRFSEGTSADRE-IQRTL 500
I+F+DEID I R S G RE +QR L
Sbjct: 252 IVFIDEIDKIAARGGSSGPDVSREGVQRDL 281
>gnl|CDD|223775 COG0703, AroK, Shikimate kinase [Amino acid transport and
metabolism].
Length = 172
Score = 32.6 bits (75), Expect = 0.28
Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 7/40 (17%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFL-------KVVSRTIA 165
L G G GK+ + RA+A L+ F+ K +IA
Sbjct: 7 LIGFMGAGKSTIGRALAKALNLPFIDTDQEIEKRTGMSIA 46
>gnl|CDD|224160 COG1239, ChlI, Mg-chelatase subunit ChlI [Coenzyme metabolism].
Length = 423
Score = 33.5 bits (77), Expect = 0.28
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 9/49 (18%)
Query: 105 ELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLD 153
L+ + L ++P++ G L+ G GT K+ LARA+A L
Sbjct: 24 PLKLALGLNAVDPQI---------GGALIAGEKGTAKSTLARALADLLP 63
>gnl|CDD|224616 COG1702, PhoH, Phosphate starvation-inducible protein PhoH,
predicted ATPase [Signal transduction mechanisms].
Length = 348
Score = 33.4 bits (77), Expect = 0.29
Identities = 14/31 (45%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 135 GPPGTGKTLLARAVASQLDANFLKVVSRTIA 165
GP GTGKT LA A A V R I
Sbjct: 150 GPAGTGKTYLAVAKAVDALGA--GQVRRIIL 178
>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 = 33.6 bits (77), Expect = 0.29
Identities = 29/98 (29%), Positives = 40/98 (40%), Gaps = 30/98 (30%)
Query: 92 TYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLAR----- 146
++ I G E I+ L+ + P NP Q V ++YGPPG GKT AR
Sbjct: 63 SFDEIIGQEEGIKALKAALCGP--NP---QHV--------IIYGPPGVGKTAAARLVLEE 109
Query: 147 ------------AVASQLDANFLKVVSRTIAIVLIFAV 172
A ++DA + R IA LI +V
Sbjct: 110 AKKNPASPFKEGAAFVEIDATTARFDERGIADPLIGSV 147
>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed.
Length = 337
Score = 33.0 bits (76), Expect = 0.33
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 5/30 (16%)
Query: 132 LLYGPPGTGKTLLARAVASQL-----DANF 156
L+ GPPG+GKT RA+A +L + NF
Sbjct: 40 LVQGPPGSGKTAAVRALARELYGDPWENNF 69
>gnl|CDD|129465 TIGR00368, TIGR00368, Mg chelatase-related protein. The N-terminal
end matches very strongly a pfam Mg_chelatase domain
[Unknown function, General].
Length = 499
Score = 33.3 bits (76), Expect = 0.37
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
LL+GPPG+GKT+LA + L
Sbjct: 215 LLFGPPGSGKTMLASRLQGIL 235
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 31.6 bits (72), Expect = 0.38
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFLKVV 160
L+ G PG+GKT LA+ +A +L +
Sbjct: 2 LITGTPGSGKTTLAKELAERLGDVLRDLA 30
>gnl|CDD|214396 CHL00206, ycf2, Ycf2; Provisional.
Length = 2281
Score = 33.3 bits (76), Expect = 0.41
Identities = 12/38 (31%), Positives = 23/38 (60%)
Query: 122 RVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 159
R+ ++P +G L+ G GTG++ L + +A+ F+ V
Sbjct: 1624 RLALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITV 1661
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 32.5 bits (75), Expect = 0.49
Identities = 13/21 (61%), Positives = 15/21 (71%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
L GPPGTGKT A A+A +L
Sbjct: 42 LFAGPPGTGKTTAALALAREL 62
>gnl|CDD|237054 PRK12316, PRK12316, peptide synthase; Provisional.
Length = 5163
Score = 33.0 bits (75), Expect = 0.50
Identities = 22/84 (26%), Positives = 32/84 (38%), Gaps = 10/84 (11%)
Query: 17 YRKKLTEHAEVEGRLRETTNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMR-YLPRE 75
Y ++L EHAE +GR Y G + S + + + Y P E
Sbjct: 2246 YLQQLAEHAERDGR---PPAVRVYCFGG----EAVPAASLRLAWEALRPVYLFNGYGPTE 2298
Query: 76 --VDPLVYNMSHEDPGDITYSAIG 97
V PL++ +DP Y IG
Sbjct: 2299 AVVTPLLWKCRPQDPCGAAYVPIG 2322
>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 = 32.1 bits (74), Expect = 0.64
Identities = 11/21 (52%), Positives = 14/21 (66%), Gaps = 1/21 (4%)
Query: 126 TPPKGCLL-YGPPGTGKTLLA 145
P K CL+ YGPP TGK++
Sbjct: 259 IPKKNCLVIYGPPDTGKSMFC 279
>gnl|CDD|222163 pfam13479, AAA_24, AAA domain. This AAA domain is found in a wide
variety of presumed phage proteins.
Length = 201
Score = 31.5 bits (72), Expect = 0.68
Identities = 18/37 (48%), Positives = 22/37 (59%), Gaps = 5/37 (13%)
Query: 132 LLYGPPGTGKTLLA-----RAVASQLDANFLKVVSRT 163
L+YGPPG GKT LA + + LDA KV+SR
Sbjct: 7 LIYGPPGIGKTSLAKTLPPKTLFLDLDAGTTKVLSRG 43
>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 = 0.69
Identities = 38/159 (23%), Positives = 57/159 (35%), Gaps = 32/159 (20%)
Query: 29 GRLRETTNGPRYVVGCRRQLDKAKLKSGT-----RVALDMTTLTIMRYLPREVDPLVYNM 83
+L N + G R+ D AK+ A M+ LT ++ L + P
Sbjct: 16 EQLMLRANVSHELNGLGREGDLAKINGRPVIFLPSEAFSMSELTELQALLPQARPY---- 71
Query: 84 SHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKG--CLLYGPPGTGK 141
+ G S ++ELRE I+ P G L+ G GTGK
Sbjct: 72 ----LKSEALDDLIGESPSLQELREQIKA-------------YAPSGLPVLIIGETGTGK 114
Query: 142 TLLARAV----ASQLDANFLKVVSRTIAIVLIFAVIFLH 176
L AR + A + +A F+ + L A +F H
Sbjct: 115 ELFARLIHALSARRAEAPFIAFNCAAYSENLQEAELFGH 153
>gnl|CDD|222005 pfam13245, AAA_19, Part of AAA domain.
Length = 73
Score = 29.6 bits (67), Expect = 0.73
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 135 GPPGTGKTLLARAVASQL 152
G PGTGKT A A+ ++L
Sbjct: 17 GGPGTGKTATAAAIIARL 34
>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 = 31.0 bits (71), Expect = 0.76
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 16/46 (34%)
Query: 120 FQRVGITPPKGCLLY----------------GPPGTGKTLLARAVA 149
+ + + P G +L GP GTGK+ L RA+A
Sbjct: 3 LENLSLATPDGRVLLKDLSFEIKPGDRLLITGPSGTGKSSLFRALA 48
Score = 28.7 bits (65), Expect = 5.1
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 20/54 (37%)
Query: 455 ARLIREMFNYARDHQPCIIFMDEIDAIGGRRFSEGTSA-DREIQRTLMELLNQM 507
ARL+ H+P +F+D E TSA D E + L +LL ++
Sbjct: 103 ARLLL--------HKPKFVFLD-----------EATSALDEESEDRLYQLLKEL 137
>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 = 32.2 bits (73), Expect = 0.79
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 6/53 (11%)
Query: 118 ELFQRVGITPPKGCLLYGPPGTGKTLLARAVAS------QLDANFLKVVSRTI 164
E +RV I LL GP G GK+ LAR + Q F++V T+
Sbjct: 198 EQIERVAIRSRAPILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATL 250
>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 = 31.3 bits (72), Expect = 0.80
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 135 GPPGTGKTLLARAVASQL 152
GP GTGKT LA A A
Sbjct: 26 GPAGTGKTYLAVAAAVDA 43
>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 = 30.7 bits (70), Expect = 0.82
Identities = 21/69 (30%), Positives = 31/69 (44%), Gaps = 17/69 (24%)
Query: 87 DPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKG-CLLYGPPGTGKTLL- 144
+P ++ S+ L LR +++ G+ P G LL G PGTGK+ L
Sbjct: 3 EPSELLPSSAEDLDAPPPPLRWLVK------------GLLPRGGLTLLAGAPGTGKSTLA 50
Query: 145 ---ARAVAS 150
A AVA+
Sbjct: 51 LDLAAAVAT 59
>gnl|CDD|223666 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA
replication, recombination, and repair].
Length = 408
Score = 31.9 bits (73), Expect = 0.85
Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANF--LKVV 160
+YG G GKT L +A+ ++ AN +VV
Sbjct: 117 FIYGGVGLGKTHLLQAIGNEALANGPNARVV 147
>gnl|CDD|237323 PRK13263, ureE, urease accessory protein UreE; Provisional.
Length = 206
Score = 31.3 bits (71), Expect = 0.90
Identities = 8/15 (53%), Positives = 9/15 (60%)
Query: 183 SHGHSHHSHEHSHDH 197
SH H H+H HDH
Sbjct: 177 SHSDHDHDHDHDHDH 191
Score = 31.3 bits (71), Expect = 0.92
Identities = 10/16 (62%), Positives = 11/16 (68%)
Query: 183 SHGHSHHSHEHSHDHG 198
SH HS H H+H HDH
Sbjct: 175 SHSHSDHDHDHDHDHD 190
>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit
clpA. [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 730
Score = 31.9 bits (73), Expect = 0.92
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFLK 158
L GP G GKT LA+ +A +L + L+
Sbjct: 487 LFVGPTGVGKTELAKQLAEELGVHLLR 513
>gnl|CDD|224768 COG1855, COG1855, ATPase (PilT family) [General function prediction
only].
Length = 604
Score = 31.6 bits (72), Expect = 1.1
Identities = 22/100 (22%), Positives = 35/100 (35%), Gaps = 23/100 (23%)
Query: 72 LPREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELP------------------ 113
L ++ + I G Q+R R VI P
Sbjct: 186 LEEIAREIIERAKRDPDSFIEIDRPGATVVQLRNYRIVIARPPFSDRWEITAVRPVVKLS 245
Query: 114 ----LLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 149
L+ +L +R+ +G L+ G PG GK+ A+A+A
Sbjct: 246 LEDYGLSDKLKERL-EERAEGILIAGAPGAGKSTFAQALA 284
>gnl|CDD|178778 PLN03240, PLN03240, putative Low-temperature-induced protein;
Provisional.
Length = 626
Score = 31.7 bits (71), Expect = 1.1
Identities = 15/35 (42%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 332 KGGHGHSHGKPIEKKKHTSSGEDSDLSDDEDDSDD 366
K GHGH H + +H D D DDEDD +D
Sbjct: 55 KHGHGHEHDR----GEHIPDDHDLDQEDDEDDYND 85
>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 = 1.1
Identities = 10/42 (23%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 118 ELFQRVGITPPKGCL-LYGPPGTGKT-LLARAVASQLDANFL 157
+ + + L G G+GK+ LLA+A+A ++
Sbjct: 12 KKLKEADASKKVVRFVLTGERGSGKSVLLAQAMAYAFTQGWI 53
>gnl|CDD|136670 PRK08181, PRK08181, transposase; Validated.
Length = 269
Score = 31.1 bits (70), Expect = 1.1
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 1/37 (2%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFLKVV-SRTIAIV 167
LL+GPPG GK+ LA A+ L N +V+ +RT +V
Sbjct: 110 LLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLV 146
>gnl|CDD|237495 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional.
Length = 637
Score = 31.5 bits (72), Expect = 1.1
Identities = 11/21 (52%), Positives = 17/21 (80%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
++ G PGTGK++LA+A+A L
Sbjct: 54 MMIGSPGTGKSMLAKAMAELL 74
>gnl|CDD|235244 PRK04182, PRK04182, cytidylate kinase; Provisional.
Length = 180
Score = 30.5 bits (70), Expect = 1.3
Identities = 15/27 (55%), Positives = 19/27 (70%), Gaps = 3/27 (11%)
Query: 135 GPPGTGKTLLARAVASQLDANFLKVVS 161
GPPG+GKT +AR +A +L LK VS
Sbjct: 7 GPPGSGKTTVARLLAEKLG---LKHVS 30
>gnl|CDD|214407 MTH00032, ND5, NADH dehydrogenase subunit 5; Provisional.
Length = 669
Score = 31.5 bits (71), Expect = 1.3
Identities = 29/89 (32%), Positives = 46/89 (51%), Gaps = 10/89 (11%)
Query: 93 YSAIGGLSEQIRELREVIELPLLNPELFQRVGI--TPPKGCL-LYGPPGTGKTLLARAVA 149
YS +GG + + +++ +PL + F GI T +G L L+GP G T+ R
Sbjct: 585 YSFLGGAWQGDHLINKLVAIPLFS---FGHWGIYKTLDRGWLELFGPQGIS-TIALRV-- 638
Query: 150 SQLDANFLK-VVSRTIAIVLIFAVIFLHM 177
SQ +N V+SR ++L F +IFL +
Sbjct: 639 SQFISNLQSGVISRYALVLLSFTIIFLAL 667
>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 = 30.3 bits (69), Expect = 1.4
Identities = 21/69 (30%), Positives = 27/69 (39%), Gaps = 14/69 (20%)
Query: 84 SHEDPGDITYSAIGGLSE-QIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKT 142
+ + D + A GL I EL + I + LL GPPG GKT
Sbjct: 15 ARKTLEDFDFRAARGLDRRLIAELAGL-------------DWIEQAENLLLLGPPGVGKT 61
Query: 143 LLARAVASQ 151
LA A+ Q
Sbjct: 62 HLACALGHQ 70
>gnl|CDD|236353 PRK08939, PRK08939, primosomal protein DnaI; Reviewed.
Length = 306
Score = 31.0 bits (71), Expect = 1.4
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 13/50 (26%)
Query: 129 KGCLLYGPPGTGKTLLARAVASQLDANFLKVVSRTIAIVLIFAVIFLHMP 178
KG LYG G GK+ L A+A++L + + + LH P
Sbjct: 157 KGLYLYGDFGVGKSYLLAAIANEL-------AKKGV------SSTLLHFP 193
>gnl|CDD|183088 PRK11331, PRK11331, 5-methylcytosine-specific restriction enzyme
subunit McrB; Provisional.
Length = 459
Score = 31.2 bits (70), Expect = 1.4
Identities = 14/28 (50%), Positives = 18/28 (64%)
Query: 125 ITPPKGCLLYGPPGTGKTLLARAVASQL 152
+T K +L GPPG GKT +AR +A L
Sbjct: 191 LTIKKNIILQGPPGVGKTFVARRLAYLL 218
>gnl|CDD|218752 pfam05793, TFIIF_alpha, Transcription initiation factor IIF, alpha
subunit (TFIIF-alpha). Transcription initiation factor
IIF, alpha subunit (TFIIF-alpha) or RNA polymerase
II-associating protein 74 (RAP74) is the large subunit
of transcription factor IIF (TFIIF), which is essential
for accurate initiation and stimulates elongation by RNA
polymerase II.
Length = 528
Score = 31.1 bits (70), Expect = 1.5
Identities = 10/34 (29%), Positives = 16/34 (47%)
Query: 345 KKKHTSSGEDSDLSDDEDDSDDVDYKKTKRVKAK 378
K + SG+DSD SD + + K+ + K
Sbjct: 352 DKDDSDSGDDSDDSDIDGEDSVSLVTAKKQKEPK 385
>gnl|CDD|220102 pfam09073, BUD22, BUD22. BUD22 has been shown in yeast to be a
nuclear protein involved in bud-site selection. It plays
a role in positioning the proximal bud pole signal. More
recently it has been shown to be involved in ribosome
biogenesis.
Length = 424
Score = 31.0 bits (70), Expect = 1.5
Identities = 11/55 (20%), Positives = 23/55 (41%), Gaps = 1/55 (1%)
Query: 339 HGKPIEKKKHTSSGEDSDLSDDEDDSDDVDYKK-TKRVKAKTSSQSNDDIAVAGY 392
+ ++ K S ED ++E+DSD DY + + + + ++ Y
Sbjct: 174 ESESEDESKSEESAEDDSDDEEEEDSDSEDYSQYDGMLVDSSDEEEGEEAPSINY 228
Score = 29.8 bits (67), Expect = 3.9
Identities = 11/25 (44%), Positives = 13/25 (52%)
Query: 350 SSGEDSDLSDDEDDSDDVDYKKTKR 374
S ED D D++ D D V K KR
Sbjct: 282 SGSEDEDDDDEDIDPDQVVKKPVKR 306
>gnl|CDD|236482 PRK09361, radB, DNA repair and recombination protein RadB;
Provisional.
Length = 225
Score = 30.6 bits (70), Expect = 1.5
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFLKVV 160
+YGPPG+GKT + +A + N KV+
Sbjct: 28 IYGPPGSGKTNICLQLAVEAAKNGKKVI 55
>gnl|CDD|236641 PRK10019, PRK10019, nickel/cobalt efflux protein RcnA; Provisional.
Length = 279
Score = 30.9 bits (70), Expect = 1.6
Identities = 10/25 (40%), Positives = 12/25 (48%)
Query: 174 FLHMPNLCDSHGHSHHSHEHSHDHG 198
+L + D H HEH HDHG
Sbjct: 116 WLENMHHHDHDHDHDHDHEHHHDHG 140
>gnl|CDD|223956 COG1025, Ptr, Secreted/periplasmic Zn-dependent peptidases,
insulinase-like [Posttranslational modification, protein
turnover, chaperones].
Length = 937
Score = 31.2 bits (71), Expect = 1.6
Identities = 13/67 (19%), Positives = 22/67 (32%), Gaps = 2/67 (2%)
Query: 417 KHVGIVTTITILFHEIPHEIGDFAILIH--AIVDKYIGESARLIREMFNYARDHQPCIIF 474
K G++T ++ I G FAI + L + N R+
Sbjct: 308 KKQGLITELSAGLDPISGNYGVFAISYELTDKGLAHYDRVIALTFQYLNLLREKGIPKYT 367
Query: 475 MDEIDAI 481
DE+ +
Sbjct: 368 FDELQNV 374
>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 = 30.3 bits (69), Expect = 1.6
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 116 NPELFQRVGITPPKGCLL--YGPPGTGKTLLARAVA 149
P + + V + G L GP G+GK+ LAR +
Sbjct: 14 EPPVLRNVSFSIEPGESLAIIGPSGSGKSTLARLIL 49
>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 = 29.9 bits (68), Expect = 1.7
Identities = 15/38 (39%), Positives = 19/38 (50%), Gaps = 8/38 (21%)
Query: 122 RVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 159
R+ IT GPPG GKT L + V L + +KV
Sbjct: 1 RIFIT--------GPPGVGKTTLVKKVIELLKSEGVKV 30
>gnl|CDD|222927 PHA02774, PHA02774, E1; Provisional.
Length = 613
Score = 31.0 bits (71), Expect = 1.7
Identities = 11/21 (52%), Positives = 14/21 (66%), Gaps = 1/21 (4%)
Query: 126 TPPKGCLL-YGPPGTGKTLLA 145
P K CL+ YGPP TGK++
Sbjct: 431 IPKKNCLVIYGPPDTGKSMFC 451
>gnl|CDD|233208 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family
protein. [Transport and binding proteins, Other].
Length = 1394
Score = 31.2 bits (71), Expect = 1.7
Identities = 13/41 (31%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 125 ITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSRTIA 165
I P + ++ G PG+G + L + +AS D F V I
Sbjct: 84 IKPGELTVVLGRPGSGCSTLLKTIASNTD-GFHIGVEGVIT 123
>gnl|CDD|225804 COG3265, GntK, Gluconate kinase [Carbohydrate transport and
metabolism].
Length = 161
Score = 30.0 bits (68), Expect = 1.7
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 135 GPPGTGKTLLARAVASQLDANFL 157
G G+GK+ + A+A +L A F+
Sbjct: 2 GVSGSGKSTVGSALAERLGAKFI 24
>gnl|CDD|221144 pfam11595, DUF3245, Protein of unknown function (DUF3245). This is
a family of proteins conserved in fungi. The function is
not known, and there is no S. cerevisiae member.
Length = 145
Score = 29.9 bits (67), Expect = 1.8
Identities = 13/51 (25%), Positives = 20/51 (39%), Gaps = 4/51 (7%)
Query: 331 VKGGHGHSHGKPIEKKKHTSSGEDSDLSDDEDDSDDVDYKKTKRVKAKTSS 381
+GG + K+ SS D+DD DD D ++ K S+
Sbjct: 95 AEGGPVKRKAAVVAKEAKQSSKG----VGDDDDDDDEDESRSAAFGKKGSN 141
>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 = 30.7 bits (70), Expect = 1.8
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 4/37 (10%)
Query: 115 LNPELFQRVGITPPKG-CLLYGPPGTGKT-LLARAVA 149
LNPE QR +T G L+ G+GKT +L +A
Sbjct: 1 LNPE--QRKAVTHLGGPLLVLAGAGSGKTRVLTERIA 35
>gnl|CDD|169981 PRK09577, PRK09577, multidrug efflux protein; Reviewed.
Length = 1032
Score = 31.0 bits (70), Expect = 1.9
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 134 YGPPGTGKTLLARAVASQLDANFLKVVSRTI-AIVLIFAVIFLHMPNL 180
Y PPG K + +S + + KVV+ I A VL+F V+FL M N
Sbjct: 315 YFPPGV-KYQIPYETSSFVRVSMNKVVTTLIEAGVLVFLVMFLFMQNF 361
>gnl|CDD|182120 PRK09862, PRK09862, putative ATP-dependent protease; Provisional.
Length = 506
Score = 30.7 bits (69), Expect = 2.1
Identities = 12/14 (85%), Positives = 13/14 (92%)
Query: 132 LLYGPPGTGKTLLA 145
LL GPPGTGKT+LA
Sbjct: 214 LLIGPPGTGKTMLA 227
>gnl|CDD|223679 COG0606, COG0606, Predicted ATPase with chaperone activity
[Posttranslational modification, protein turnover,
chaperones].
Length = 490
Score = 30.7 bits (70), Expect = 2.1
Identities = 12/15 (80%), Positives = 13/15 (86%)
Query: 132 LLYGPPGTGKTLLAR 146
LL GPPGTGKT+LA
Sbjct: 202 LLVGPPGTGKTMLAS 216
>gnl|CDD|217502 pfam03343, SART-1, SART-1 family. SART-1 is a protein involved in
cell cycle arrest and pre-mRNA splicing. It has been
shown to be a component of U4/U6 x U5 tri-snRNP complex
in human, Schizosaccharomyces pombe and Saccharomyces
cerevisiae. SART-1 is a known tumour antigen in a range
of cancers recognised by T cells.
Length = 603
Score = 30.5 bits (69), Expect = 2.2
Identities = 15/55 (27%), Positives = 22/55 (40%), Gaps = 5/55 (9%)
Query: 337 HSHGKPIEKKKHTSSGEDSD-----LSDDEDDSDDVDYKKTKRVKAKTSSQSNDD 386
+ +K K + D D SD D S+ V +KK K+ K K + D
Sbjct: 238 KKRQEVKKKLKINNVSLDDDSTETPASDYYDVSEMVKFKKPKKKKKKKKKRRKDL 292
>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 = 30.1 bits (69), Expect = 2.3
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 14/49 (28%)
Query: 121 QRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSRTIAIVLI 169
QR+GI +G GTGKT+L +A A+ ++V VLI
Sbjct: 16 QRIGI--------FGGSGTGKTVLLGMIARNAKADVVEV------YVLI 50
>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 = 30.2 bits (68), Expect = 2.3
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 131 CLLYGPPGTGKTLLARAVASQL 152
C+L G P GK+ LAR++++ L
Sbjct: 2 CVLCGLPAAGKSTLARSLSATL 23
>gnl|CDD|234232 TIGR03499, FlhF, flagellar biosynthetic protein FlhF. [Cellular
processes, Chemotaxis and motility].
Length = 283
Score = 30.0 bits (68), Expect = 2.4
Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 11/54 (20%)
Query: 101 EQIRE-LREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKT-----LLARAV 148
+RE L ++ + + +R G+ L GP G GKT L AR V
Sbjct: 172 RWLREALEGMLPVKPEEDPILERGGV-----IALVGPTGVGKTTTLAKLAARFV 220
>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P. syringae 6; Provisional.
Length = 1153
Score = 30.6 bits (69), Expect = 2.5
Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 11/59 (18%)
Query: 98 GLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANF 156
G+ + I ++ ++ L E + VGI +G G GKT +ARA+ S+L F
Sbjct: 188 GIEDHIAKMSSLLHL---ESEEVRMVGI--------WGSSGIGKTTIARALFSRLSRQF 235
>gnl|CDD|238026 cd00071, GMPK, Guanosine monophosphate kinase (GMPK, EC 2.7.4.8),
also known as guanylate kinase (GKase), catalyzes the
reversible phosphoryl transfer from adenosine
triphosphate (ATP) to guanosine monophosphate (GMP) to
yield adenosine diphosphate (ADP) and guanosine
diphosphate (GDP). It plays an essential role in the
biosynthesis of guanosine triphosphate (GTP). This
enzyme is also important for the activation of some
antiviral and anticancer agents, such as acyclovir,
ganciclovir, carbovir, and thiopurines.
Length = 137
Score = 29.0 bits (66), Expect = 2.7
Identities = 12/29 (41%), Positives = 16/29 (55%)
Query: 135 GPPGTGKTLLARAVASQLDANFLKVVSRT 163
GP G GK+ L + + + D NF VS T
Sbjct: 6 GPSGVGKSTLLKRLLEEFDPNFGFSVSHT 34
>gnl|CDD|223360 COG0283, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 222
Score = 29.8 bits (68), Expect = 2.7
Identities = 9/23 (39%), Positives = 17/23 (73%)
Query: 135 GPPGTGKTLLARAVASQLDANFL 157
GP G+GK+ +A+ +A +L ++L
Sbjct: 11 GPAGSGKSTVAKILAEKLGFHYL 33
>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 = 29.7 bits (67), Expect = 2.8
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFLKVV 160
+YGPPG+GKT + +A KVV
Sbjct: 17 IYGPPGSGKTNICMILAVNAARQGKKVV 44
>gnl|CDD|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit.
Transcription initiation factor IIA (TFIIA) is a
heterotrimer, the three subunits being known as alpha,
beta, and gamma, in order of molecular weight. The N and
C-terminal domains of the gamma subunit are represented
in pfam02268 and pfam02751, respectively. This family
represents the precursor that yields both the alpha and
beta subunits. The TFIIA heterotrimer is an essential
general transcription initiation factor for the
expression of genes transcribed by RNA polymerase II.
Together with TFIID, TFIIA binds to the promoter region;
this is the first step in the formation of a
pre-initiation complex (PIC). Binding of the rest of the
transcription machinery follows this step. After
initiation, the PIC does not completely dissociate from
the promoter. Some components, including TFIIA, remain
attached and re-initiate a subsequent round of
transcription.
Length = 332
Score = 30.1 bits (68), Expect = 2.8
Identities = 12/35 (34%), Positives = 14/35 (40%), Gaps = 7/35 (20%)
Query: 350 SSGEDSDLSDDEDDSDDVD------YKKTKRVKAK 378
S +D D ED D D Y K +R K K
Sbjct: 271 DSDDDVSDEDGEDL-FDTDNVMLCQYDKVQRSKNK 304
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 29.4 bits (67), Expect = 2.9
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 133 LYGPPGTGKTLLARAVASQ 151
+ G P TGKT L A+A++
Sbjct: 4 ITGGPSTGKTTLLEALAAR 22
>gnl|CDD|235331 PRK05022, PRK05022, anaerobic nitric oxide reductase transcription
regulator; Provisional.
Length = 509
Score = 30.1 bits (69), Expect = 2.9
Identities = 23/91 (25%), Positives = 39/91 (42%), Gaps = 17/91 (18%)
Query: 58 RVALDMTTLTIMRYLPREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNP 117
R AL + L LP++V G++ G S +++L++ IE+ +
Sbjct: 157 RNALLIEQLESQAELPQDVAE-FLRQEALKEGEMI-----GQSPAMQQLKKEIEV-VAAS 209
Query: 118 ELFQRVGITPPKGCLLYGPPGTGKTLLARAV 148
+L L+ G G GK L+ARA+
Sbjct: 210 DLN----------VLILGETGVGKELVARAI 230
>gnl|CDD|215031 PLN00020, PLN00020, ribulose bisphosphate carboxylase/oxygenase
activase -RuBisCO activase (RCA); Provisional.
Length = 413
Score = 30.1 bits (68), Expect = 3.0
Identities = 16/58 (27%), Positives = 31/58 (53%), Gaps = 6/58 (10%)
Query: 452 GESARLIREMFNYARDH-----QPCIIFMDEIDAIGGR-RFSEGTSADREIQRTLMEL 503
GE +LIR+ + A D + +F++++DA GR ++ T ++ + TLM +
Sbjct: 190 GEPGKLIRQRYREAADIIKKKGKMSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNI 247
>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 = 30.1 bits (68), Expect = 3.0
Identities = 19/44 (43%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 120 FQRV---GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 160
RV GI P L+ G PG GK+ L VA QL N +KV+
Sbjct: 83 LDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVL 126
>gnl|CDD|219673 pfam07970, COPIIcoated_ERV, Endoplasmic reticulum vesicle
transporter. This family is conserved from plants and
fungi to humans. Erv46 works in close conjunction with
Erv41 and together they form a complex which cycles
between the endoplasmic reticulum and Golgi complex.
Erv46-41 interacts strongly with the endoplasmic
reticulum glucosidase II. Mammalian glucosidase II
comprises a catalytic alpha-subunit and a 58 kDa beta
subunit, which is required for ER localisation. All
proteins identified biochemically as Erv41p-Erv46p
interactors are localised to the early secretory pathway
and are involved in protein maturation and processing in
the ER and/or sorting into COPII vesicles for transport
to the Golgi.
Length = 222
Score = 29.6 bits (67), Expect = 3.4
Identities = 11/39 (28%), Positives = 15/39 (38%), Gaps = 3/39 (7%)
Query: 276 LHLIP-HAIGASKEHSHSHSHGGSHEH--SHSIADLSVG 311
H+ P + H H S + SH+I LS G
Sbjct: 71 FHIAPGRSFQEKGGHVHDLSLFTDEKLNFSHTINHLSFG 109
>gnl|CDD|214361 CHL00095, clpC, Clp protease ATP binding subunit.
Length = 821
Score = 30.0 bits (68), Expect = 3.4
Identities = 15/33 (45%), Positives = 18/33 (54%), Gaps = 4/33 (12%)
Query: 122 RVGITPPK----GCLLYGPPGTGKTLLARAVAS 150
RVG+ P L GP G GKT L +A+AS
Sbjct: 529 RVGLKNPNRPIASFLFSGPTGVGKTELTKALAS 561
>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 = 3.5
Identities = 13/37 (35%), Positives = 18/37 (48%), Gaps = 3/37 (8%)
Query: 113 PLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 149
LL+ + P + L+ G G GKT L RA+A
Sbjct: 407 TLLSE---LNFEVRPGERLLITGESGAGKTSLLRALA 440
>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 = 29.2 bits (66), Expect = 3.8
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 132 LLYGPPGTGKTLLA 145
LL G PGTGKT A
Sbjct: 3 LLSGGPGTGKTTFA 16
>gnl|CDD|236546 PRK09518, PRK09518, bifunctional cytidylate kinase/GTPase Der;
Reviewed.
Length = 712
Score = 29.8 bits (67), Expect = 3.8
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 135 GPPGTGKTLLARAVASQLDANFL 157
GP G GK+ ++RA+A L +L
Sbjct: 8 GPAGVGKSSVSRALAQYLGYAYL 30
>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein.
Length = 529
Score = 29.7 bits (67), Expect = 3.8
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 344 EKKKHTSSGEDSDLSDDEDDSDDVDYKKTKRVKAKT 379
EKK+ D + DE++ + KKTK+VK T
Sbjct: 46 EKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVKETT 81
>gnl|CDD|223401 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase
[Translation, ribosomal structure and biogenesis].
Length = 308
Score = 29.5 bits (67), Expect = 3.9
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 128 PKGCLLYGPPGTGKTLLARAVASQLDA 154
PK ++ GP +GKT LA A+A +L
Sbjct: 3 PKLIVIAGPTASGKTALAIALAKRLGG 29
>gnl|CDD|236997 PRK11831, PRK11831, putative ABC transporter ATP-binding protein
YrbF; Provisional.
Length = 269
Score = 29.3 bits (66), Expect = 4.0
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 116 NPELFQRVGITPPKGCL--LYGPPGTGKTLLARAVASQL 152
N +F + +T P+G + + GP G GKT L R + Q+
Sbjct: 19 NRCIFDNISLTVPRGKITAIMGPSGIGKTTLLRLIGGQI 57
>gnl|CDD|183452 PRK12337, PRK12337, 2-phosphoglycerate kinase; Provisional.
Length = 475
Score = 29.7 bits (67), Expect = 4.0
Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 10/58 (17%)
Query: 105 ELREVIELPLLN---PELFQRVGI-----TPPKG--CLLYGPPGTGKTLLARAVASQL 152
+LR +E LL E+ +R + PP+ L+ G G GK++LA A+A +L
Sbjct: 222 QLRRKVEALLLEEAGEEVARRYRLLRSIRRPPRPLHVLIGGVSGVGKSVLASALAYRL 279
>gnl|CDD|129128 TIGR00017, cmk, cytidylate kinase. This family consists of
cytidylate kinase, which catalyzes the phosphorylation
of cytidine 5-monophosphate (dCMP) to cytidine 5
-diphosphate (dCDP) in the presence of ATP or GTP. UMP
and dCMP can also act as acceptors [Purines,
pyrimidines, nucleosides, and nucleotides, Nucleotide
and nucleoside interconversions].
Length = 217
Score = 29.3 bits (66), Expect = 4.0
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 6/48 (12%)
Query: 135 GPPGTGKTLLARAVASQLDANFLKVVSRTIAIVLIFAVIFLHMPNLCD 182
GP G GK+ +A+AVA +L +L + A+ A+ L N D
Sbjct: 9 GPSGAGKSTVAKAVAEKLGYAYLD----SGAMYRAIALAALQ--NRVD 50
>gnl|CDD|180215 PRK05707, PRK05707, DNA polymerase III subunit delta'; Validated.
Length = 328
Score = 29.7 bits (67), Expect = 4.0
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 128 PKGCLLYGPPGTGKTLLARAVASQL 152
P LL+GP G GK LA +A+ L
Sbjct: 22 PHAYLLHGPAGIGKRALAERLAAAL 46
>gnl|CDD|236748 PRK10737, PRK10737, FKBP-type peptidyl-prolyl cis-trans isomerase;
Provisional.
Length = 196
Score = 29.1 bits (65), Expect = 4.1
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 183 SHGHSHHSHEHSHDHG 198
+HGH H +H+H HDH
Sbjct: 148 AHGHVHGAHDHHHDHD 163
>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 = 4.2
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 3/49 (6%)
Query: 115 LNPE---LFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 160
L+ E + V + + ++ GP GTGKT +A +A +V+
Sbjct: 2 LSAEQREAVRHVLTSGDRVAVVQGPAGTGKTTSLKAAREAWEAAGYRVI 50
>gnl|CDD|234654 PRK00131, aroK, shikimate kinase; Reviewed.
Length = 175
Score = 29.0 bits (66), Expect = 4.2
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFL 157
L G G GK+ + R +A +L +F+
Sbjct: 9 LIGFMGAGKSTIGRLLAKRLGYDFI 33
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 29.9 bits (68), Expect = 4.2
Identities = 16/35 (45%), Positives = 20/35 (57%), Gaps = 4/35 (11%)
Query: 122 RVGITPPK---GCLLY-GPPGTGKTLLARAVASQL 152
R G+ P G L+ GP G GKT LA+A+A L
Sbjct: 511 RAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEAL 545
>gnl|CDD|233120 TIGR00764, lon_rel, lon-related putative ATP-dependent protease.
This model represents a set of proteins with extensive
C-terminal homology to the ATP-dependent protease La,
product of the lon gene of E. coli. The model is based
on a seed alignment containing only archaeal members,
but several bacterial proteins match the model well.
Because several species, including Thermotoga maritima
and Treponema pallidum, contain both a close homolog of
the lon protease and nearly full-length homolog of the
members of this family, we suggest there may also be a
functional division between the two families. Members of
this family from Pyrococcus horikoshii and Pyrococcus
abyssi each contain a predicted intein [Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 608
Score = 29.8 bits (67), Expect = 4.3
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
LL G PG GK++LA+A+A L
Sbjct: 41 LLIGEPGVGKSMLAKAMAELL 61
>gnl|CDD|237475 PRK13695, PRK13695, putative NTPase; Provisional.
Length = 174
Score = 28.7 bits (65), Expect = 4.4
Identities = 15/38 (39%), Positives = 18/38 (47%), Gaps = 8/38 (21%)
Query: 122 RVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 159
++GIT GPPG GKT L +A L KV
Sbjct: 2 KIGIT--------GPPGVGKTTLVLKIAELLKEEGYKV 31
>gnl|CDD|234173 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members
of this protein family are the bacterial ATP-dependent
chaperone ClpB. This protein belongs to the AAA family,
ATPases associated with various cellular activities
(pfam00004). This molecular chaperone does not act as a
protease, but rather serves to disaggregate misfolded
and aggregated proteins [Protein fate, Protein folding
and stabilization].
Length = 852
Score = 29.5 bits (67), Expect = 4.5
Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 122 RVGITPPK---GCLLY-GPPGTGKTLLARAVASQL 152
R G++ P G L+ GP G GKT LA+A+A L
Sbjct: 585 RAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFL 619
>gnl|CDD|225822 COG3284, AcoR, Transcriptional activator of acetoin/glycerol
metabolism [Secondary metabolites biosynthesis,
transport, and catabolism / Transcription].
Length = 606
Score = 29.6 bits (67), Expect = 4.5
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 132 LLYGPPGTGKTLLARAV--ASQLDANFLKVVSRTIAIVLIFAVIF 174
LL G GTGK +LARA+ S+ F+ V I LI + +F
Sbjct: 340 LLQGETGTGKEVLARAIHQNSEAAGPFVAVNCAAIPEALIESELF 384
>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 = 29.5 bits (67), Expect = 4.6
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 131 CLLYGPPGTGKTLLARAVASQL 152
L+ G PGTGKT++A + ++L
Sbjct: 4 FLVTGGPGTGKTVVALNLFAEL 25
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 29.8 bits (68), Expect = 4.6
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 130 GCLLYGPPGTGKTLLARAVA 149
G L+ G PG GK+ A+A+A
Sbjct: 259 GILIAGAPGAGKSTFAQALA 278
>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 = 29.0 bits (65), Expect = 4.6
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFLKVV 160
+YGPPGTGKT +A +A + KV
Sbjct: 24 VYGPPGTGKTNIAIQLAVETAGQGKKVA 51
>gnl|CDD|236886 PRK11249, katE, hydroperoxidase II; Provisional.
Length = 752
Score = 29.6 bits (67), Expect = 4.6
Identities = 20/72 (27%), Positives = 26/72 (36%), Gaps = 5/72 (6%)
Query: 101 EQIRELREVIELPLLNPELFQRV----GITPPKGCLLYGPPGTGKTLLARAVASQLDANF 156
IRE R V +L ++ L Q V GI L PP L S
Sbjct: 534 PYIRE-RVVDQLAHIDLTLAQAVAENLGIPLTDEQLNITPPPDVNGLKKDPALSLYAIPD 592
Query: 157 LKVVSRTIAIVL 168
+ R +AI+L
Sbjct: 593 GDIKGRKVAILL 604
>gnl|CDD|236926 PRK11545, gntK, gluconate kinase 1; Provisional.
Length = 163
Score = 28.5 bits (64), Expect = 4.9
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 135 GPPGTGKTLLARAVASQLDANFL 157
G G+GK+ +A VA QL A FL
Sbjct: 2 GVSGSGKSAVASEVAHQLHAAFL 24
>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 = 28.6 bits (64), Expect = 4.9
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFLKVVS 161
L++GP G+GKT LA +A + KVV
Sbjct: 3 LVFGPTGSGKTTLALQLALNIATKGGKVVY 32
>gnl|CDD|132122 TIGR03078, CH4_NH3mon_ox_C, methane monooxygenase/ammonia
monooxygenase, subunit C. Both ammonia oxidizers such
as Nitrosomonas europaea and methanotrophs (obligate
methane oxidizers) such as Methylococcus capsulatus each
can grow only on their own characteristic substrate.
However, both groups have the ability to oxidize both
substrates, and so the relevant enzymes must be named
here according to their ability to oxidze both. The
protein family represented here reflects subunit C of
both the particulate methane monooxygenase of
methylotrophs and the ammonia monooxygenase of
nitrifying bacteria.
Length = 229
Score = 29.0 bits (65), Expect = 5.0
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 313 WVLFGILAFLCVEKFVRYVKGGHGHSHG 340
W F + L FVR+ +G +G SHG
Sbjct: 8 WYKFALAPILAFYIFVRWYEGVYGWSHG 35
>gnl|CDD|205007 pfam12670, DUF3792, Protein of unknown function (DUF3792). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are approximately 130 amino acids in length.
These proteins are integral membrane proteins.
Length = 117
Score = 27.9 bits (63), Expect = 5.0
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 225 VWGEALLSTILISLAPFLILFVVPLDTATGNENFLKVLLSFGS---GGLLG 272
+WG LL +L L LI + +G E K+LL + GG+LG
Sbjct: 69 LWG--LLVGLLYFLILLLISLLGGGGFFSGLEQLTKLLLCLAAGALGGMLG 117
>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 = 28.8 bits (65), Expect = 5.1
Identities = 9/24 (37%), Positives = 17/24 (70%)
Query: 132 LLYGPPGTGKTLLARAVASQLDAN 155
L+ G PG+G + L +A+A++ + N
Sbjct: 37 LVLGRPGSGCSTLLKALANRTEGN 60
>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 = 5.1
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFL 157
L G G+GK+ +A A+A +L A F+
Sbjct: 3 LMGVAGSGKSTIASALAHRLGAKFI 27
>gnl|CDD|130041 TIGR00968, 3a0106s01, sulfate ABC transporter, ATP-binding protein.
[Transport and binding proteins, Anions].
Length = 237
Score = 29.0 bits (65), Expect = 5.2
Identities = 20/70 (28%), Positives = 28/70 (40%), Gaps = 14/70 (20%)
Query: 122 RVGITPPKGCL--LYGPPGTGKTLLARAVA------------SQLDANFLKVVSRTIAIV 167
V + P G L L GP G+GK+ L R +A + DA + R I V
Sbjct: 18 DVNLEVPTGSLVALLGPSGSGKSTLLRIIAGLEQPDSGRIRLNGQDATRVHARDRKIGFV 77
Query: 168 LIFAVIFLHM 177
+F H+
Sbjct: 78 FQHYALFKHL 87
>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 = 28.5 bits (64), Expect = 5.4
Identities = 13/27 (48%), Positives = 20/27 (74%), Gaps = 3/27 (11%)
Query: 135 GPPGTGKTLLARAVASQLDANFLKVVS 161
GPPG+GKT +A+ +A +L LK++S
Sbjct: 7 GPPGSGKTTVAKILAEKLS---LKLIS 30
>gnl|CDD|224985 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport
and metabolism].
Length = 299
Score = 28.9 bits (65), Expect = 5.8
Identities = 14/57 (24%), Positives = 24/57 (42%), Gaps = 2/57 (3%)
Query: 99 LSEQIRELREVIELPLLNPELFQRVGITP--PKGCLLYGPPGTGKTLLARAVASQLD 153
+ E ++L E + + L R P L+ G G GK+ +A +A +L
Sbjct: 58 IREVYQKLLEKGDPEVAKRYLLWRRIRKMKRPLIILIGGASGVGKSTIAGELARRLG 114
>gnl|CDD|237322 PRK13261, ureE, urease accessory protein UreE; Provisional.
Length = 159
Score = 28.4 bits (64), Expect = 5.9
Identities = 6/15 (40%), Positives = 6/15 (40%)
Query: 183 SHGHSHHSHEHSHDH 197
HH H H H H
Sbjct: 145 GGAFRHHGHSHDHSH 159
>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein. The proteins in this family
are designated YL1. These proteins have been shown to be
DNA-binding and may be a transcription factor.
Length = 238
Score = 28.9 bits (65), Expect = 6.0
Identities = 11/39 (28%), Positives = 15/39 (38%), Gaps = 12/39 (30%)
Query: 353 EDSDLSDDEDDSDDVD------------YKKTKRVKAKT 379
DSD D EDD + D + K+ + KT
Sbjct: 54 VDSDFDDSEDDEPESDDEEEGEKELQREERLKKKKRVKT 92
>gnl|CDD|226573 COG4088, COG4088, Predicted nucleotide kinase [Nucleotide transport
and metabolism].
Length = 261
Score = 28.7 bits (64), Expect = 6.2
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFLKVVSRT 163
+L G PG+GKT A+ +A +L +V+
Sbjct: 5 ILTGYPGSGKTTFAKELAKELRQEIWRVIHLE 36
>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional.
Length = 319
Score = 28.9 bits (65), Expect = 6.2
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
+L GPPGTGKT A+A +L
Sbjct: 38 ILSGPPGTGKTTSILALAHEL 58
>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 = 6.2
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFL 157
L+ G PG+GK+ AR + +L A L
Sbjct: 3 LMVGLPGSGKSTFARRLLRELGAVVL 28
>gnl|CDD|224577 COG1663, LpxK, Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope
biogenesis, outer membrane].
Length = 336
Score = 28.8 bits (65), Expect = 6.5
Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 138 GTGKTLLARAVASQLDANFLK--VVSR 162
GTGKT + +A L A ++ VVSR
Sbjct: 59 GTGKTPVVIWLAEALQARGVRVGVVSR 85
>gnl|CDD|239185 cd02784, MopB_CT_PHLH, The MopB_CT_PHLH CD includes a group of
related uncharacterized putative hydrogenase-like
homologs (PHLH) of molybdopterin binding proteins. This
CD is of the PHLH region homologous to the conserved
molybdopterin-binding C-terminal (MopB_CT) region
present in many, but not all, MopB homologs.
Length = 137
Score = 27.8 bits (62), Expect = 6.5
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 207 KQANEPYHQDVKHPITLQVWGEALL 231
+ AN + Q++ P+T VW A L
Sbjct: 17 RYANNAWLQELPRPLTKLVWDNAAL 41
>gnl|CDD|218719 pfam05729, NACHT, NACHT domain. This NTPase domain is found in
apoptosis proteins as well as those involved in MHC
transcription activation. This family is closely related
to pfam00931.
Length = 165
Score = 28.4 bits (64), Expect = 6.6
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 131 CLLYGPPGTGKTLLARAVASQL 152
+L G G+GKT L + +A
Sbjct: 3 VILQGEAGSGKTTLLQKIALLW 24
>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 = 28.6 bits (64), Expect = 6.8
Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 1/39 (2%)
Query: 451 IGESARLIREMFNYARDH-QPCIIFMDEIDAIGGRRFSE 488
S L + A P I+F++ D RR+S+
Sbjct: 63 RPFSGDLDEQRNELATRAITPRILFLEADDDTLVRRYSD 101
>gnl|CDD|218538 pfam05285, SDA1, SDA1. This family consists of several SDA1
protein homologues. SDA1 is a Saccharomyces cerevisiae
protein which is involved in the control of the actin
cytoskeleton. The protein is essential for cell
viability and is localised in the nucleus.
Length = 317
Score = 28.9 bits (65), Expect = 6.8
Identities = 7/37 (18%), Positives = 16/37 (43%)
Query: 350 SSGEDSDLSDDEDDSDDVDYKKTKRVKAKTSSQSNDD 386
S ++ + SD ED+ + + K + + D+
Sbjct: 122 ESDKEIESSDSEDEEEKDEAAKKAKEDSDEELSEEDE 158
>gnl|CDD|219158 pfam06745, KaiC, KaiC. This family represents a conserved region
within bacterial and archaeal proteins, most of which
are hypothetical. More than one copy is sometimes found
in each protein. This family includes KaiC, which is one
of the Kai proteins among which direct protein-protein
association may be a critical process in the generation
of circadian rhythms in cyanobacteria.
Length = 231
Score = 28.7 bits (65), Expect = 6.9
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 132 LLYGPPGTGKTLLA 145
L+ G PGTGKT+
Sbjct: 23 LITGGPGTGKTIFG 36
>gnl|CDD|218292 pfam04851, ResIII, Type III restriction enzyme, res subunit.
Length = 100
Score = 27.2 bits (61), Expect = 6.9
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 7/46 (15%)
Query: 132 LLYGPPGTGKTLLARAVASQLDA---NFLKVVSRTI----AIVLIF 170
L+ G+GKTL A A+ ++L L VV R A+V+I
Sbjct: 22 LIVMATGSGKTLTAAALIARLAKGKKKVLFVVPRKDLLEQALVIII 67
>gnl|CDD|183521 PRK12422, PRK12422, chromosomal replication initiation protein;
Provisional.
Length = 445
Score = 29.0 bits (65), Expect = 7.2
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 133 LYGPPGTGKTLLARAVASQLDANFLKVV 160
L+GP G+GKT L +A L + K++
Sbjct: 146 LFGPEGSGKTHLMQAAVHALRESGGKIL 173
>gnl|CDD|238979 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl
transfer from ATP to gluconate. The resulting product
gluconate-6-phoshate is an important precursor of
gluconate metabolism. GntK acts as a dimmer composed of
two identical subunits.
Length = 150
Score = 28.0 bits (63), Expect = 7.4
Identities = 9/26 (34%), Positives = 18/26 (69%)
Query: 132 LLYGPPGTGKTLLARAVASQLDANFL 157
++ G G+GK+ + +A+A +L A F+
Sbjct: 3 VVMGVSGSGKSTVGKALAERLGAPFI 28
>gnl|CDD|233847 TIGR02397, dnaX_nterm, DNA polymerase III, subunit gamma and tau.
This model represents the well-conserved first ~ 365
amino acids of the translation of the dnaX gene. The
full-length product of the dnaX gene in the model
bacterium E. coli is the DNA polymerase III tau subunit.
A translational frameshift leads to early termination
and a truncated protein subunit gamma, about 1/3 shorter
than tau and present in roughly equal amounts. This
frameshift mechanism is not necessarily universal for
species with DNA polymerase III but appears conserved in
the exterme thermophile Thermus thermophilis [DNA
metabolism, DNA replication, recombination, and repair].
Length = 355
Score = 28.7 bits (65), Expect = 7.7
Identities = 12/21 (57%), Positives = 13/21 (61%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
L GP GTGKT +AR A L
Sbjct: 40 LFSGPRGTGKTSIARIFAKAL 60
>gnl|CDD|224402 COG1485, COG1485, Predicted ATPase [General function prediction
only].
Length = 367
Score = 28.8 bits (65), Expect = 7.7
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 119 LFQRVGITPPKGCLLYGPPGTGKTLL 144
LF R P +G L+G G GKT+L
Sbjct: 57 LFGRDH-GPVRGLYLWGGVGRGKTML 81
>gnl|CDD|216936 pfam02223, Thymidylate_kin, Thymidylate kinase.
Length = 186
Score = 28.0 bits (63), Expect = 8.5
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 135 GPPGTGKTLLARAVASQLDANFLKVV 160
G G GKT A + +L +KVV
Sbjct: 3 GLDGAGKTTQAELLKERLKEQGIKVV 28
>gnl|CDD|234579 PRK00023, cmk, cytidylate kinase; Provisional.
Length = 225
Score = 28.2 bits (64), Expect = 8.7
Identities = 9/23 (39%), Positives = 16/23 (69%)
Query: 135 GPPGTGKTLLARAVASQLDANFL 157
GP G+GK +A+ +A +L ++L
Sbjct: 11 GPAGSGKGTVAKILAKKLGFHYL 33
>gnl|CDD|236461 PRK09302, PRK09302, circadian clock protein KaiC; Reviewed.
Length = 509
Score = 28.7 bits (65), Expect = 8.8
Identities = 12/20 (60%), Positives = 13/20 (65%), Gaps = 2/20 (10%)
Query: 128 PKG--CLLYGPPGTGKTLLA 145
PKG L+ G GTGKTL A
Sbjct: 29 PKGRPTLVSGTAGTGKTLFA 48
>gnl|CDD|180124 PRK05537, PRK05537, bifunctional sulfate adenylyltransferase
subunit 1/adenylylsulfate kinase protein; Validated.
Length = 568
Score = 28.9 bits (65), Expect = 8.9
Identities = 27/104 (25%), Positives = 41/104 (39%), Gaps = 20/104 (19%)
Query: 61 LDMTTLTIMRYLPREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELF 120
+ M M Y+ + Y E P T I G +E R LRE +E+P E F
Sbjct: 321 ITMVPFKEMVYVQDKAQ---YVPVDEVPQGATVLTISG-TELRRRLREGLEIP----EWF 372
Query: 121 QRVGI-------TPPKG----CL-LYGPPGTGKTLLARAVASQL 152
+ PP+ + G G GK+ +A+A+ +L
Sbjct: 373 SFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKL 416
>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family. Emg1 and Nop14 are novel
proteins whose interaction is required for the
maturation of the 18S rRNA and for 40S ribosome
production.
Length = 809
Score = 28.8 bits (65), Expect = 9.0
Identities = 5/39 (12%), Positives = 21/39 (53%)
Query: 350 SSGEDSDLSDDEDDSDDVDYKKTKRVKAKTSSQSNDDIA 388
++ D D++D ++ + ++ ++ K K++ + ++
Sbjct: 354 EEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAESTRSELP 392
>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 28.0 bits (63), Expect = 9.0
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 132 LLYGPPGTGKTLLARAVASQL 152
L+ GPPG GK+ LA+ +A +L
Sbjct: 4 LILGPPGAGKSTLAKKLAKKL 24
>gnl|CDD|206669 cd01882, BMS1, Bms1, an essential GTPase, promotes assembly of
preribosomal RNA processing complexes. Bms1 is an
essential, evolutionarily conserved, nucleolar protein.
Its depletion interferes with processing of the 35S
pre-rRNA at sites A0, A1, and A2, and the formation of
40S subunits. Bms1, the putative endonuclease Rc11, and
the essential U3 small nucleolar RNA form a stable
subcomplex that is believed to control an early step in
the formation of the 40S subumit. The C-terminal domain
of Bms1 contains a GTPase-activating protein (GAP) that
functions intramolecularly. It is believed that Rc11
activates Bms1 by acting as a guanine-nucleotide
exchange factor (GEF) to promote GDP/GTP exchange, and
that activated (GTP-bound) Bms1 delivers Rc11 to the
preribosomes.
Length = 231
Score = 28.1 bits (63), Expect = 9.1
Identities = 18/76 (23%), Positives = 33/76 (43%)
Query: 92 TYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQ 151
+ + Q + +++ E L P + + PP ++ GPPG GK+ L R++ +
Sbjct: 3 AVQSAVRAARQFQRTQDLEEKKLHVPVVDRTPEEPPPLVVVVVGPPGVGKSTLIRSLIKR 62
Query: 152 LDANFLKVVSRTIAIV 167
L + I IV
Sbjct: 63 YTKQNLSDIKGPITIV 78
>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 = 28.0 bits (63), Expect = 9.5
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 135 GPPGTGKTLLARAVASQLDANFLKVV 160
GP G+GKT A+ +++QL N + V
Sbjct: 6 GPSGSGKTTFAKKLSNQLRVNGIGPV 31
>gnl|CDD|183619 PRK12604, PRK12604, putative monovalent cation/H+ antiporter
subunit F; Reviewed.
Length = 84
Score = 26.6 bits (59), Expect = 9.5
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 2/27 (7%)
Query: 308 LSVGLWVLFGILAFLCVEKFVRYVKGG 334
L V L ++ ILAF+ V F RY++GG
Sbjct: 59 LDVAL--VYAILAFVGVIAFARYLEGG 83
>gnl|CDD|236558 PRK09545, znuA, high-affinity zinc transporter periplasmic
component; Reviewed.
Length = 311
Score = 28.4 bits (64), Expect = 9.6
Identities = 7/19 (36%), Positives = 9/19 (47%), Gaps = 1/19 (5%)
Query: 182 DSHGHSHHSHEHS-HDHGK 199
D H H+ H H HG+
Sbjct: 124 DDHDHAGHEKSDEDHHHGE 142
>gnl|CDD|237869 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 472
Score = 28.6 bits (64), Expect = 9.6
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 135 GPPGTGKTLLARAVASQLD 153
GP GTGKT +AR +A L+
Sbjct: 43 GPRGTGKTTVARILAKSLN 61
>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein.
This family represents Cwf15/Cwc15 (from
Schizosaccharomyces pombe and Saccharomyces cerevisiae
respectively) and their homologues. The function of
these proteins is unknown, but they form part of the
spliceosome and are thus thought to be involved in mRNA
splicing.
Length = 241
Score = 28.2 bits (63), Expect = 9.7
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 350 SSGEDSDLSDDEDDSDDVD 368
S DSD SDD+ D DD +
Sbjct: 123 DSSSDSDSSDDDSDDDDSE 141
>gnl|CDD|217138 pfam02606, LpxK, Tetraacyldisaccharide-1-P 4'-kinase. This family
consists of tetraacyldisaccharide-1-P 4'-kinase also
known as Lipid-A 4'-kinase or Lipid A biosynthesis
protein LpxK, EC:2.7.1.130. This enzyme catalyzes the
reaction: ATP + 2,3-bis(3-hydroxytetradecanoyl)-D
-glucosaminyl-(beta-D-1,6)-2,
3-bis(3-hydroxytetradecanoyl)-D-glu cosam inyl
beta-phosphate <=> ADP +
2,3,2',3'-tetrakis(3-hydroxytetradecanoyl)-D-
glucosaminyl-1,6-beta-D-glucosamine 1,4'-bisphosphate.
This enzyme is involved in the synthesis of lipid A
portion of the bacterial lipopolysaccharide layer (LPS).
The family contains a P-loop motif at the N terminus.
Length = 318
Score = 28.3 bits (64), Expect = 9.7
Identities = 14/27 (51%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 138 GTGKTLLARAVASQLDANFLK--VVSR 162
GTGKT L A+A L A L+ V+SR
Sbjct: 47 GTGKTPLVIALAELLRARGLRPGVLSR 73
>gnl|CDD|218003 pfam04281, Tom22, Mitochondrial import receptor subunit Tom22. The
mitochondrial protein translocase family, which is
responsible for movement of nuclear encoded pre-proteins
into mitochondria, is very complex with at least 19
components. These proteins include several chaperone
proteins, four proteins of the outer membrane
translocase (Tom) import receptor, five proteins of the
Tom channel complex, five proteins of the inner membrane
translocase (Tim) and three "motor" proteins. This
family represents the Tom22 proteins. The N terminal
region of Tom22 has been shown to have chaperone-like
activity, and the C terminal region faces the
intermembrane face.
Length = 136
Score = 27.6 bits (62), Expect = 9.9
Identities = 12/33 (36%), Positives = 13/33 (39%), Gaps = 4/33 (12%)
Query: 341 KPIEKKKHTSSGEDSDLSDDE----DDSDDVDY 369
KP K D D DD D SDD D+
Sbjct: 15 KPAAPKNLAQEESDDDDEDDTDTDSDISDDSDF 47
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
0.320 0.138 0.408
Gapped
Lambda K H
0.267 0.0534 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 27,010,782
Number of extensions: 2727377
Number of successful extensions: 4658
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4552
Number of HSP's successfully gapped: 297
Length of query: 515
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 414
Effective length of database: 6,457,848
Effective search space: 2673549072
Effective search space used: 2673549072
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: 61 (27.7 bits)