RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5440
(1036 letters)
>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 = 707 bits (1827), Expect = 0.0
Identities = 272/492 (55%), Positives = 347/492 (70%), Gaps = 18/492 (3%)
Query: 507 LSGILPTLLIIG-------RRGGGLFGGVM---ESTAKLINSSDIGVRFKDVAGCEEAKV 556
L +LP +L++ R+ G G +S AKL+N V FKDVAG +EAK
Sbjct: 6 LFSLLPPILLLVGVWFFFRRQMQGGGGRAFSFGKSKAKLLNEEKPKVTFKDVAGIDEAKE 65
Query: 557 EIMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFL 616
E+ME V+FLKNP ++ LGAKIPKG +L GPPGTGKTLLAKA AGEA VPF ++SGS+F+
Sbjct: 66 ELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFV 125
Query: 617 EMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGHSEQENTLNQLLVEM 676
EMFVGVG SRVRD+F A+K+APCI+FIDEIDAVGR+RG GG+ E+E TLNQLLVEM
Sbjct: 126 EMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEM 185
Query: 677 DGFNTTTNVVVLAATNRVDVLDKALLRPGRFDRQIFVPAPDIKGRASIFKVHLKPLKTDL 736
DGF T T V+V+AATNR DVLD ALLRPGRFDRQ+ V PDIKGR I KVH K K L
Sbjct: 186 DGFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKK--L 243
Query: 737 DRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKHFEQAIERVVAGMEKKT 796
D + +A TPGF+GAD+AN+ NEAAL+AAR T I M E+AI+RV+AG EKK+
Sbjct: 244 APDVDLKAVARRTPGFSGADLANLLNEAALLAARKNKTEITMNDIEEAIDRVIAGPEKKS 303
Query: 797 NVLQPEEKKTVAYHEAGHAVAGWFLRYADPLLKVSIIPRGKGLGYAQYLPRE-QYLYSKE 855
V+ +EKK VAYHEAGHA+ G L+ ADP+ KV+IIPRG+ LGY Q+LP E +YLY+K
Sbjct: 304 RVISEKEKKLVAYHEAGHALVGLLLKDADPVHKVTIIPRGQALGYTQFLPEEDKYLYTKS 363
Query: 856 QLLDRMCMTLGGRVSEEIFFGRITTGAEDDLKKVTQSAYAQVAHFGMNEKVGNVSF---- 911
QLL ++ + LGGR +EEI FG +TTGA +D+K+ T A A V +GM++K+G V++
Sbjct: 364 QLLAQIAVLLGGRAAEEIIFGEVTTGASNDIKQATNIARAMVTEWGMSDKLGPVAYGSDG 423
Query: 912 -DMPQPGEMVLEKPYSESTAQLIDNEVRSLISNAYTRTKALLIEHKASVEKVAERLLKKE 970
D+ K YSE TA+ ID EV+ +I AY R K +L E++ +E +A+ LL+KE
Sbjct: 424 GDVFLGRGFAKAKEYSEETAREIDEEVKRIIEEAYKRAKQILTENRDELELLAKALLEKE 483
Query: 971 ILDRNDMIELLG 982
+ R ++ ELL
Sbjct: 484 TITREEIKELLA 495
Score = 93.1 bits (232), Expect = 2e-19
Identities = 40/89 (44%), Positives = 53/89 (59%), Gaps = 1/89 (1%)
Query: 93 LSGILPTLLIIGRSAEMMGGRPGRRGGGLFGGVMESTAKLINSSDIGVRFKDVAGCEEAK 152
L +LP +L++ + GG F +S AKL+N V FKDVAG +EAK
Sbjct: 6 LFSLLPPILLLVGVWFFFRRQMQGGGGRAFS-FGKSKAKLLNEEKPKVTFKDVAGIDEAK 64
Query: 153 VEIMEFVNFLKNPQQYIDLGAKIPKGAML 181
E+ME V+FLKNP ++ LGAKIPKG +L
Sbjct: 65 EELMEIVDFLKNPSKFTKLGAKIPKGVLL 93
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 622 bits (1607), Expect = 0.0
Identities = 296/611 (48%), Positives = 383/611 (62%), Gaps = 35/611 (5%)
Query: 399 FMYGLIGSVAVLAAAVMYEMNYKEITWKDFINNVLTKGIVEKLEVVNK-KWVRVKLLPGN 457
++ LI V + + + K++T+ FI V V + + K V +KL G+
Sbjct: 1 ILWLLIAIVLIFLFNLFTNSSSKQVTYSQFIQLVSGGK-VSSVSIKGDSKTVNLKLKDGS 59
Query: 458 SMDGANFLWFNIGSVDSFERNLELAQAQMHIDPANYLPVIYKTEIE---LSSLSGILPTL 514
N ++ G D +D N + E S LS LP +
Sbjct: 60 K----NTVYLPKGVNDP--------NLVSFLDSNNITESGFIPEDNSLLASLLSTWLPFI 107
Query: 515 LIIG--------RRGGGLFGGVM---ESTAKLINSSDIGVRFKDVAGCEEAKVEIMEFVN 563
L+IG + GG GG +S AKL + V F DVAG +EAK E+ E V+
Sbjct: 108 LLIGLGWFFFRRQAQGGGGGGAFSFGKSKAKLYLEDQVKVTFADVAGVDEAKEELSELVD 167
Query: 564 FLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVG 623
FLKNP++Y LGAKIPKG +L GPPGTGKTLLAKA AGEA VPF ++SGS+F+EMFVGVG
Sbjct: 168 FLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVG 227
Query: 624 PSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGHSEQENTLNQLLVEMDGFNTTT 683
SRVRD+F A+K+APCI+FIDEIDAVGR+RG GG+ E+E TLNQLLVEMDGF
Sbjct: 228 ASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNE 287
Query: 684 NVVVLAATNRVDVLDKALLRPGRFDRQIFVPAPDIKGRASIFKVHLKPLKTDLDRDDLSR 743
V+V+AATNR DVLD ALLRPGRFDRQI V PDIKGR I KVH K D D +
Sbjct: 288 GVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDL--K 345
Query: 744 KLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKHFEQAIERVVAGMEKKTNVLQPEE 803
K+A TPGF+GAD+AN+ NEAAL+AAR I M+ E+AI+RV+AG E+K+ V+ E
Sbjct: 346 KIARGTPGFSGADLANLLNEAALLAARRNKKEITMRDIEEAIDRVIAGPERKSRVISEAE 405
Query: 804 KKTVAYHEAGHAVAGWFLRYADPLLKVSIIPRGKGLGYAQYLP-REQYLYSKEQLLDRMC 862
KK AYHEAGHA+ G L ADP+ KV+IIPRG+ LGY +LP ++YL SKE+LLDR+
Sbjct: 406 KKITAYHEAGHALVGLLLPDADPVHKVTIIPRGRALGYTLFLPEEDKYLMSKEELLDRID 465
Query: 863 MTLGGRVSEEIFFGR-ITTGAEDDLKKVTQSAYAQVAHFGMNEKVGNVSFDMPQ---PGE 918
+ LGGR +EE+ FG ITTGA +DL+K T A A V +GM+ K+G V+++ + G
Sbjct: 466 VLLGGRAAEELIFGYEITTGASNDLEKATDLARAMVTEYGMSAKLGPVAYEQVEGVFLGR 525
Query: 919 MVLEKPYSESTAQLIDNEVRSLISNAYTRTKALLIEHKASVEKVAERLLKKEILDRNDMI 978
K YSE TAQ ID EV+ +I AY R K LL E+K ++E +AE LL+KE +D ++
Sbjct: 526 YQKAKNYSEETAQEIDREVKDIIDEAYERAKELLNENKDALETLAEMLLEKETIDAEEIK 585
Query: 979 ELLGTRPFPEK 989
++L R P +
Sbjct: 586 DILAGRKLPSE 596
Score = 98.9 bits (247), Expect = 3e-21
Identities = 59/182 (32%), Positives = 82/182 (45%), Gaps = 17/182 (9%)
Query: 4 MNYKEITWKDFINNVLTKGIVEKLEVVNK-KWVRVKLLPGNSMDGANFLWFNIGSVDSFE 62
+ K++T+ FI V V + + K V +KL G+ N ++ G D
Sbjct: 20 SSSKQVTYSQFIQLVSGGK-VSSVSIKGDSKTVNLKLKDGSK----NTVYLPKGVNDP-- 72
Query: 63 RNLELAQAQMHIDPANYLPVIYKTEIE---LSSLSGILPTLLIIGRSAEMMGGRPGRRGG 119
+D N + E S LS LP +L+IG + GG
Sbjct: 73 ------NLVSFLDSNNITESGFIPEDNSLLASLLSTWLPFILLIGLGWFFFRRQAQGGGG 126
Query: 120 GLFGGVMESTAKLINSSDIGVRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGA 179
G +S AKL + V F DVAG +EAK E+ E V+FLKNP++Y LGAKIPKG
Sbjct: 127 GGAFSFGKSKAKLYLEDQVKVTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGV 186
Query: 180 ML 181
+L
Sbjct: 187 LL 188
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 507 bits (1307), Expect = e-168
Identities = 236/507 (46%), Positives = 324/507 (63%), Gaps = 28/507 (5%)
Query: 510 ILPTLLIIG-----RRG-------GGLFGGVMESTAKLINSSDIGVRFKDVAGCEEAKVE 557
+LP +LI +R G +S A+ +D G+ F+D+AG EEAK E
Sbjct: 135 LLPLILIGVLWFFFQRSSNFKGGPGQNLMNFGKSKARFQMEADTGITFRDIAGIEEAKEE 194
Query: 558 IMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLE 617
E V+FLK P+++ +GAKIPKG +L GPPGTGKTLLAKA AGEA VPF ++SGSEF+E
Sbjct: 195 FEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVE 254
Query: 618 MFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGHSEQENTLNQLLVEMD 677
MFVGVG +RVRD+F A++++PCI+FIDEIDAVGR+RG GG+ E+E TLNQLL EMD
Sbjct: 255 MFVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMD 314
Query: 678 GFNTTTNVVVLAATNRVDVLDKALLRPGRFDRQIFVPAPDIKGRASIFKVHLKPLKTDLD 737
GF V+V+AATNRVD+LD ALLRPGRFDRQI V PD +GR I KVH + K
Sbjct: 315 GFKGNKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLS-- 372
Query: 738 RDDLSRK-LAALTPGFTGADIANVCNEAALIAARDLHTTIVMKHFEQAIERVVAGMEKKT 796
D+S + +A TPGF+GAD+AN+ NEAA++ AR TI MK + AI+RV+AG+E T
Sbjct: 373 -PDVSLELIARRTPGFSGADLANLLNEAAILTARRKKATITMKEIDTAIDRVIAGLE-GT 430
Query: 797 NVLQPEEKKTVAYHEAGHAVAGWFLRYADPLLKVSIIPRGKGLGYAQYLP-REQYLYSKE 855
+ + K+ +AYHE GHA+ G L DP+ KV++IPRG+ G + P +Q L S+
Sbjct: 431 PLEDSKNKRLIAYHEVGHAIVGTLLPNHDPVQKVTLIPRGQAKGLTWFTPEEDQSLVSRS 490
Query: 856 QLLDRMCMTLGGRVSEEIFFG--RITTGAEDDLKKVTQSAYAQVAHFGMNEKVGNVSFDM 913
Q+L R+ LGGR +EE+ FG +TTGA +DL++VT A V FGM+ +G +S +
Sbjct: 491 QILARIVGALGGRAAEEVVFGSTEVTTGASNDLQQVTNLARQMVTRFGMS-SIGPISLES 549
Query: 914 PQPGE------MVLEKPYSESTAQLIDNEVRSLISNAYTRTKALLIEHKASVEKVAERLL 967
+ M YSE A ID EVRS++ Y +L +++ ++ + E LL
Sbjct: 550 NNSTDPFLGRFMQRNSEYSEEIADKIDMEVRSILHTCYQYAYQILKDNRVLIDLLVELLL 609
Query: 968 KKEILDRNDMIELLGTR-PFPEKSTYE 993
+KE +D ++ E++ + P K T++
Sbjct: 610 QKETIDGDEFREIVNSYTILPPKKTWK 636
Score = 68.9 bits (169), Expect = 7e-12
Identities = 36/92 (39%), Positives = 51/92 (55%), Gaps = 11/92 (11%)
Query: 96 ILPTLLIIG------RSAEMMGGRPGRRGGGLFGGVMESTAKLINSSDIGVRFKDVAGCE 149
+LP +LI RS+ GG G +S A+ +D G+ F+D+AG E
Sbjct: 135 LLPLILIGVLWFFFQRSSNFKGG-----PGQNLMNFGKSKARFQMEADTGITFRDIAGIE 189
Query: 150 EAKVEIMEFVNFLKNPQQYIDLGAKIPKGAML 181
EAK E E V+FLK P+++ +GAKIPKG +L
Sbjct: 190 EAKEEFEEVVSFLKKPERFTAVGAKIPKGVLL 221
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 444 bits (1142), Expect = e-143
Identities = 234/495 (47%), Positives = 323/495 (65%), Gaps = 26/495 (5%)
Query: 511 LPTLLIIG--------RRGGGLFGGVM--ESTAKLINSSDIGVRFKDVAGCEEAKVEIME 560
P LL+IG +GGG G + +S A+++ I F DVAGC+EAK E+ E
Sbjct: 107 FPMLLLIGVWIFFMRQMQGGGGKGAMSFGKSKARMLTEDQIKTTFADVAGCDEAKEEVAE 166
Query: 561 FVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFV 620
V +L+ P ++ LG KIPKG ++ GPPGTGKTLLAKA AGEA VPF T+SGS+F+EMFV
Sbjct: 167 LVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFV 226
Query: 621 GVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGHSEQENTLNQLLVEMDGFN 680
GVG SRVRDMF A+K APCI+FIDEIDAVGR+RG GGH E+E TLNQ+LVEMDGF
Sbjct: 227 GVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFE 286
Query: 681 TTTNVVVLAATNRVDVLDKALLRPGRFDRQIFVPAPDIKGRASIFKVHLK--PLKTDLDR 738
++V+AATNR DVLD ALLRPGRFDRQ+ V PD++GR I KVH++ PL D+D
Sbjct: 287 GNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDA 346
Query: 739 DDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKHFEQAIERVVAGMEKKTNV 798
++R TPGF+GAD+AN+ NEAAL AAR + M FE+A ++++ G E+++ V
Sbjct: 347 AIIARG----TPGFSGADLANLVNEAALFAARGNKRVVSMVEFEKAKDKIMMGAERRSMV 402
Query: 799 LQPEEKKTVAYHEAGHAVAGWFLRYADPLLKVSIIPRGKGLGYAQYLPREQYLYSKEQLL 858
+ +K++ AYHEAGHA+ G + DP+ KV+IIPRG+ LG +LP + + Q L
Sbjct: 403 MTEAQKESTAYHEAGHAIIGRLVPEHDPVHKVTIIPRGRALGVTFFLPEGDAISASRQKL 462
Query: 859 DRMCMTL-GGRVSEEIFFG--RITTGAEDDLKKVTQSAYAQVAHFGMNEKVGNVSFDMPQ 915
+ TL GGR++EEI +G ++TGA +D+K T A V +G +EK+G + + +
Sbjct: 463 ESQISTLYGGRLAEEIIYGPEHVSTGASNDIKVATNLARNMVTQWGFSEKLGPLLY-AEE 521
Query: 916 PGEMVL------EKPYSESTAQLIDNEVRSLISNAYTRTKALLIEHKASVEKVAERLLKK 969
GE+ L K S+ TA++ID EV++LI Y R + LL ++ + + + L+K
Sbjct: 522 EGEVFLGRSVAKAKHMSDETARIIDQEVKALIERNYNRARQLLTDNMDILHAMKDALMKY 581
Query: 970 EILDRNDMIELLGTR 984
E +D + +L+ R
Sbjct: 582 ETIDAPQIDDLMARR 596
Score = 63.9 bits (155), Expect = 3e-10
Identities = 36/89 (40%), Positives = 51/89 (57%), Gaps = 9/89 (10%)
Query: 97 LPTLLIIGR----SAEMMGGRPGRRGGGLFGGVMESTAKLINSSDIGVRFKDVAGCEEAK 152
P LL+IG +M GG G +G FG +S A+++ I F DVAGC+EAK
Sbjct: 107 FPMLLLIGVWIFFMRQMQGG--GGKGAMSFG---KSKARMLTEDQIKTTFADVAGCDEAK 161
Query: 153 VEIMEFVNFLKNPQQYIDLGAKIPKGAML 181
E+ E V +L+ P ++ LG KIPKG ++
Sbjct: 162 EEVAELVEYLREPSRFQKLGGKIPKGVLM 190
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 306 bits (785), Expect = 1e-94
Identities = 122/255 (47%), Positives = 166/255 (65%), Gaps = 5/255 (1%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V ++D+ G +E EI E V LKNP+ + +LG PKG +L GPPGTGKTLLAKA A
Sbjct: 148 VTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVAN 207
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
+ + FI V GSE ++ ++G G VR++F +AR+ AP I+FIDEIDA+G KR G
Sbjct: 208 QTDATFIRVVGSELVQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSG 267
Query: 662 HSEQENTLNQLLVEMDGFNTTTNVVVLAATNRVDVLDKALLRPGRFDRQIFVPAPDIKGR 721
E + T+ +LL ++DGF+ NV V+ ATNR D+LD ALLRPGRFDR+I P PD +GR
Sbjct: 268 DREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGR 327
Query: 722 ASIFKVHLKPLKTDLDRD-DLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKH 780
A I K+H + K +L D DL LA LT GF+GAD+ +C EA + A R+ + M+
Sbjct: 328 AEILKIHTR--KMNLADDVDL-ELLARLTEGFSGADLKAICTEAGMFAIRERRDEVTMED 384
Query: 781 FEQAIERVVAGMEKK 795
F +A+E+VV +K
Sbjct: 385 FLKAVEKVVKKKKKL 399
Score = 38.4 bits (90), Expect = 0.019
Identities = 18/43 (41%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 140 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAML 181
V ++D+ G +E EI E V LKNP+ + +LG PKG +L
Sbjct: 148 VTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLL 190
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 302 bits (775), Expect = 2e-93
Identities = 128/269 (47%), Positives = 170/269 (63%), Gaps = 9/269 (3%)
Query: 528 VMESTAKLINSSDIGVRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTG 586
ME +I S + V ++D+ G EE E+ E V LK P+ + ++G + PKG +L G
Sbjct: 119 AME----VIESPN--VTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYG 172
Query: 587 PPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDE 646
PPGTGKTLLAKA A E N FI V GSE ++ F+G G VR++F +AR+ AP I+FIDE
Sbjct: 173 PPGTGKTLLAKAVAHETNATFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDE 232
Query: 647 IDAVGRKRGGRNFGGHSEQENTLNQLLVEMDGFNTTTNVVVLAATNRVDVLDKALLRPGR 706
IDA+ KR G E + TL QLL EMDGF+ NV ++AATNR+D+LD A+LRPGR
Sbjct: 233 IDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGR 292
Query: 707 FDRQIFVPAPDIKGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAAL 766
FDR I VP PD +GR I K+H + + D D +LA LT G +GAD+ +C EA +
Sbjct: 293 FDRIIEVPLPDEEGRLEILKIHTRKMNLADDVD--LEELAELTEGASGADLKAICTEAGM 350
Query: 767 IAARDLHTTIVMKHFEQAIERVVAGMEKK 795
A RD T + M+ F +AIE+V+ EK
Sbjct: 351 FAIRDDRTEVTMEDFLKAIEKVMGKEEKD 379
Score = 32.9 bits (76), Expect = 0.98
Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 7/58 (12%)
Query: 125 VMESTAKLINSSDIGVRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAML 181
ME +I S + V ++D+ G EE E+ E V LK P+ + ++G + PKG +L
Sbjct: 119 AME----VIESPN--VTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLL 170
>gnl|CDD|216502 pfam01434, Peptidase_M41, Peptidase family M41.
Length = 212
Score = 289 bits (742), Expect = 4e-91
Identities = 103/211 (48%), Positives = 139/211 (65%), Gaps = 8/211 (3%)
Query: 778 MKHFEQAIERVVAGMEKKTNVLQPEEKKTVAYHEAGHAVAGWFLRYADPLLKVSIIPRGK 837
M E+AI+RV+AG EKK+ V+ EEK+ VAYHEAGHA+ G L ADP+ KV+IIPRG+
Sbjct: 2 MAELEEAIDRVIAGPEKKSRVISEEEKRLVAYHEAGHALVGLLLPGADPVHKVTIIPRGQ 61
Query: 838 GLGYAQYLPRE-QYLYSKEQLLDRMCMTLGGRVSEEIFFG--RITTGAEDDLKKVTQSAY 894
LGY Q+LP E + LY+K QLL R+ + LGGR +EE+ FG +TTGA +DL++ T+ A
Sbjct: 62 ALGYTQFLPEEDKLLYTKSQLLARIDVALGGRAAEELIFGDDEVTTGASNDLEQATKIAR 121
Query: 895 AQVAHFGMNEKVGNVSFDMPQ-----PGEMVLEKPYSESTAQLIDNEVRSLISNAYTRTK 949
V FGM++K+G VS + M K YSE TA +ID EVR L+ AY R K
Sbjct: 122 QMVTEFGMSDKLGPVSLEDSDGEVFLGRGMGKRKEYSEETADIIDEEVRRLLEEAYERAK 181
Query: 950 ALLIEHKASVEKVAERLLKKEILDRNDMIEL 980
+L E++ ++ +AE LL+KE LD + EL
Sbjct: 182 EILTENRDELDALAEALLEKETLDAEEFREL 212
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 255 bits (652), Expect = 3e-76
Identities = 118/247 (47%), Positives = 158/247 (63%), Gaps = 3/247 (1%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V ++D+ G EE EI E V LK+P+ + ++G + PKG +L GPPGTGKTLLAKA A
Sbjct: 119 VSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAH 178
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
E N FI V GSE + ++G G VR++F +A++ AP I+FIDEIDA+ KR G
Sbjct: 179 ETNATFIRVVGSELVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSG 238
Query: 662 HSEQENTLNQLLVEMDGFNTTTNVVVLAATNRVDVLDKALLRPGRFDRQIFVPAPDIKGR 721
E + TL QLL E+DGF+ NV V+AATNR D+LD ALLRPGRFDR I VP PD +GR
Sbjct: 239 DREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGR 298
Query: 722 ASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTTIVMKHF 781
I K+H + +K D D +A +T G +GAD+ +C EA + A R+ + M F
Sbjct: 299 LEILKIHTRKMKLAEDVD--LEAIAKMTEGASGADLKAICTEAGMFAIREERDYVTMDDF 356
Query: 782 EQAIERV 788
+A+E+V
Sbjct: 357 IKAVEKV 363
Score = 34.4 bits (79), Expect = 0.28
Identities = 17/43 (39%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 140 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAML 181
V ++D+ G EE EI E V LK+P+ + ++G + PKG +L
Sbjct: 119 VSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLL 161
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 255 bits (653), Expect = 7e-75
Identities = 115/248 (46%), Positives = 151/248 (60%), Gaps = 5/248 (2%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V D+ G EEAK E+ E + LK P+ + LG + PKG +L GPPGTGKTLLAKA A
Sbjct: 239 VTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVAL 298
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
E+ FI+V GSE L +VG +R++F ARK AP I+FIDEID++ RG G
Sbjct: 299 ESRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDGS 358
Query: 662 HSEQENTLNQLLVEMDGFNTTTNVVVLAATNRVDVLDKALLRPGRFDRQIFVPAPDIKGR 721
+ QLL E+DG V+V+AATNR D LD ALLRPGRFDR I+VP PD++ R
Sbjct: 359 G---RRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEER 415
Query: 722 ASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIA-ARDLHTTIVMKH 780
IFK+HL+ K L D +LA +T G++GADIA + EAAL A + +
Sbjct: 416 LEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAALEALREARRREVTLDD 475
Query: 781 FEQAIERV 788
F A++++
Sbjct: 476 FLDALKKI 483
Score = 139 bits (351), Expect = 1e-34
Identities = 105/290 (36%), Positives = 144/290 (49%), Gaps = 24/290 (8%)
Query: 565 LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGP 624
LK P+ + LG + PKG +L GPPGTGKTLLA+A A E F++++G E L +VG
Sbjct: 4 LKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALANE-GAEFLSINGPEILSKYVGESE 62
Query: 625 SRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGHSEQENTLNQLLVEMDGFNTTTN 684
R+R++F A K AP I+FIDEIDA+ KR + QLL MDG
Sbjct: 63 LRLRELFEEAEKLAPSIIFIDEIDALAPKRSSDQGEVE---RRVVAQLLALMDGLKRG-Q 118
Query: 685 VVVLAATNRVDVLDKALLRPGRFDRQIFVPAPDIKGRASIFKVHLKPLKTDLDRDDLSRK 744
V+V+ ATNR D LD A RPGRFDR+I V PD GR I ++H + + L +
Sbjct: 119 VIVIGATNRPDGLDPAKRRPGRFDREIEVNLPDEAGRLEILQIHTRLMF--LGPPGTGKT 176
Query: 745 LAALTPGFTGADIANVCNEAALIAARD------LHTTIVMKHFEQAIERVVAGMEKKTNV 798
LAA T G +GAD+ + EAAL R + + FE+A+++V V
Sbjct: 177 LAARTVGKSGADLGALAKEAALRELRRAIDLVGEYIGVTEDDFEEALKKV----LPSRGV 232
Query: 799 LQPEEKKTVA-------YHEAGHAVAGWFLRYADPLLKVSIIPRGKGLGY 841
L +E T+ E L+ + K+ + P L Y
Sbjct: 233 LFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLY 282
Score = 32.5 bits (74), Expect = 1.4
Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 140 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAML 181
V D+ G EEAK E+ E + LK P+ + LG + PKG +L
Sbjct: 239 VTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLL 281
>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 = 238 bits (608), Expect = 2e-66
Identities = 124/273 (45%), Positives = 164/273 (60%), Gaps = 27/273 (9%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
VR+ D+ G EE K E+ E V + LK+P+ + +G + PKG +L GPPGTGKTLLAKA A
Sbjct: 450 VRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVAT 509
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
E+ FI V G E L +VG +R++F AR+ AP I+F DEIDA+ RG R
Sbjct: 510 ESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARF--D 567
Query: 662 HSEQENTLNQLLVEMDGFNTTTNVVVLAATNRVDVLDKALLRPGRFDRQIFVPAPDIKGR 721
S + +NQLL EMDG +NVVV+AATNR D+LD ALLRPGRFDR I VP PD + R
Sbjct: 568 TSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEAR 627
Query: 722 ASIFKVHLK--PLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHTT---- 775
IFK+H + PL D+D +LA +T G+TGADI VC EAA+ A R+ +
Sbjct: 628 KEIFKIHTRSMPLAEDVDL----EELAEMTEGYTGADIEAVCREAAMAALRESIGSPAKE 683
Query: 776 --------------IVMKHFEQAIERVVAGMEK 794
+ M+HF +A+++V + K
Sbjct: 684 KLEVGEEEFLKDLKVEMRHFLEALKKVKPSVSK 716
Score = 198 bits (504), Expect = 6e-53
Identities = 108/233 (46%), Positives = 144/233 (61%), Gaps = 10/233 (4%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAG 601
V ++D+ G +EAK +I E V +K+P+ + LG + PKG +L GPPGTGKTLLAKA A
Sbjct: 175 VTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVAN 234
Query: 602 EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGG 661
EA FI+++G E + + G R+R++F A ++AP I+FIDEIDA+ KR G
Sbjct: 235 EAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKR--EEVTG 292
Query: 662 HSEQENTLNQLLVEMDGFNTTTNVVVLAATNRVDVLDKALLRPGRFDRQIFVPAPDIKGR 721
E+ + QLL MDG V+V+ ATNR D LD AL RPGRFDR+I + PD + R
Sbjct: 293 EVEKR-VVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRAR 351
Query: 722 ASIFKVHLK--PLKTDLDRDDLSRKLAALTPGFTGADIANVCNEAALIAARDL 772
I KVH + PL D+D D KLA +T GF GAD+A + EAA+ A R
Sbjct: 352 KEILKVHTRNMPLAEDVDLD----KLAEVTHGFVGADLAALAKEAAMAALRRF 400
Score = 35.3 bits (81), Expect = 0.21
Identities = 18/43 (41%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 140 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAML 181
VR+ D+ G EE K E+ E V + LK+P+ + +G + PKG +L
Sbjct: 450 VRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLL 492
Score = 32.2 bits (73), Expect = 1.8
Identities = 17/43 (39%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 140 VRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAML 181
V ++D+ G +EAK +I E V +K+P+ + LG + PKG +L
Sbjct: 175 VTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLL 217
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 217 bits (555), Expect = 2e-62
Identities = 111/264 (42%), Positives = 155/264 (58%), Gaps = 8/264 (3%)
Query: 530 ESTAKLINSSDI-GVRFKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGP 587
+S+ +L+ S+ V + D+ G + K EI E V L P+ Y +G P+G +L GP
Sbjct: 128 DSSIQLLQMSEKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGP 187
Query: 588 PGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEI 647
PGTGKT+LAKA A FI V GSEF++ ++G GP VRD+F +AR++AP I+FIDE+
Sbjct: 188 PGTGKTMLAKAVAHHTTATFIRVVGSEFVQKYLGEGPRMVRDVFRLARENAPSIIFIDEV 247
Query: 648 DAVGRKRGGRNFGGHSEQENTLNQLLVEMDGFNTTTNVVVLAATNRVDVLDKALLRPGRF 707
D++ KR G E + L +LL +MDGF+ TTNV V+ ATNR D LD ALLRPGR
Sbjct: 248 DSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRL 307
Query: 708 DRQIFVPAPDIKGRASIFKVHLKP--LKTDLDRDDLSRKLAALTPGFTGADIANVCNEAA 765
DR+I P PD + + IF+ L ++D +D + + ADIA +C EA
Sbjct: 308 DRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLED----FVSRPEKISAADIAAICQEAG 363
Query: 766 LIAARDLHTTIVMKHFEQAIERVV 789
+ A R I+ K FE+ + VV
Sbjct: 364 MQAVRKNRYVILPKDFEKGYKTVV 387
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 216 bits (553), Expect = 9e-62
Identities = 113/264 (42%), Positives = 160/264 (60%), Gaps = 23/264 (8%)
Query: 545 FKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGEA 603
+ D+ G E+ EI E V L +P+ Y D+G K PKG +L GPPGTGKTLLAKA A E
Sbjct: 182 YADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET 241
Query: 604 NVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGHS 663
+ F+ V GSE ++ ++G GP VR++F +A ++AP I+FIDEIDA+G KR GG
Sbjct: 242 SATFLRVVGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEK 301
Query: 664 EQENTLNQLLVEMDGFNTTTNVVVLAATNRVDVLDKALLRPGRFDRQIFVPAPDIKGRAS 723
E + T+ +LL ++DGF++ +V V+ ATNR++ LD AL+RPGR DR+I P PD K +
Sbjct: 302 EIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRR 361
Query: 724 IFKVHLK--PLKTDLD-------RDDLSRKLAALTPGFTGADIANVCNEAALIAARDLHT 774
IF++H L D+D +D+LS GADI +C EA L+A R+
Sbjct: 362 IFEIHTSKMTLAEDVDLEEFIMAKDELS-----------GADIKAICTEAGLLALRERRM 410
Query: 775 TIVMKHFEQAIERVVAGMEKKTNV 798
+ F +A E+V+ KK N+
Sbjct: 411 KVTQADFRKAKEKVL--YRKKGNI 432
Score = 32.8 bits (75), Expect = 0.95
Identities = 17/41 (41%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 142 FKDVAGCEEAKVEIMEFVNF-LKNPQQYIDLGAKIPKGAML 181
+ D+ G E+ EI E V L +P+ Y D+G K PKG +L
Sbjct: 182 YADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVIL 222
>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 = 182 bits (463), Expect = 2e-53
Identities = 74/133 (55%), Positives = 92/133 (69%), Gaps = 5/133 (3%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCIL 642
+L GPPGTGKT LAKA A E PFI +SGSE + +VG R+R++F A+K APC++
Sbjct: 2 LLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVI 61
Query: 643 FIDEIDAVGRKRGGRNFGGHSEQENTLNQLLVEMDGF-NTTTNVVVLAATNRVDVLDKAL 701
FIDEIDA+ RG GG SE +NQLL E+DGF ++ + V+V+AATNR D LD AL
Sbjct: 62 FIDEIDALAGSRGS---GGDSESRRVVNQLLTELDGFTSSLSKVIVIAATNRPDKLDPAL 118
Query: 702 LRPGRFDRQIFVP 714
LR GRFDR I P
Sbjct: 119 LR-GRFDRIIEFP 130
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 166 bits (421), Expect = 6e-45
Identities = 97/274 (35%), Positives = 144/274 (52%), Gaps = 24/274 (8%)
Query: 526 GGVMESTAKLINSSDIG--------VRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAK 577
GG++ ST + + + DV G EEAK + + +L+NP+++ D
Sbjct: 93 GGIITSTTIFVLETPREEDREIISDITLDDVIGQEEAKRKCRLIMEYLENPERFGDWA-- 150
Query: 578 IPKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKH 637
PK + GPPGTGKT++AKA A EA VP + V +E + VG G R+ +++ ARK
Sbjct: 151 -PKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVGDGARRIHELYERARKA 209
Query: 638 APCILFIDEIDAVGRKRGGRNFGGH-SEQENTLNQLLVEMDGFNTTTNVVVLAATNRVDV 696
APCI+FIDE+DA+ R + G SE +N LL E+DG VV +AATNR ++
Sbjct: 210 APCIVFIDELDAIALDRRYQELRGDVSE---IVNALLTELDGIKENEGVVTIAATNRPEL 266
Query: 697 LDKALLRPGRFDRQIFVPAPDIKGRASIFKVHLK--PLKTDLDRDDLSRKLAALTPGFTG 754
LD A+ RF+ +I P+ + R I + + K PL D D R LAA T G +G
Sbjct: 267 LDPAI--RSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDAD----LRYLAAKTKGMSG 320
Query: 755 ADIANVCNEAALIAA-RDLHTTIVMKHFEQAIER 787
DI + AL A + + + E+A+++
Sbjct: 321 RDIKEKVLKTALHRAIAEDREKVEREDIEKALKK 354
>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 = 141 bits (358), Expect = 2e-35
Identities = 87/225 (38%), Positives = 122/225 (54%), Gaps = 24/225 (10%)
Query: 543 VRFKDVAGCEEAKVEIMEFVN--FLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATA 600
V + D+ G +I + V FL +P+ Y + G K PKG +L GPPG GKTL+AKA A
Sbjct: 179 VTYADIGGLGSQIEQIRDAVELPFL-HPELYREYGLKPPKGVLLYGPPGCGKTLIAKAVA 237
Query: 601 ------GEANVP----FITVSGSEFLEMFVGVGPSRVRDMFSMARKHA----PCILFIDE 646
A F+ + G E L +VG ++R +F AR+ A P I+F DE
Sbjct: 238 NSLAARIGAEGGGKSYFLNIKGPELLNKYVGETERQIRLIFQRAREKASEGRPVIVFFDE 297
Query: 647 IDAVGRKRGGRNFGGHSEQENTL-NQLLVEMDGFNTTTNVVVLAATNRVDVLDKALLRPG 705
+D++ R RG G S+ E T+ QLL E+DG + NV+V+ A+NR D++D A+LRPG
Sbjct: 298 MDSLFRTRGS---GVSSDVETTVVPQLLAEIDGVESLDNVIVIGASNREDMIDPAILRPG 354
Query: 706 RFDRQIFVPAPDIKGRASIFKVHLK---PLKTDLDRDDLSRKLAA 747
R D +I + PD + A IF +L PL DL D R+ A
Sbjct: 355 RLDVKIRIERPDAEAAADIFAKYLTDDLPLPEDLAAHDGDREATA 399
>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 = 106 bits (267), Expect = 8e-27
Identities = 53/142 (37%), Positives = 68/142 (47%), Gaps = 16/142 (11%)
Query: 579 PKGAMLTGPPGTGKTLLAKATAGEA---NVPFITVSGSEFLEMFVG---VGPSRVRDMFS 632
PK +L GPPGTGKT LA+A A E PF+ ++ S+ LE V G VR +F
Sbjct: 19 PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFE 78
Query: 633 MARKHAPCILFIDEIDAVGRKRGGRNFGGHSEQENTLNQLLVEMDGFNTTTNVVVLAATN 692
+A K P +LFIDEID++ R Q L L D NV V+ ATN
Sbjct: 79 LAEKAKPGVLFIDEIDSLSRG----------AQNALLRVLETLNDLRIDRENVRVIGATN 128
Query: 693 RVDVLDKALLRPGRFDRQIFVP 714
R + D R D +I +P
Sbjct: 129 RPLLGDLDRALYDRLDIRIVIP 150
>gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional.
Length = 489
Score = 115 bits (289), Expect = 1e-26
Identities = 81/275 (29%), Positives = 127/275 (46%), Gaps = 27/275 (9%)
Query: 506 SLSGILPTLLIIGRRGGGLFGGVMESTAKLINSSDI------GVRFKDVAGCEEAKVEIM 559
LS I+ T I L ++E ++I+ ++I + D+ G + K
Sbjct: 185 VLSKIIATYKTIDENSIPL---ILEEKKQIISQTEILEFYSVNEKISDIGGLDNLK---- 237
Query: 560 EFVNFLKN--PQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLE 617
+++ +Q + G P+G +L G GTGK+L AKA A + +P + + +
Sbjct: 238 DWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFG 297
Query: 618 MFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGHSEQEN----TLNQLL 673
VG SR+R M +A +PCIL+IDEID + G S N T L
Sbjct: 298 GIVGESESRMRQMIRIAEALSPCILWIDEID---KAFSNSESKGDSGTTNRVLATFITWL 354
Query: 674 VEMDGFNTTTNVVVLAATNRVDVLDKALLRPGRFDRQIFVPAPDIKGRASIFKVHLKPLK 733
E + V V+A N +D+L +LR GRFD F+ P ++ R IFK+HL+ +
Sbjct: 355 SE-----KKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFR 409
Query: 734 TDLDRDDLSRKLAALTPGFTGADIANVCNEAALIA 768
+ +KL+ L+ F+GA+I EA IA
Sbjct: 410 PKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIA 444
>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 = 87.0 bits (215), Expect = 6e-20
Identities = 46/156 (29%), Positives = 67/156 (42%), Gaps = 26/156 (16%)
Query: 579 PKGAMLTGPPGTGKTLLAKATAGEANVP---FITVSGSEFLE--------------MFVG 621
+ ++ GPPG+GKT LA+A A E P I + G + LE G
Sbjct: 2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASG 61
Query: 622 VGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGHSEQENTLNQLLVEMDGFNT 681
G R+R ++ARK P +L +DEI ++ E L + L + +
Sbjct: 62 SGELRLRLALALARKLKPDVLILDEITSLLDAE--------QEALLLLLEELRLLLLLKS 113
Query: 682 TTNVVVLAATNRVDVLDKALLRPGRFDRQIFVPAPD 717
N+ V+ TN L ALLR RFDR+I +
Sbjct: 114 EKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 57.8 bits (140), Expect = 1e-08
Identities = 40/157 (25%), Positives = 59/157 (37%), Gaps = 35/157 (22%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPS--RVRDMFSMARK---- 636
+L GPPG GKTLLA+A A +PF+ + + L +G + +
Sbjct: 47 LLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVPG 106
Query: 637 ----HAPCILFIDEIDAVGRKRGGRNFGGHSEQENTLNQLLVEMDGFNTTTN-------V 685
IL +DEI+ E +N L + L E
Sbjct: 107 PLFAAVRVILLLDEINRA-----------PPEVQNALLEALEERQVTVPGLTTIRLPPPF 155
Query: 686 VVLAATNRVDV-----LDKALLRPGRFDRQIFVPAPD 717
+V+A N + L +ALL RF +I+V PD
Sbjct: 156 IVIATQNPGEYEGTYPLPEALLD--RFLLRIYVDYPD 190
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 56.2 bits (137), Expect = 5e-08
Identities = 28/68 (41%), Positives = 35/68 (51%), Gaps = 11/68 (16%)
Query: 584 LTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHA----P 639
L GPPGTGKT LA+ AG + PF +S GV +R++ AR+
Sbjct: 41 LWGPPGTGKTTLARIIAGATDAPFEALSAV-----TSGV--KDLREVIEEARQRRSAGRR 93
Query: 640 CILFIDEI 647
ILFIDEI
Sbjct: 94 TILFIDEI 101
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 54.5 bits (132), Expect = 2e-07
Identities = 33/111 (29%), Positives = 52/111 (46%), Gaps = 20/111 (18%)
Query: 544 RFKDVAGCEEAKVEIMEFV-NFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGE 602
DV G E+AK ++ E++ ++LK K K +L GPPG GKT LA A A +
Sbjct: 12 TLSDVVGNEKAKEQLREWIESWLKG---------KPKKALLLYGPPGVGKTSLAHALAND 62
Query: 603 ANVPFITVSGSEF-----LEMFVGVGPSRVRDMFSMARKHAPCILFIDEID 648
I ++ S+ +E G + +F RK ++ +DE+D
Sbjct: 63 YGWEVIELNASDQRTADVIERVAGEA-ATSGSLFGARRK----LILLDEVD 108
>gnl|CDD|219536 pfam07724, AAA_2, AAA domain (Cdc48 subfamily). This Pfam entry
includes some of the AAA proteins not detected by the
pfam00004 model.
Length = 168
Score = 49.9 bits (120), Expect = 7e-07
Identities = 24/79 (30%), Positives = 33/79 (41%), Gaps = 13/79 (16%)
Query: 583 MLTGPPGTGKTLLAKATAGEANV---PFITVSGSEFLE-----MFVGVGPSRVR-----D 629
+ GP G GKT LAKA A I + SE++E +G P V
Sbjct: 7 LFLGPTGVGKTELAKALAELLFGDERALIRIDMSEYMEEHSVSRLIGAPPGYVGYEEGGQ 66
Query: 630 MFSMARKHAPCILFIDEID 648
+ R+ I+ IDEI+
Sbjct: 67 LTEAVRRKPYSIVLIDEIE 85
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 52.2 bits (126), Expect = 9e-07
Identities = 28/68 (41%), Positives = 35/68 (51%), Gaps = 11/68 (16%)
Query: 584 LTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPC--- 640
L GPPGTGKT LA+ AG N F +S V G +R++ ARK+
Sbjct: 53 LWGPPGTGKTTLARLIAGTTNAAFEALSA-------VTSGVKDLREIIEEARKNRLLGRR 105
Query: 641 -ILFIDEI 647
ILF+DEI
Sbjct: 106 TILFLDEI 113
>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily). This Pfam
entry includes some of the AAA proteins not detected by
the pfam00004 model.
Length = 135
Score = 45.0 bits (107), Expect = 2e-05
Identities = 35/150 (23%), Positives = 52/150 (34%), Gaps = 42/150 (28%)
Query: 583 MLTGPPGTGKTLLAKATAGEA--NVPFITVSGSEFLE-------MFVGVGPSRVRD---M 630
+L GPPGTGK+ LA+ A A N P V + + G + D +
Sbjct: 3 LLVGPPGTGKSELAERLA-AALSNRPVFYVQLTRDTTEEDLKGRRNIDPGGASWVDGPLV 61
Query: 631 FSMARKHAPCILFIDEIDAVGRKRGGRNFGGHSEQENTLNQLLVE-----MDGFNTT--- 682
+ I +DEI+ + + N+L LL E +G
Sbjct: 62 RAAREGE---IAVLDEINR-----------ANPDVLNSLLSLLDERRLLLPEGGELVKAA 107
Query: 683 -TNVVVLAATNRVD----VLDKALLRPGRF 707
++A N +D L AL RF
Sbjct: 108 PDGFRLIATMNPLDRGLNELSPALRS--RF 135
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 43.4 bits (103), Expect = 5e-05
Identities = 16/85 (18%), Positives = 31/85 (36%), Gaps = 16/85 (18%)
Query: 582 AMLTGPPGTGKTLLAK---ATAGEANVPFITV----SGSEFLEMF---VGVGPSRVR--D 629
+LTG G+GKT L + V ++ + + L +G+ S +
Sbjct: 7 GVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPKDLLRKILRALGLPLSGGTTAE 66
Query: 630 MFSM----ARKHAPCILFIDEIDAV 650
+ ++ +L IDE +
Sbjct: 67 LLEAILDALKRRGRPLLIIDEAQHL 91
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 46.2 bits (110), Expect = 7e-05
Identities = 22/43 (51%), Positives = 29/43 (67%), Gaps = 4/43 (9%)
Query: 580 KGAMLTGPPGTGKTLLAKATAGE--ANVPFITVSGSEF--LEM 618
+G ++ GPPGTGKT LA A E +VPF+ +SGSE LE+
Sbjct: 66 RGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIYSLEV 108
>gnl|CDD|219052 pfam06480, FtsH_ext, FtsH Extracellular. This domain is found in
the FtsH family of proteins. FtsH is the only
membrane-bound ATP-dependent protease universally
conserved in prokaryotes. It only efficiently degrades
proteins that have a low thermodynamic stability - e.g.
it lacks robust unfoldase activity. This feature may be
key and implies that this could be a criterion for
degrading a protein. In Oenococcus oeni FtsH is involved
in protection against environmental stress, and shows
increased expression under heat or osmotic stress. These
two lines of evidence suggest that it is a fundamental
prokaryotic self-protection mechanism that checks if
proteins are correctly folded (personal obs: Yeats C).
The precise function of this N-terminal region is
unclear.
Length = 103
Score = 41.4 bits (97), Expect = 2e-04
Identities = 21/99 (21%), Positives = 44/99 (44%), Gaps = 7/99 (7%)
Query: 398 YFMYGLIGSVAVLAA---AVMYEMNYKEITWKDFINNVLTKGIVEKLEVVNKKWVRVKLL 454
++ +I V +L + + KEI++ +F+ + L G V K+ + + + + ++
Sbjct: 1 LLLWLIILLVILLLFSLFLLSNSSSTKEISYSEFLED-LEAGKVSKVVIDDDEILPTGVV 59
Query: 455 PGNSMDGANFLWFNIGSV---DSFERNLELAQAQMHIDP 490
G DG F + I ++ DS LE A + +
Sbjct: 60 SGTLKDGTKFTTYFIPTLPSVDSLLEKLEDALVEKGVKV 98
Score = 38.7 bits (90), Expect = 0.001
Identities = 18/77 (23%), Positives = 36/77 (46%), Gaps = 4/77 (5%)
Query: 3 EMNYKEITWKDFINNVLTKGIVEKLEVVNKKWVRVKLLPGNSMDGANFLWFNIGSV---D 59
+ KEI++ +F+ + L G V K+ + + + + ++ G DG F + I ++ D
Sbjct: 23 SSSTKEISYSEFLED-LEAGKVSKVVIDDDEILPTGVVSGTLKDGTKFTTYFIPTLPSVD 81
Query: 60 SFERNLELAQAQMHIDP 76
S LE A + +
Sbjct: 82 SLLEKLEDALVEKGVKV 98
>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 = 44.4 bits (105), Expect = 2e-04
Identities = 35/99 (35%), Positives = 48/99 (48%), Gaps = 9/99 (9%)
Query: 562 VNFLKNPQQYIDLGAKIPKG-AMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM-F 619
+NF KN + D G ++ K +L GP G+GKTLLA+ A NVPF + E +
Sbjct: 100 LNFEKN--KKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGY 157
Query: 620 VGVGPSRVRDMFSMA-----RKHAPCILFIDEIDAVGRK 653
VG + A K I++IDEID + RK
Sbjct: 158 VGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISRK 196
>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 = 43.8 bits (104), Expect = 3e-04
Identities = 21/43 (48%), Positives = 27/43 (62%), Gaps = 4/43 (9%)
Query: 580 KGAMLTGPPGTGKTLLAKATAGE--ANVPFITVSGSEF--LEM 618
+ ++ GPPGTGKT LA A + E + PF +SGSE LEM
Sbjct: 51 RAVLIAGPPGTGKTALAIAISKELGEDTPFCPISGSEVYSLEM 93
>gnl|CDD|213179 cd00267, ABC_ATPase, ATP-binding cassette transporter
nucleotide-binding domain. ABC transporters are a large
family of proteins involved in the transport of a wide
variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide-binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and GTP-binding
and hydrolyzing proteins.
Length = 157
Score = 41.5 bits (98), Expect = 5e-04
Identities = 21/89 (23%), Positives = 37/89 (41%), Gaps = 16/89 (17%)
Query: 577 KIPKGAM--LTGPPGTGKTLLAKATAGEANVP--FITVSGSEFLEMFVGVGPSRV----- 627
+ G + L GP G+GK+ L +A AG I + G + ++ + R+
Sbjct: 21 TLKAGEIVALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGKDIAKLPLEELRRRIGYVPQ 80
Query: 628 -----RDMFSMARK--HAPCILFIDEIDA 649
R ++AR P +L +DE +
Sbjct: 81 LSGGQRQRVALARALLLNPDLLLLDEPTS 109
>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA
replication, recombination, and repair].
Length = 332
Score = 43.3 bits (103), Expect = 5e-04
Identities = 22/75 (29%), Positives = 27/75 (36%), Gaps = 20/75 (26%)
Query: 584 LTGPPGTGKTLLAKATAGEANVPFITVSG------SEFLEMFVGVGPSRVRDMFSMARKH 637
L GPPG GKT LA A E V SG + + + D
Sbjct: 57 LFGPPGLGKTTLAHIIANELGVNLKITSGPALEKPGDLAAILTNLEE---GD-------- 105
Query: 638 APCILFIDEIDAVGR 652
+LFIDEI +
Sbjct: 106 ---VLFIDEIHRLSP 117
>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 = 42.9 bits (101), Expect = 0.001
Identities = 49/187 (26%), Positives = 80/187 (42%), Gaps = 31/187 (16%)
Query: 550 GCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGA---MLTGPPGTGKTLLAKATA------ 600
G E K ++ + + G + + + + GPPGTGKT +A+ A
Sbjct: 280 GLERVKRQVAALKSSTAMALARAERGLPVAQTSNHMLFAGPPGTGKTTIARVVAKIYCGL 339
Query: 601 GEANVPFIT-VSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGR-- 657
G P + VS ++ + ++G ++ ++ A +LF+DE + G+
Sbjct: 340 GVLRKPLVREVSRADLIGQYIGESEAKTNEIIDSALGG---VLFLDEAYTLVETGYGQKD 396
Query: 658 NFGGHSEQENTLNQLLVEMDGFNTTTNVVVLAATNRVDVLDKAL-----LRPGRFDRQIF 712
FG + ++ LL M+ N +VV+ A R D LDK L LR RF R I
Sbjct: 397 PFGLEA-----IDTLLARME--NDRDRLVVIGAGYRKD-LDKFLEVNEGLR-SRFTRVIE 447
Query: 713 VP--APD 717
P +PD
Sbjct: 448 FPSYSPD 454
>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 = 43.1 bits (102), Expect = 0.001
Identities = 46/173 (26%), Positives = 73/173 (42%), Gaps = 27/173 (15%)
Query: 546 KDVAGCEEAKVEIMEF--VNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGEA 603
+D G ++ K I+E+ V L+ + I L GPPG GKT L K+ A
Sbjct: 320 EDHYGLKKVKERILEYLAVQKLRG-----KMKGPI---LCLVGPPGVGKTSLGKSIAKAL 371
Query: 604 NVPF--ITVSG----SEF---LEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKR 654
N F ++ G +E +VG P R+ A+ P L +DEID +G
Sbjct: 372 NRKFVRFSLGGVRDEAEIRGHRRTYVGAMPGRIIQGLKKAKTKNPLFL-LDEIDKIGSSF 430
Query: 655 GGRNFGG-----HSEQENTLNQLLVEMDGFNTTTNVVVLAATNRVDVLDKALL 702
G EQ N + +++ F+ + V+ +A N +D + + LL
Sbjct: 431 RGDPASALLEVLDPEQNNAFSDHYLDVP-FD-LSKVIFIATANSIDTIPRPLL 481
>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 = 41.9 bits (99), Expect = 0.001
Identities = 25/82 (30%), Positives = 35/82 (42%), Gaps = 12/82 (14%)
Query: 575 GAKIPKGA----MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDM 630
AK+ + A +L GPPG GKT LA A E V SG + P + +
Sbjct: 22 AAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEK------PGDLAAI 75
Query: 631 FSMARKHAPCILFIDEIDAVGR 652
+ + +LFIDEI +
Sbjct: 76 LTNLEEGD--VLFIDEIHRLSP 95
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 42.0 bits (100), Expect = 0.001
Identities = 22/70 (31%), Positives = 26/70 (37%), Gaps = 20/70 (28%)
Query: 584 LTGPPGTGKTLLAKATAGEANVPFITVSG------SEFLEMFVGVGPSRVRDMFSMARKH 637
L GPPG GKT LA A E V SG + + + D
Sbjct: 56 LYGPPGLGKTTLANIIANEMGVNIRITSGPALEKPGDLAAILTNLEE---GD-------- 104
Query: 638 APCILFIDEI 647
+LFIDEI
Sbjct: 105 ---VLFIDEI 111
>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 = 42.1 bits (99), Expect = 0.001
Identities = 25/59 (42%), Positives = 34/59 (57%), Gaps = 7/59 (11%)
Query: 578 IPKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM-FVGVGPSRVRDMFSMAR 635
PK ++ GP G GKT +A+ A AN PFI V ++F E+ +VG RD+ SM R
Sbjct: 46 TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVG------RDVESMVR 98
>gnl|CDD|224141 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 444
Score = 41.5 bits (98), Expect = 0.002
Identities = 23/59 (38%), Positives = 33/59 (55%), Gaps = 7/59 (11%)
Query: 578 IPKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM-FVGVGPSRVRDMFSMAR 635
PK ++ GP G GKT +A+ A A PFI V ++F E+ +VG RD+ S+ R
Sbjct: 49 TPKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTEVGYVG------RDVESIIR 101
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 40.5 bits (96), Expect = 0.003
Identities = 28/84 (33%), Positives = 40/84 (47%), Gaps = 20/84 (23%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM-FVGVGPSRVRDMFSMARK--HAP 639
+L GP G+GKTLLA+ A +VPF + E +VG D+ ++ K A
Sbjct: 112 LLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVG------EDVENILLKLLQA- 164
Query: 640 C----------ILFIDEIDAVGRK 653
I++IDEID + RK
Sbjct: 165 ADYDVEKAQRGIVYIDEIDKIARK 188
>gnl|CDD|237665 PRK14295, PRK14295, chaperone protein DnaJ; Provisional.
Length = 389
Score = 40.6 bits (95), Expect = 0.004
Identities = 26/90 (28%), Positives = 39/90 (43%), Gaps = 20/90 (22%)
Query: 324 KFYPDKNK---KSAEKPKEEGKPSDSTQPPLSKPDLSSSRS----------------GSS 364
+++PD NK K+ E+ KE + D + + +RS G
Sbjct: 36 EYHPDANKGDAKAEERFKEISEAYDVLSDEKKRKEYDEARSLFGNGGFRPGPGGGGGGGF 95
Query: 365 PWNMG-VFGGGGGKGGQGSGGKGFGDFSGG 393
+++G +FGGG GG GG G GD GG
Sbjct: 96 NFDLGDLFGGGAQGGGGAGGGGGLGDVFGG 125
>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit
clpA. [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 730
Score = 40.0 bits (94), Expect = 0.007
Identities = 29/81 (35%), Positives = 38/81 (46%), Gaps = 11/81 (13%)
Query: 579 PKGAML-TGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM-----FVGVGPSRV----- 627
P G+ L GP G GKT LAK A E V + SE++E +G P V
Sbjct: 482 PVGSFLFVGPTGVGKTELAKQLAEELGVHLLRFDMSEYMEKHTVSRLIGSPPGYVGFEQG 541
Query: 628 RDMFSMARKHAPCILFIDEID 648
+ RKH C+L +DEI+
Sbjct: 542 GLLTDAVRKHPHCVLLLDEIE 562
>gnl|CDD|214396 CHL00206, ycf2, Ycf2; Provisional.
Length = 2281
Score = 40.3 bits (94), Expect = 0.008
Identities = 67/336 (19%), Positives = 121/336 (36%), Gaps = 84/336 (25%)
Query: 574 LGAKIPKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLE---------------- 617
L +G ++ G GTG++ L K A + VPFITV ++FL+
Sbjct: 1625 LALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFLIDDIDIDDS 1684
Query: 618 ---------------------------MFVGVGPSRVRDMFSMARKHAPCILFIDEIDAV 650
M + + F +A+ +PCI++I I +
Sbjct: 1685 DDIDDSDDIDRDLDTELLTMMNALTMDMMPKIDRFYITLQFELAKAMSPCIIWIPNIHDL 1744
Query: 651 GRKRGGRNFGGHSEQENTLN-QLLVEMDGFN----TTTNVVVLAATNRVDVLDKALLRPG 705
+ + N L+ LLV + +T N++V+A+T+ +D AL+ P
Sbjct: 1745 -----------NVNESNYLSLGLLVNSLSRDCERCSTRNILVIASTHIPQKVDPALIAPN 1793
Query: 706 RFD-----RQIFVPAPD----IKGRASIFKVHLKPLKTDLDRDDLSRKLAALTPGFTGAD 756
+ + R++ +P F + K T+ ++T G D
Sbjct: 1794 KLNTCIKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHTN--------GFGSITMGSNARD 1845
Query: 757 IANVCNEAALIAARDLHTTIVMKHFEQAIERVVAGMEKKTNVLQPEEKKTVAYHEAGHAV 816
+ + NEA I+ + I A+ R + + +Q + +++ G AV
Sbjct: 1846 LVALTNEALSISITQKKSIIDTNTIRSALHRQTWDLRSQVRSVQDHG---ILFYQIGRAV 1902
Query: 817 AGWFLRYADPLLKVSIIPRGKGLGYAQYLPREQYLY 852
A L P+ +SI + K + YLY
Sbjct: 1903 AQNVLLSNCPIDPISIYMKKKSCK-----EGDSYLY 1933
>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 = 38.6 bits (91), Expect = 0.009
Identities = 24/68 (35%), Positives = 30/68 (44%), Gaps = 14/68 (20%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGP--SRVRDMFSMARKHAPC 640
+L GPPG GKT LA A E V SG P + D+ ++ P
Sbjct: 54 LLYGPPGLGKTTLANIIANEMGVNIRITSG-----------PALEKPGDLAAILTNLEPG 102
Query: 641 -ILFIDEI 647
+LFIDEI
Sbjct: 103 DVLFIDEI 110
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 38.8 bits (91), Expect = 0.016
Identities = 25/84 (29%), Positives = 37/84 (44%), Gaps = 14/84 (16%)
Query: 579 PKGA-MLTGPPGTGKTLLAKATA---GEANVPFITVSGSEFLE-----MFVGVGPSRV-- 627
P G+ + GP G GKT LAKA A I + SE++E +G P V
Sbjct: 520 PIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRLIGAPPGYVGY 579
Query: 628 --RDMFSMA-RKHAPCILFIDEID 648
+ A R+ ++ +DEI+
Sbjct: 580 EEGGQLTEAVRRKPYSVILLDEIE 603
Score = 35.7 bits (83), Expect = 0.17
Identities = 41/172 (23%), Positives = 64/172 (37%), Gaps = 40/172 (23%)
Query: 583 MLTGPPGTGKTLLAKATA---GEANVPFITVSGSEFLEM----------FVGVGPSRVRD 629
+L G PG GKT + + A +VP ++ + + G R++
Sbjct: 195 VLVGEPGVGKTAIVEGLAQRIVNGDVP-ESLKDKRIYSLDLGSLVAGAKYRGEFEERLKA 253
Query: 630 MFSMARKHAPCILFIDEIDA-VGRKRGGRNFGGHSEQENTLNQLLVEMDGFNTTTNVVVL 688
+ K ILFIDEI VG G GG + N L L + + +
Sbjct: 254 VLKEVEKSKNVILFIDEIHTIVG---AGATEGGAMDAANLLKPALARGE-------LRCI 303
Query: 689 AATN----RVDVL-DKALLRPGRFDRQIFVPAPDI-------KGRASIFKVH 728
AT R + D AL R RF +++ V P + +G ++ H
Sbjct: 304 GATTLDEYRKYIEKDAALER--RF-QKVLVDEPSVEDTIAILRGLKERYEAH 352
>gnl|CDD|225822 COG3284, AcoR, Transcriptional activator of acetoin/glycerol
metabolism [Secondary metabolites biosynthesis,
transport, and catabolism / Transcription].
Length = 606
Score = 38.9 bits (91), Expect = 0.016
Identities = 47/181 (25%), Positives = 70/181 (38%), Gaps = 55/181 (30%)
Query: 584 LTGPPGTGKTLLAKA--TAGEANVPFITV---------SGSEFLEMFVGVGPSRVRDMFS 632
L G GTGK +LA+A EA PF+ V SE F V + F+
Sbjct: 341 LQGETGTGKEVLARAIHQNSEAAGPFVAVNCAAIPEALIESEL---FGYVAGA-----FT 392
Query: 633 MARKHAPC---------ILFIDEIDAVGRKRGGRNFGGHSEQENTLNQL----LVEMDGF 679
AR+ LF+DEI + + Q L L + + G
Sbjct: 393 GARRKGYKGKLEQADGGTLFLDEIGDM----------PLALQSRLLRVLQEGVVTPLGGT 442
Query: 680 NTTTNVVVLAATNRVDVLDKALLRPGRFDRQIFVPAPDIKGRASIFKVHLKPLKTDLDRD 739
++ V+AAT+R D+ L+ GRF ++ R + F + L PL+ +R
Sbjct: 443 RIKVDIRVIAATHR-DL--AQLVEQGRFREDLYY-------RLNAFVITLPPLR---ERS 489
Query: 740 D 740
D
Sbjct: 490 D 490
>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA
replication, recombination, and repair /
Posttranslational modification, protein turnover,
chaperones].
Length = 366
Score = 38.5 bits (90), Expect = 0.017
Identities = 49/255 (19%), Positives = 76/255 (29%), Gaps = 74/255 (29%)
Query: 578 IPKGAMLTGPPGTGKTLLAKATAGE-----ANVPFITVSG----------SEFLEMFVGV 622
P ++ GP GTGKT K E ANV + ++ S+ L V
Sbjct: 41 RPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLGKV 100
Query: 623 GPS----------RVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGHSEQENTLNQL 672
P R+ D S K I+ +DE+DA+ K G L L
Sbjct: 101 -PLTGDSSLEILKRLYDNLSKKGKTV--IVILDEVDALVDKDG-----------EVLYSL 146
Query: 673 LVEMDGFNTTTNVVVLAATNRVDVLDKALLRPGRFDRQIFVPAPDIKGRASIFKVHLKP- 731
L V ++A +N LD D P +K ++ P
Sbjct: 147 L--RAPGENKVKVSIIAVSNDDKFLD-------YLD-------PRVKSSLGPSEIVFPPY 190
Query: 732 ------------LKTDLDRDDLSRKLAALTPGFTGADIANV------CNEAALIAARDLH 773
++ + + L A+ + A IA R+
Sbjct: 191 TAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGS 250
Query: 774 TTIVMKHFEQAIERV 788
+ H +A E +
Sbjct: 251 RKVSEDHVREAQEEI 265
>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional.
Length = 316
Score = 38.0 bits (89), Expect = 0.019
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 569 QQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGS 613
+ + G +IP + + PGTGKT +AKA E + V+GS
Sbjct: 34 KSIVKKG-RIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGS 77
>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 38.0 bits (89), Expect = 0.023
Identities = 15/25 (60%), Positives = 18/25 (72%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPF 607
+L GP G+GKTLLA+ A NVPF
Sbjct: 101 LLIGPTGSGKTLLAQTLAKILNVPF 125
>gnl|CDD|223679 COG0606, COG0606, Predicted ATPase with chaperone activity
[Posttranslational modification, protein turnover,
chaperones].
Length = 490
Score = 37.6 bits (88), Expect = 0.030
Identities = 24/64 (37%), Positives = 29/64 (45%), Gaps = 18/64 (28%)
Query: 536 INSSDIGVRFKDVAGCEEAK--VEIMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKT 593
I S + FKDV G E+AK +EI A +L GPPGTGKT
Sbjct: 169 IESFSLAPDFKDVKGQEQAKRALEI----------------AAAGGHNLLLVGPPGTGKT 212
Query: 594 LLAK 597
+LA
Sbjct: 213 MLAS 216
>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 = 36.0 bits (84), Expect = 0.039
Identities = 39/164 (23%), Positives = 59/164 (35%), Gaps = 50/164 (30%)
Query: 573 DLGAKIPKGAML--TGPPGTGKTLLAKA-------TAGEANVPFITVS--GSEFLEMFVG 621
++ I G L GP G+GK+ LA+ T+G + +S L VG
Sbjct: 20 NVSFSIEPGESLAIIGPSGSGKSTLARLILGLLRPTSGRVRLDGADISQWDPNELGDHVG 79
Query: 622 VGPSRVRDMFS-----------------MARK--HAPCILFIDEIDAVGRKRGGRNFGGH 662
P +FS +AR P IL +DE ++ H
Sbjct: 80 YLPQDDE-LFSGSIAENILSGGQRQRLGLARALYGNPRILVLDEPNS------------H 126
Query: 663 --SEQENTLNQLLVEMDGFNTTTNVV-----VLAATNRVDVLDK 699
E E LNQ + + T V+ LA+ +R+ VL+
Sbjct: 127 LDVEGERALNQAIAALKAAGATRIVIAHRPETLASADRILVLED 170
>gnl|CDD|226857 COG4449, COG4449, Predicted protease of the Abi (CAAX) family
[General function prediction only].
Length = 827
Score = 37.7 bits (87), Expect = 0.042
Identities = 49/247 (19%), Positives = 88/247 (35%), Gaps = 56/247 (22%)
Query: 274 KPSDSTQPPLSKP-DLSSSRSGSSPWNMGVFGGGGGKWRIILSENVPKGFEKFYPD---- 328
+P + +S P DL+SS G + W V+G G + P+ + PD
Sbjct: 257 QPHLNGDRFMSTPRDLASSPVGQAGWY--VYGAQGKDGIFTVQSLNPRSLVQLQPDEQIF 314
Query: 329 ---------KNKKSAEKPKEEGKPSDSTQPPLSKPDLSSSRSGSSPWNMG-------VFG 372
+K P +G + Q L P S W G +FG
Sbjct: 315 RLGPGRDYISHKNWQNTPARKG----TVQKVLVDPRSDSPAVALGQWQEGDRLLGMHLFG 370
Query: 373 GGGGKGGQGSGGKGFGDFSGGDKEKYFMYGLIGSVA-VLAAAVMYEMNYKEI-------- 423
G GG G+ G +F + L + + +E+ Y ++
Sbjct: 371 GIGGALGEKI--------MLGTVTGHFSFSLPKVIRDPFTEELQWEIPYYQVYAHNPQGI 422
Query: 424 -----TWKDFINNVLTKGIVEKLEVVNKKWVRVKLLPGNSMDGANFLWFNIGSVDSFERN 478
TW+++ N L +G ++ + V VKL + ++ NF + +D ++
Sbjct: 423 IAGSQTWENYAGN-LQRGWIQSRPFAD---VVVKL---DVLEDYNFGGSVLSPLDELQKQ 475
Query: 479 LELAQAQ 485
L++ A+
Sbjct: 476 LQIMMAR 482
>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal
transduction [Signal transduction mechanisms].
Length = 260
Score = 36.3 bits (84), Expect = 0.066
Identities = 23/62 (37%), Positives = 32/62 (51%), Gaps = 11/62 (17%)
Query: 574 LGAKIPKGA--MLTGPPGTGKTLLAK------ATAGEANVPFITVSGS--EFLEMFVGVG 623
LG +P+G+ ++TGPPGTGKT+ A A GE V +++ S E LE G
Sbjct: 16 LGGGLPRGSVVLITGPPGTGKTIFALQFLYEGAREGE-PVLYVSTEESPEELLENARSFG 74
Query: 624 PS 625
Sbjct: 75 WD 76
>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 = 35.6 bits (83), Expect = 0.078
Identities = 10/16 (62%), Positives = 14/16 (87%)
Query: 583 MLTGPPGTGKTLLAKA 598
++ GPPG+GKT+LAK
Sbjct: 26 LMIGPPGSGKTMLAKR 41
>gnl|CDD|224401 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 35.8 bits (83), Expect = 0.078
Identities = 23/75 (30%), Positives = 32/75 (42%), Gaps = 9/75 (12%)
Query: 579 PKGAMLTGPPGTGKTLLAKATAGEAN-----VPFITVSGSEFL-EMFVGVGPSRVRDMFS 632
+ +L GPPG GKT LA A E V FIT + L ++ R+ +
Sbjct: 105 GENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITA--PDLLSKLKAAFDEGRLEEKLL 162
Query: 633 MARKHAPCILFIDEI 647
K +L ID+I
Sbjct: 163 RELKKVD-LLIIDDI 176
>gnl|CDD|225713 COG3172, NadR, Predicted ATPase/kinase involved in NAD metabolism
[Coenzyme metabolism].
Length = 187
Score = 34.7 bits (80), Expect = 0.11
Identities = 14/73 (19%), Positives = 23/73 (31%), Gaps = 11/73 (15%)
Query: 584 LTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVG--------PSRVR---DMFS 632
+ G +GK+ L A N G E++ +G
Sbjct: 13 ILGGESSGKSTLVNKLANIFNTTSAWEYGREYVFEHLGGDEALQYSDYAKIALGQAAYED 72
Query: 633 MARKHAPCILFID 645
A ++A + FID
Sbjct: 73 AAVRYANKVAFID 85
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 35.8 bits (83), Expect = 0.13
Identities = 23/70 (32%), Positives = 30/70 (42%), Gaps = 10/70 (14%)
Query: 582 AMLTGPPGTGKTLLAKATAGEANVPFI----TVSGSEFLEMFVGVGPSRVRDMFSMARKH 637
+L GPPG GKT LA+ A F ++G + L V R + R
Sbjct: 55 LILYGPPGVGKTTLARIIANHTRAHFSSLNAVLAGVKDLRAEVDRAKER------LERHG 108
Query: 638 APCILFIDEI 647
ILFIDE+
Sbjct: 109 KRTILFIDEV 118
>gnl|CDD|184611 PRK14297, PRK14297, chaperone protein DnaJ; Provisional.
Length = 380
Score = 35.5 bits (82), Expect = 0.14
Identities = 29/84 (34%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 324 KFYPDKNKKSAEKPKEEGKPSDSTQPPLSKPDLSSSRSGSSPWNMGVFGGGGGKGGQGSG 383
K++PDKNK + E +E+ K + LS P ++ + F G GG G G G
Sbjct: 31 KYHPDKNKGNKEA-EEKFKEINEAYQVLSDPQ---KKAQYDQFGTADFNGAGGFGSGGFG 86
Query: 384 GKGFGDFSG-GDKEKYFMYGLIGS 406
G F D G GD F G GS
Sbjct: 87 GFDFSDMGGFGDIFDSFFGGGFGS 110
>gnl|CDD|235364 PRK05201, hslU, ATP-dependent protease ATP-binding subunit HslU;
Provisional.
Length = 443
Score = 35.4 bits (83), Expect = 0.16
Identities = 26/59 (44%), Positives = 34/59 (57%), Gaps = 7/59 (11%)
Query: 578 IPKGAMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVG-VGPSRVRDMFSMAR 635
PK ++ GP G GKT +A+ A AN PFI V ++F E VG VG RD+ S+ R
Sbjct: 49 TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTE--VGYVG----RDVESIIR 101
>gnl|CDD|211383 cd11296, O-FucT_like, GDP-fucose protein O-fucosyltransferase and
related proteins. O-fucosyltransferase-like proteins
are GDP-fucose dependent enzymes with similarities to
the family 1 glycosyltransferases (GT1). They are
soluble ER proteins that may be proteolytically cleaved
from a membrane-associated preprotein, and are involved
in the O-fucosylation of protein substrates, the core
fucosylation of growth factor receptors, and other
processes.
Length = 206
Score = 34.3 bits (79), Expect = 0.17
Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 1/48 (2%)
Query: 679 FNTTTNVVVLA-ATNRVDVLDKALLRPGRFDRQIFVPAPDIKGRASIF 725
N N ++LA R VL L P R + +P+I+ A F
Sbjct: 15 RNEFLNALLLAILLGRTLVLPLCLACPIRLVGKHLRFSPEIRKLADRF 62
>gnl|CDD|163057 TIGR02881, spore_V_K, stage V sporulation protein K. Members of
this protein family are the stage V sporulation protein
K (SpoVK), a close homolog of the Rubisco expression
protein CbbX (TIGR02880) and a members of the ATPase
family associated with various cellular activities
(pfam00004). Members are strictly limited to bacterial
endospore-forming species, but are not universal in this
group and are missing from the Clostridium group
[Cellular processes, Sporulation and germination].
Length = 261
Score = 34.7 bits (80), Expect = 0.18
Identities = 35/127 (27%), Positives = 58/127 (45%), Gaps = 16/127 (12%)
Query: 545 FKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGA---MLTGPPGTGKTLLAKATAG 601
+ G +E K I E +++ ++ + G K K + G PGTGKT +A+
Sbjct: 5 LSRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGK 64
Query: 602 ---EANV----PFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKR 654
E NV I V ++ + ++G + R++ +K +LFIDE A R
Sbjct: 65 LFKEMNVLSKGHLIEVERADLVGEYIGHTAQKTREVI---KKALGGVLFIDE--AYSLAR 119
Query: 655 GG-RNFG 660
GG ++FG
Sbjct: 120 GGEKDFG 126
>gnl|CDD|222165 pfam13481, AAA_25, AAA domain. This AAA domain is found in a wide
variety of presumed DNA repair proteins.
Length = 154
Score = 33.8 bits (78), Expect = 0.19
Identities = 20/52 (38%), Positives = 25/52 (48%), Gaps = 9/52 (17%)
Query: 578 IPKG--AMLTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRV 627
+P+G +L G PGTGK+ LA A +G FL F V P RV
Sbjct: 30 LPRGGLTLLAGAPGTGKSTLALDLAAAV------ATGRPFLGPFP-VEPGRV 74
>gnl|CDD|213236 cd03269, ABC_putative_ATPase, ATP-binding cassette domain of an
uncharacterized transporter. This subgroup is related
to the subfamily A transporters involved in drug
resistance, nodulation, lipid transport, and bacteriocin
and lantibiotic immunity. In eubacteria and archaea, the
typical organization consists of one ABC and one or two
integral membranes. ABC transporters are a large family
of proteins involved in the transport of a wide variety
of different compounds, like sugars, ions, peptides and
more complex organic molecules. The nucleotide binding
domain shows the highest similarity between all members
of the family. ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region in addition to the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 210
Score = 34.2 bits (79), Expect = 0.23
Identities = 33/154 (21%), Positives = 69/154 (44%), Gaps = 37/154 (24%)
Query: 836 GKGLGYAQ-----YLPREQYLYSKEQLLDRMCMTLGGRVSEEIFFGR--------ITTGA 882
GK L A YLP E+ LY K +++D++ ++ +
Sbjct: 61 GKPLDIAARNRIGYLPEERGLYPKMKVIDQL-----------VYLAQLKGLKKEEARRRI 109
Query: 883 EDDLKKVTQSAYA-----QVAHFGMNEKVGNVSFDMPQPGEMVLEKPYS---ESTAQLID 934
++ L+++ S YA +++ G +KV ++ + P ++L++P+S +L+
Sbjct: 110 DEWLERLELSEYANKRVEELSK-GNQQKVQFIAAVIHDPELLILDEPFSGLDPVNVELLK 168
Query: 935 NEVRSLISNAYTRTKALLIEHK-ASVEKVAERLL 967
+ +R L T +L H+ VE++ +R+L
Sbjct: 169 DVIRELARAGKT---VILSTHQMELVEELCDRVL 199
>gnl|CDD|237495 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional.
Length = 637
Score = 34.6 bits (80), Expect = 0.28
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 583 MLTGPPGTGKTLLAKATA 600
M+ G PGTGK++LAKA A
Sbjct: 54 MMIGSPGTGKSMLAKAMA 71
>gnl|CDD|218967 pfam06273, eIF-4B, Plant specific eukaryotic initiation factor 4B.
This family consists of several plant specific
eukaryotic initiation factor 4B proteins.
Length = 496
Score = 34.3 bits (78), Expect = 0.35
Identities = 31/154 (20%), Positives = 44/154 (28%), Gaps = 12/154 (7%)
Query: 246 LSENVPKGFEKFYPDKNKKSAEKPKEEGKPSDSTQPPLSKPDLSSSRSGSSPWNMGVFGG 305
LSE + K + + P+ Q + G + G
Sbjct: 65 LSEFTAGAYGAPGQPSESKGLTQEEMMQLPTGPRQRSEEEMQRGRLGGGFRSYGGNRSYG 124
Query: 306 GGGKWRIILSENVPKGFEKFYPDKNKKSAEKPKEEGKPSDS----TQPPLSKPDLSSSRS 361
GG + GF+ + ++ P+ + P R
Sbjct: 125 GGRRPY-------GGGFDDDRRGWGPRVSDFPQPSRADEIDDWGRGKKSTPLPSFDQGRQ 177
Query: 362 GSSPWNMGVFGGGGG-KGGQGSGGKGFGDFSGGD 394
G P G FGGGGG GG GF D G D
Sbjct: 178 GRYPSGGGAFGGGGGGGGGGERRSGGFRDSPGAD 211
>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 34.5 bits (80), Expect = 0.35
Identities = 25/68 (36%), Positives = 34/68 (50%), Gaps = 10/68 (14%)
Query: 546 KDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAM--LTGPPGTGKTLLAKATAGEA 603
KD G E+ K I+E++ K L K+ KG + L GPPG GKT L K+ A
Sbjct: 323 KDHYGLEKVKERILEYLAVQK-------LTKKL-KGPILCLVGPPGVGKTSLGKSIAKAL 374
Query: 604 NVPFITVS 611
F+ +S
Sbjct: 375 GRKFVRIS 382
>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 = 33.6 bits (78), Expect = 0.37
Identities = 19/65 (29%), Positives = 27/65 (41%), Gaps = 16/65 (24%)
Query: 572 IDLGAKIPKG--AMLTGPPGTGKTLLAKATA--GEANVPFITVSGSEFLEMFVGVG--PS 625
IDL I KG + G GTGKT+L A +A+V + +V +G
Sbjct: 6 IDLLLPIGKGQRIGIFGGSGTGKTVLLGMIARNAKADVVEV----------YVLIGERGR 55
Query: 626 RVRDM 630
V +
Sbjct: 56 EVAEF 60
>gnl|CDD|237660 PRK14289, PRK14289, chaperone protein DnaJ; Provisional.
Length = 386
Score = 34.0 bits (78), Expect = 0.39
Identities = 46/161 (28%), Positives = 64/161 (39%), Gaps = 44/161 (27%)
Query: 324 KFYPDKN---KKSAEKPKEEGKPSDSTQPPLSKPDLSSSRSGSSPWNMGVFGGGGGKGGQ 380
+++PDKN K++ EK KE + D LS PD S +G GGGG G+
Sbjct: 32 QYHPDKNPGDKEAEEKFKEAAEAYDV----LSDPDKRSRYDQFGHAGVGGAAGGGGFSGE 87
Query: 381 G-----------------SGG-KGFGDFSGGDKEKYFMYGLIGSVAVLAAAVMYEMNYKE 422
G GG GFG F GG ++ G V V ++N KE
Sbjct: 88 GMSMEDIFSMFGDIFGGHGGGFGGFGGFGGGGSQQRVFRGSDLRVKV-------KLNLKE 140
Query: 423 ITWKDFINNVLTKGIVEKLEVVNKKWVRVKLLPGNSMDGAN 463
I + G+ +K +V KK+V G +G N
Sbjct: 141 I----------STGVEKKFKV--KKYVPCSHCHGTGAEGNN 169
>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 = 32.9 bits (76), Expect = 0.40
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 583 MLTGPPGTGKTLLAKATAG 601
++TGP GTGK+ L +A AG
Sbjct: 31 LITGPSGTGKSSLFRALAG 49
>gnl|CDD|222005 pfam13245, AAA_19, Part of AAA domain.
Length = 73
Score = 30.8 bits (70), Expect = 0.44
Identities = 9/20 (45%), Positives = 10/20 (50%)
Query: 584 LTGPPGTGKTLLAKATAGEA 603
+ G PGTGKT A A
Sbjct: 15 VDGGPGTGKTATAAAIIARL 34
>gnl|CDD|215758 pfam00158, Sigma54_activat, Sigma-54 interaction domain.
Length = 168
Score = 32.7 bits (76), Expect = 0.48
Identities = 13/31 (41%), Positives = 19/31 (61%), Gaps = 3/31 (9%)
Query: 583 MLTGPPGTGKTLLAKA---TAGEANVPFITV 610
++TG GTGK L A+A + A+ PF+ V
Sbjct: 26 LITGESGTGKELFARAIHQLSPRADGPFVAV 56
>gnl|CDD|234172 TIGR03345, VI_ClpV1, type VI secretion ATPase, ClpV1 family.
Members of this protein family are homologs of ClpB, an
ATPase associated with chaperone-related functions.
These ClpB homologs, designated ClpV1, are a key
component of the bacterial pathogenicity-associated type
VI secretion system [Protein fate, Protein and peptide
secretion and trafficking, Cellular processes,
Pathogenesis].
Length = 852
Score = 34.1 bits (79), Expect = 0.50
Identities = 21/45 (46%), Positives = 25/45 (55%), Gaps = 8/45 (17%)
Query: 579 PKGA-MLTGPPGTGKTLLAKATA-----GEANVPFITVSGSEFLE 617
P G +L GP G GKT A A A GE N+ IT++ SEF E
Sbjct: 595 PLGVFLLVGPSGVGKTETALALAELLYGGEQNL--ITINMSEFQE 637
>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 = 32.1 bits (74), Expect = 0.57
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 583 MLTGPPGTGKTLLAKATA 600
+L G PG KTLLA+ A
Sbjct: 3 LLEGVPGLAKTLLARTLA 20
>gnl|CDD|235244 PRK04182, PRK04182, cytidylate kinase; Provisional.
Length = 180
Score = 32.5 bits (75), Expect = 0.60
Identities = 19/68 (27%), Positives = 32/68 (47%), Gaps = 19/68 (27%)
Query: 586 GPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDM----FS-MARKHAPC 640
GPPG+GKT +A+ A + + ++ +G F E+ ++ R M F+ A +
Sbjct: 7 GPPGSGKTTVARLLAEKLGLKHVS-AGEIFREL------AKERGMSLEEFNKYAEED--- 56
Query: 641 ILFIDEID 648
EID
Sbjct: 57 ----PEID 60
>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 = 32.4 bits (74), Expect = 0.61
Identities = 14/35 (40%), Positives = 24/35 (68%), Gaps = 1/35 (2%)
Query: 584 LTGPPGTGKTLLAKATAGEANVPFITVSGSEFLEM 618
++GPPG+GKT +AK A + ++ I+ +G F E+
Sbjct: 5 ISGPPGSGKTTVAKILAEKLSLKLIS-AGDIFREL 38
>gnl|CDD|223666 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA
replication, recombination, and repair].
Length = 408
Score = 33.4 bits (77), Expect = 0.63
Identities = 21/75 (28%), Positives = 32/75 (42%), Gaps = 7/75 (9%)
Query: 586 GPPGTGKTLLAKATAGEA-----NVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPC 640
G G GKT L +A EA N + ++ +F FV R +M K++
Sbjct: 120 GGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKAL--RDNEMEKFKEKYSLD 177
Query: 641 ILFIDEIDAVGRKRG 655
+L ID+I + K
Sbjct: 178 LLLIDDIQFLAGKER 192
>gnl|CDD|237656 PRK14280, PRK14280, chaperone protein DnaJ; Provisional.
Length = 376
Score = 33.2 bits (76), Expect = 0.76
Identities = 29/79 (36%), Positives = 38/79 (48%), Gaps = 14/79 (17%)
Query: 324 KFYPDKNKK--SAEKPKEEGKPSDSTQPPLSKPDLSSS--RSGSSPWNMGVFGGGGGKGG 379
K++PD NK+ + EK KE + + LS + + G + N G FGGGG GG
Sbjct: 31 KYHPDINKEEGADEKFKEISEAYEV----LSDDQKRAQYDQFGHAGPNQG-FGGGGFGGG 85
Query: 380 QGSGGKGFGD-----FSGG 393
GG GF D F GG
Sbjct: 86 DFGGGFGFEDIFSSFFGGG 104
>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated.
Length = 268
Score = 32.7 bits (75), Expect = 0.78
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 11/55 (20%)
Query: 581 GAMLTGPPGTGKTLLAKATAG---EANVPFITVSGSEFLEMFVGVGPSRVRDMFS 632
G +L G GTGKT LA A E VP I V+ + L +R++ +
Sbjct: 116 GLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLL--------NRIKSTYK 162
>gnl|CDD|237653 PRK14276, PRK14276, chaperone protein DnaJ; Provisional.
Length = 380
Score = 33.1 bits (76), Expect = 0.79
Identities = 26/72 (36%), Positives = 38/72 (52%), Gaps = 9/72 (12%)
Query: 324 KFYPDKNKK--SAEKPKEEGKPSDSTQPPLSKPDLSSS--RSGSSPWNMGVFGGGGGKGG 379
K++PD NK+ + EK KE + ++ LS P ++ + G++ N G FGGG G G
Sbjct: 31 KYHPDINKEPGAEEKYKEVQEAYET----LSDPQKRAAYDQYGAAGANGG-FGGGAGGFG 85
Query: 380 QGSGGKGFGDFS 391
G GFG F
Sbjct: 86 GFDGSGGFGGFE 97
Score = 30.4 bits (69), Expect = 5.0
Identities = 11/23 (47%), Positives = 12/23 (52%)
Query: 371 FGGGGGKGGQGSGGKGFGDFSGG 393
+G G GG G G GFG F G
Sbjct: 68 YGAAGANGGFGGGAGGFGGFDGS 90
>gnl|CDD|215598 PLN03138, PLN03138, Protein TOC75; Provisional.
Length = 796
Score = 33.3 bits (76), Expect = 0.80
Identities = 17/55 (30%), Positives = 19/55 (34%)
Query: 333 SAEKPKEEGKPSDSTQPPLSKPDLSSSRSGSSPWNMGVFGGGGGKGGQGSGGKGF 387
S+ + L S G G FGGGGG GG G GG F
Sbjct: 52 SSSATSSSASLVANGAVALLSASAISGGGGGGGGGFGGFGGGGGGGGGGGGGWRF 106
Score = 32.5 bits (74), Expect = 1.6
Identities = 19/79 (24%), Positives = 25/79 (31%), Gaps = 7/79 (8%)
Query: 343 PSDSTQPPLSKPDLSSSRSGSSPWNMGVFG-------GGGGKGGQGSGGKGFGDFSGGDK 395
+ S + S SS+ S S+ GG GG G G GFG GG
Sbjct: 39 RASSIKCSASASASSSATSSSASLVANGAVALLSASAISGGGGGGGGGFGGFGGGGGGGG 98
Query: 396 EKYFMYGLIGSVAVLAAAV 414
+ + A A
Sbjct: 99 GGGGGWRFWLRLFAPADAH 117
>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 = 32.2 bits (74), Expect = 0.82
Identities = 12/29 (41%), Positives = 14/29 (48%)
Query: 584 LTGPPGTGKTLLAKATAGEANVPFITVSG 612
+TGPPG GKT L K + V G
Sbjct: 4 ITGPPGVGKTTLVKKVIELLKSEGVKVGG 32
>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 = 31.8 bits (73), Expect = 0.91
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 584 LTGPPGTGKTLLAKATAGEANVPFI 608
L G G GKT + + A +PF+
Sbjct: 4 LIGMMGAGKTTVGRLLAKALGLPFV 28
>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 = 31.8 bits (73), Expect = 0.91
Identities = 12/20 (60%), Positives = 13/20 (65%)
Query: 584 LTGPPGTGKTLLAKATAGEA 603
L GPPG GKT LA A +A
Sbjct: 52 LLGPPGVGKTHLACALGHQA 71
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 31.1 bits (70), Expect = 0.94
Identities = 13/26 (50%), Positives = 19/26 (73%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVPFI 608
++TGPPG+GK+ LAK A + +P I
Sbjct: 3 LITGPPGSGKSTLAKKLAEKLGIPVI 28
>gnl|CDD|237655 PRK14279, PRK14279, chaperone protein DnaJ; Provisional.
Length = 392
Score = 32.4 bits (74), Expect = 1.2
Identities = 21/77 (27%), Positives = 30/77 (38%), Gaps = 11/77 (14%)
Query: 326 YPDKN---KKSAEKPKEEGKPSDSTQPPLSKPDLSSSRSGSSPWNMGVFGGGGGKGGQGS 382
+PD N + E+ K + D P + + +R +F GGG G +
Sbjct: 38 HPDANPGDPAAEERFKAVSEAHDVLSDPAKRKEYDETRR--------LFAGGGFGGRRFD 89
Query: 383 GGKGFGDFSGGDKEKYF 399
GG GFG F G F
Sbjct: 90 GGGGFGGFGTGGDGAEF 106
>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 = 32.5 bits (74), Expect = 1.4
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 583 MLTGPPGTGKTLLAKATAG 601
+L GPPG+GKT+LA G
Sbjct: 215 LLFGPPGSGKTMLASRLQG 233
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 32.3 bits (74), Expect = 1.4
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 583 MLTGPPGTGKTLLAKATAG 601
++TG G GKT L +A AG
Sbjct: 423 LITGESGAGKTSLLRALAG 441
>gnl|CDD|237150 PRK12608, PRK12608, transcription termination factor Rho;
Provisional.
Length = 380
Score = 32.4 bits (74), Expect = 1.4
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 572 IDLGAKIPKG--AMLTGPPGTGKTLLAKATA 600
+DL A I KG ++ PP GKT+L + A
Sbjct: 124 VDLVAPIGKGQRGLIVAPPRAGKTVLLQQIA 154
>gnl|CDD|227429 COG5098, COG5098, Chromosome condensation complex Condensin, subunit
D2 [Chromatin structure and dynamics / Cell division and
chromosome partitioning].
Length = 1128
Score = 32.6 bits (74), Expect = 1.5
Identities = 37/153 (24%), Positives = 58/153 (37%), Gaps = 27/153 (17%)
Query: 904 EKVGNVSFDMPQPGEMVLEKPYSESTAQLIDN-EVRSLISNAYTRTKAL----------- 951
E N+ + G+MV + Y + L+ R + YTRTKAL
Sbjct: 321 EICANLVEHFKKDGQMV--EHYKQKLNDLVGLLVERLSDTYPYTRTKALQVLEKIFDLNS 378
Query: 952 -LIEHKASV-EKVAERLLKKEILDRNDMIE----LLGTRPF----PEKSTYEEFVEGTGS 1001
+ + V V RL + + R + I+ LL PF + + + GS
Sbjct: 379 KTVGRRHEVIRLVGRRLQDRSSVVRRNAIKLCSKLLMRHPFASEHGSQLRLTLWEKNLGS 438
Query: 1002 FEEDT-SLPEGLKDWNKDKEVPKKTEEKEEKKA 1033
E SL GL++ D E K+ E+ E +
Sbjct: 439 AENQLNSLKSGLQETLCDGE--KEVEQDEGQCR 469
>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 = 32.4 bits (74), Expect = 1.5
Identities = 14/45 (31%), Positives = 19/45 (42%), Gaps = 8/45 (17%)
Query: 570 QYIDLGAKIPKGAMLTGPPGTGKTLLAKA----TAGEANVPFITV 610
Y G + ++ G GTGK L A+ +A A PFI
Sbjct: 96 AYAPSGLPV----LIIGETGTGKELFARLIHALSARRAEAPFIAF 136
>gnl|CDD|200217 TIGR02880, cbbX_cfxQ, probable Rubsico expression protein CbbX.
Proteins in this family are now designated CbbX. Some
previously were CfxQ (carbon fixation Q). Its gene is
often found immmediately downstream of the Rubisco large
and small chain genes, and it is suggested to be
necessary for Rubisco expression. CbbX has been shown to
be necessary for photoautotrophic growth. This protein
belongs to the larger family of pfam00004, ATPase family
Associated with various cellular Activities. Within that
larger family, members of this family are most closely
related to the stage V sporulation protein K, or SpoVK,
in endospore-forming bacteria such as Bacillus subtilis.
Length = 284
Score = 32.1 bits (73), Expect = 1.5
Identities = 39/157 (24%), Positives = 71/157 (45%), Gaps = 24/157 (15%)
Query: 546 KDVAGCEEAKVEIMEFVNFL--KNPQQYIDLGAKIPKGAM-LTGPPGTGKTLLAKATAG- 601
+++ G + K I E L + +Q + L + P M TG PGTGKT +A A
Sbjct: 22 RELIGLKPVKTRIREIAALLLVERARQKLGLASAAPTLHMSFTGNPGTGKTTVALRMAQI 81
Query: 602 --------EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRK 653
+ ++ ++V+ + + ++G + +++ A +LFIDE + R
Sbjct: 82 LHRLGYVRKGHL--VSVTRDDLVGQYIGHTAPKTKEVLKRAMGG---VLFIDEAYYLYRP 136
Query: 654 RGGRNFGGHSEQENTLNQLLVEMDGFNTTTNVVVLAA 690
R++G QE + LL M+ N ++VV+ A
Sbjct: 137 DNERDYG----QE-AIEILLQVME--NNRDDLVVILA 166
>gnl|CDD|131688 TIGR02640, gas_vesic_GvpN, gas vesicle protein GvpN. Members of
this family are the GvpN protein associated with the
production of gas vesicles produced in some prokaryotes
to give cells buoyancy. This family belongs to a larger
family of ATPases (pfam07728) [Cellular processes,
Other].
Length = 262
Score = 32.1 bits (73), Expect = 1.5
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 584 LTGPPGTGKTLLAKATAGEANVPFITVSG 612
L GP GTGKT LA A + + P + ++G
Sbjct: 26 LRGPAGTGKTTLAMHVARKRDRPVMLING 54
>gnl|CDD|236092 PRK07772, PRK07772, single-stranded DNA-binding protein;
Provisional.
Length = 186
Score = 31.5 bits (72), Expect = 1.5
Identities = 18/36 (50%), Positives = 19/36 (52%)
Query: 358 SSRSGSSPWNMGVFGGGGGKGGQGSGGKGFGDFSGG 393
+SR G G FGGGGG G G GG G G GG
Sbjct: 120 ASRGGGGGGGGGGFGGGGGGSGGGGGGGGGGGAPGG 155
>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 = 30.9 bits (70), Expect = 1.9
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 583 MLTGPPGTGKTLLAKATAGEANVP 606
++ GP G+GKT LA A
Sbjct: 3 LVFGPTGSGKTTLALQLALNIATK 26
>gnl|CDD|178680 PLN03134, PLN03134, glycine-rich RNA-binding protein 4;
Provisional.
Length = 144
Score = 30.8 bits (69), Expect = 1.9
Identities = 21/67 (31%), Positives = 30/67 (44%), Gaps = 1/67 (1%)
Query: 321 GFEKFYPDKNKKSAEKPKEEGKPSDSTQPPLSKPDLSSSRSGSSPWNMGVFGGGGGKGGQ 380
GF F D+ +A + +GK + ++ + S + G GGGGG GG
Sbjct: 79 GFVNF-NDEGAATAAISEMDGKELNGRHIRVNPANDRPSAPRAYGGGGGYSGGGGGYGGG 137
Query: 381 GSGGKGF 387
G GG GF
Sbjct: 138 GDGGGGF 144
>gnl|CDD|224160 COG1239, ChlI, Mg-chelatase subunit ChlI [Coenzyme metabolism].
Length = 423
Score = 32.0 bits (73), Expect = 1.9
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 574 LGAKIPK--GAMLTGPPGTGKTLLAKATAG 601
L A P+ GA++ G GT K+ LA+A A
Sbjct: 31 LNAVDPQIGGALIAGEKGTAKSTLARALAD 60
>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 = 2.0
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 585 TGPPGTGKTLLAKATAGEA 603
GP GTGKT LA A A +A
Sbjct: 25 IGPAGTGKTYLAVAAAVDA 43
>gnl|CDD|222194 pfam13521, AAA_28, AAA domain.
Length = 162
Score = 30.6 bits (70), Expect = 2.1
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 584 LTGPPGTGKTLLAKATAGEANVPFITVSGSEFLE 617
+TG P TGKT L +A A P + G E++E
Sbjct: 4 ITGGPSTGKTTLLEALA-ARGYPVVPEYGREYIE 36
>gnl|CDD|235711 PRK06136, PRK06136, uroporphyrin-III C-methyltransferase; Reviewed.
Length = 249
Score = 31.3 bits (72), Expect = 2.3
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 12/47 (25%)
Query: 629 DMFSMARKHAPCILFIDEIDAVGRKRGGRNFGGHSEQENTLNQLLVE 675
++ + A+ A E+ VG KR GR HS ++ +N+LLV+
Sbjct: 41 EILAYAKPDA-------ELIYVG-KRAGR----HSTKQEEINRLLVD 75
>gnl|CDD|223775 COG0703, AroK, Shikimate kinase [Amino acid transport and
metabolism].
Length = 172
Score = 30.6 bits (70), Expect = 2.4
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 584 LTGPPGTGKTLLAKATAGEANVPFI 608
L G G GK+ + +A A N+PFI
Sbjct: 7 LIGFMGAGKSTIGRALAKALNLPFI 31
>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 31.4 bits (72), Expect = 2.5
Identities = 19/59 (32%), Positives = 25/59 (42%), Gaps = 12/59 (20%)
Query: 544 RFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATAGE 602
++ G EE + +V KN +P + GPPGTGKT A A A E
Sbjct: 15 TLDEIVGQEEIVERLKSYVK-EKN----------MPH-LLFAGPPGTGKTTAALALARE 61
>gnl|CDD|140006 PRK13949, PRK13949, shikimate kinase; Provisional.
Length = 169
Score = 30.5 bits (69), Expect = 2.6
Identities = 13/25 (52%), Positives = 14/25 (56%)
Query: 584 LTGPPGTGKTLLAKATAGEANVPFI 608
L G G GKT L KA A E + FI
Sbjct: 6 LVGYMGAGKTTLGKALARELGLSFI 30
>gnl|CDD|236353 PRK08939, PRK08939, primosomal protein DnaI; Reviewed.
Length = 306
Score = 31.4 bits (72), Expect = 2.6
Identities = 27/133 (20%), Positives = 47/133 (35%), Gaps = 31/133 (23%)
Query: 534 KLINSSDI-----GVRFKDVAGCEEAKVEIMEFVN-FLKNPQQYIDLGAKIPKGAMLTGP 587
K I S + D+ + +++ + FL+ + KG L G
Sbjct: 110 KRIQSIYMPKDLLQASLADIDLDDRDRLDALMAALDFLEAYPPGEKV-----KGLYLYGD 164
Query: 588 PGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDMFSM-----------ARK 636
G GK+ L A A E ++ + P +R++ + A K
Sbjct: 165 FGVGKSYLLAAIANE-------LAKKGVSSTLLHF-PEFIRELKNSISDGSVKEKIDAVK 216
Query: 637 HAPCILFIDEIDA 649
AP +L +D+I A
Sbjct: 217 EAP-VLMLDDIGA 228
>gnl|CDD|226426 COG3911, COG3911, Predicted ATPase [General function prediction
only].
Length = 183
Score = 30.6 bits (69), Expect = 2.7
Identities = 15/26 (57%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 583 MLTGPPGTGKTLL--AKATAGEANVP 606
+LTG PG GKT L A A AG A V
Sbjct: 13 ILTGGPGAGKTTLLAALARAGFATVE 38
>gnl|CDD|213218 cd03251, ABCC_MsbA, ATP-binding cassette domain of the bacterial
lipid flippase and related proteins, subfamily C. MsbA
is an essential ABC transporter, closely related to
eukaryotic MDR proteins. ABC transporters are a large
family of proteins involved in the transport of a wide
variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and GTP-binding
and hydrolyzing proteins.
Length = 234
Score = 31.0 bits (71), Expect = 2.7
Identities = 14/58 (24%), Positives = 21/58 (36%), Gaps = 15/58 (25%)
Query: 543 VRFKDVA-GCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAM--LTGPPGTGKTLLAK 597
V FK+V ++ ++ IP G L GP G+GK+ L
Sbjct: 1 VEFKNVTFRYPGDGPPVLRDISL------------DIPAGETVALVGPSGSGKSTLVN 46
>gnl|CDD|213217 cd03250, ABCC_MRP_domain1, ATP-binding cassette domain 1 of
multidrug resistance-associated protein, subfamily C.
This subfamily is also known as MRP (multidrug
resistance-associated protein). Some of the MRP members
have five additional transmembrane segments in their
N-terminus, but the function of these additional
membrane-spanning domains is not clear. The MRP was
found in the multidrug-resisting lung cancer cell in
which p-glycoprotein was not overexpressed. MRP exports
glutathione by drug stimulation, as well as, certain
substrates in conjugated forms with anions, such as
glutathione, glucuronate, and sulfate.
Length = 204
Score = 30.5 bits (70), Expect = 2.9
Identities = 21/75 (28%), Positives = 36/75 (48%), Gaps = 12/75 (16%)
Query: 543 VRFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKG--AMLTGPPGTGKTLLAKATA 600
+ +D + ++ + F LK+ I+L ++PKG + GP G+GK+ L A
Sbjct: 1 ISVEDASFTWDSGEQETSFT--LKD----INL--EVPKGELVAIVGPVGSGKSSLLSALL 52
Query: 601 GE--ANVPFITVSGS 613
GE ++V GS
Sbjct: 53 GELEKLSGSVSVPGS 67
>gnl|CDD|214810 smart00763, AAA_PrkA, PrkA AAA domain. This is a family of PrkA
bacterial and archaeal serine kinases approximately 630
residues long. This is the N-terminal AAA domain.
Length = 361
Score = 31.1 bits (71), Expect = 3.4
Identities = 28/128 (21%), Positives = 49/128 (38%), Gaps = 22/128 (17%)
Query: 547 DVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLA--------KA 598
D G EEA I FVN+ K+ Q ++ +I L GP G GK+ L +
Sbjct: 52 DFFGMEEA---IERFVNYFKSAAQGLEERKQI---LYLLGPVGGGKSSLVECLKRGLEEY 105
Query: 599 TAGEANVPFITVSGSEFL-EMF---VGVGPSRVRDMFSMARKHAPCILFID-EIDAVGRK 653
+ + T + M + + P +R+ ++ ++ ++ RK
Sbjct: 106 SKTDEG-RIYTFKWNGEESPMHEDPLHLFPDELREDL--EDEYGIPRRRLEGDLSPWCRK 162
Query: 654 RGGRNFGG 661
R +GG
Sbjct: 163 RLDEEYGG 170
>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 = 29.9 bits (67), Expect = 3.4
Identities = 10/15 (66%), Positives = 11/15 (73%)
Query: 584 LTGPPGTGKTLLAKA 598
LTGP GTGKT L +
Sbjct: 29 LTGPSGTGKTSLLRE 43
>gnl|CDD|182120 PRK09862, PRK09862, putative ATP-dependent protease; Provisional.
Length = 506
Score = 31.1 bits (70), Expect = 3.5
Identities = 12/19 (63%), Positives = 14/19 (73%)
Query: 583 MLTGPPGTGKTLLAKATAG 601
+L GPPGTGKT+LA G
Sbjct: 214 LLIGPPGTGKTMLASRING 232
>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 = 30.6 bits (70), Expect = 3.8
Identities = 22/59 (37%), Positives = 29/59 (49%), Gaps = 15/59 (25%)
Query: 544 RFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKT----LLAKA 598
F+DV G +E V+ LKN I G +I + +GP GTGKT + AKA
Sbjct: 12 TFEDVIG-QEHIVQT------LKNA---IKNG-RIAHAYLFSGPRGTGKTSIARIFAKA 59
>gnl|CDD|221784 pfam12810, Gly_rich, Glycine rich protein. This family of proteins
is greatly expanded in Trichomonas vaginalis. The
proteins are composed of several glycine rich motifs
interspersed through the sequence. Although many
proteins have been annotated by similarity in the family
these annotations given the biased composition of the
sequences these are unlikely to be functionally
relevant.
Length = 248
Score = 30.6 bits (70), Expect = 3.9
Identities = 16/38 (42%), Positives = 16/38 (42%), Gaps = 1/38 (2%)
Query: 357 SSSRSGSSPWNMGVFGGGGGKGGQGSGGKGFGDFSGGD 394
S SS N G FG GG G G GG FG G
Sbjct: 150 SGGEGASSGGN-GGFGYGGSGNGGGGGGGYFGGGGGHY 186
>gnl|CDD|183133 PRK11432, fbpC, ferric transporter ATP-binding subunit;
Provisional.
Length = 351
Score = 30.8 bits (70), Expect = 4.1
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 573 DLGAKIPKGAMLT--GPPGTGKTLLAKATAG 601
+L I +G M+T GP G GKT + + AG
Sbjct: 24 NLNLTIKQGTMVTLLGPSGCGKTTVLRLVAG 54
>gnl|CDD|225369 COG2812, DnaX, DNA polymerase III, gamma/tau subunits [DNA
replication, recombination, and repair].
Length = 515
Score = 30.8 bits (70), Expect = 4.5
Identities = 18/57 (31%), Positives = 25/57 (43%), Gaps = 11/57 (19%)
Query: 544 RFKDVAGCEEAKVEIMEFVNFLKNPQQYIDLGAKIPKGAMLTGPPGTGKTLLAKATA 600
F DV G E V L N ++ G +I + +GP G GKT +A+ A
Sbjct: 14 TFDDVVGQEH-------VVKTLSNA---LENG-RIAHAYLFSGPRGVGKTTIARILA 59
>gnl|CDD|238769 cd01492, Aos1_SUMO, Ubiquitin activating enzyme (E1) subunit Aos1.
Aos1 is part of the heterodimeric activating enzyme
(E1), specific for the SUMO family of ubiquitin-like
proteins (Ubls). E1 enzymes are part of a conjugation
cascade to attach Ub or Ubls, covalently to substrate
proteins consisting of activating (E1), conjugating
(E2), and/or ligating (E3) enzymes. E1 activates
ubiquitin by C-terminal adenylation, and subsequently
forms a highly reactive thioester bond between its
catalytic cysteine and Ubls C-terminus. The E1 also
associates with E2 and promotes ubiquitin transfer to
the E2's catalytic cysteine. Post-translational
modification by SUMO family of ubiquitin-like proteins
(Ublps) is involved in cell division, nuclear transport,
the stress response and signal transduction. Aos1
contains part of the adenylation domain.
Length = 197
Score = 30.0 bits (68), Expect = 4.6
Identities = 23/89 (25%), Positives = 38/89 (42%), Gaps = 10/89 (11%)
Query: 686 VVLAATNRVDVLDKALLRPGRFDRQIFVPAPDI-KGRASIFKVHLKPL----KTDLDRDD 740
+VL+ + +LD + Q +PA D+ + RA L+ L K +D DD
Sbjct: 40 LVLSGIGSLTILDDRTVTEEDLGAQFLIPAEDLGQNRAEASLERLRALNPRVKVSVDTDD 99
Query: 741 LSRKLAALTPGFTGAD--IANVCNEAALI 767
+S K F+ D +A + A L+
Sbjct: 100 ISEKPEEF---FSQFDVVVATELSRAELV 125
>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 = 29.5 bits (67), Expect = 4.7
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 584 LTGPPGTGKTLLAKATAGEANVPFI 608
+ G G+GK+ + KA A PFI
Sbjct: 4 VMGVSGSGKSTVGKALAERLGAPFI 28
>gnl|CDD|238687 cd01393, recA_like, RecA is a bacterial enzyme which has roles in
homologous recombination, DNA repair, and the induction
of the SOS response. RecA couples ATP hydrolysis to DNA
strand exchange. While prokaryotes have a single RecA
protein, eukaryotes have multiple RecA homologs such as
Rad51, DMC1 and Rad55/57. Archaea have the RecA-like
homologs radA and radB.
Length = 226
Score = 30.2 bits (69), Expect = 4.8
Identities = 14/32 (43%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 574 LGAKIPKGAM--LTGPPGTGKTLLAKATAGEA 603
LG IP G + + G G+GKT L A EA
Sbjct: 12 LGGGIPTGRITEIFGEFGSGKTQLCLQLAVEA 43
>gnl|CDD|218881 pfam06070, Herpes_UL32, Herpesvirus large structural phosphoprotein
UL32. The large phosphorylated protein (UL32-like) of
herpes viruses is the polypeptide most frequently
reactive in immuno-blotting analyses with antisera when
compared with other viral proteins.
Length = 777
Score = 30.6 bits (69), Expect = 4.9
Identities = 29/157 (18%), Positives = 41/157 (26%), Gaps = 31/157 (19%)
Query: 261 KNKKSAEKPKEEGKPSDSTQPPLSKPDLSSS-----RSGSSPWNMGVFGGGGGKWRIILS 315
K K SA G SD L+ SSS R+ + + + G GG I
Sbjct: 603 KPKGSASSKPLTGPGSDLKPATLNGKTPSSSLVGAARNAGASSKVKIPSGLGGFTSPISL 662
Query: 316 ----------ENVPKGFEKFYPDKNKKSAEKPKEEGKPSDSTQ----------------P 349
+K P + EK + + +T P
Sbjct: 663 LESALEDVLTSATSTPVKKNDPYLWDTNGEKAGGGTESASTTDVFQNFAGLNKKTPVGGP 722
Query: 350 PLSKPDLSSSRSGSSPWNMGVFGGGGGKGGQGSGGKG 386
KP LS + +S G G
Sbjct: 723 FQPKPPLSRALDSASSPGGSGGKPGLDGVEGAKGKDD 759
>gnl|CDD|221518 pfam12301, CD99L2, CD99 antigen like protein 2. This family of
proteins is found in eukaryotes. Proteins in this family
are typically between 165 and 237 amino acids in length.
CD99L2 and CD99 are involved in trans-endothelial
migration of neutrophils in vitro and in the recruitment
of neutrophils into inflamed peritoneum.
Length = 154
Score = 29.4 bits (66), Expect = 5.1
Identities = 24/101 (23%), Positives = 31/101 (30%), Gaps = 8/101 (7%)
Query: 319 PKGFEKFYPDKNKKSAEKPKEEGKPSDSTQPPLSKPDLSSSRSGSSPWNMGVFGGGGGKG 378
KG + F + KP QP P S V G GG K
Sbjct: 26 SKGDDDFDLEDALDGGNDGGAGPKPKPRPQPDPGNPG-GDGGGFSDSDLADVAGDGGYKP 84
Query: 379 GQGSGGKGFGDFSGGDKEKY-------FMYGLIGSVAVLAA 412
+G GG G G GG + G++ +V V
Sbjct: 85 DKGKGGGGGGGGGGGTDGGPEGGAETGTIAGIVSAVGVALL 125
>gnl|CDD|206701 cd04128, Spg1, Septum-promoting GTPase (Spg1). Spg1p. Spg1p
(septum-promoting GTPase) was first identified in the
fission yeast S. pombe, where it regulates septum
formation in the septation initiation network (SIN)
through the cdc7 protein kinase. Spg1p is an essential
gene that localizes to the spindle pole bodies. When
GTP-bound, it binds cdc7 and causes it to translocate to
spindle poles. Sid4p (septation initiation defective) is
required for localization of Spg1p to the spindle pole
body, and the ability of Spg1p to promote septum
formation from any point in the cell cycle depends on
Sid4p. Spg1p is negatively regulated by Byr4 and cdc16,
which form a two-component GTPase activating protein
(GAP) for Spg1p. The existence of a SIN-related pathway
in plants has been proposed. GTPase activating proteins
(GAPs) interact with GTP-bound Rab and accelerate the
hydrolysis of GTP to GDP. Guanine nucleotide exchange
factors (GEFs) interact with GDP-bound Rabs to promote
the formation of the GTP-bound state. Rabs are further
regulated by guanine nucleotide dissociation inhibitors
(GDIs), which facilitate Rab recycling by masking
C-terminal lipid binding and promoting cytosolic
localization.
Length = 182
Score = 29.7 bits (67), Expect = 5.1
Identities = 20/75 (26%), Positives = 29/75 (38%), Gaps = 14/75 (18%)
Query: 584 LTGPPGTGKT-LLAKATAGEANVPFITVSGSEFLEMFVGV-------------GPSRVRD 629
L G GKT L+ K GE + +I G F+E + + G +
Sbjct: 5 LLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFIN 64
Query: 630 MFSMARKHAPCILFI 644
M + K A ILF+
Sbjct: 65 MLPLVCKDAVAILFM 79
>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional.
Length = 293
Score = 30.1 bits (68), Expect = 5.3
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 372 GGGGGKGGQGSGGKGFGDFSGG 393
G GGG+GG G GG+G G GG
Sbjct: 9 GRGGGRGGGGGGGRGGGGRGGG 30
Score = 29.7 bits (67), Expect = 7.7
Identities = 10/23 (43%), Positives = 11/23 (47%)
Query: 371 FGGGGGKGGQGSGGKGFGDFSGG 393
GGG GG+G G G G G
Sbjct: 1 GMGGGFGGGRGGGRGGGGGGGRG 23
>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 = 30.0 bits (68), Expect = 5.4
Identities = 12/24 (50%), Positives = 13/24 (54%), Gaps = 2/24 (8%)
Query: 584 LTGPPGTGKTLLAKATAGEANVPF 607
GP TGKT LA+A A VP
Sbjct: 118 FYGPASTGKTNLAQAIA--HAVPL 139
Score = 29.6 bits (67), Expect = 7.3
Identities = 16/81 (19%), Positives = 26/81 (32%), Gaps = 3/81 (3%)
Query: 162 LKNPQQYIDLGAKIPKGAMLTERNKSRMAQRMLCTAKKLERFLLHNINHGRYSSFHINNS 221
+P Y+ L + P G + +MA + + K +L N
Sbjct: 28 AIDPDSYLRL-SASPAGRRQIKNAL-QMAIIRMFSTKTALDYLAKPEVTA-NFDIEENRI 84
Query: 222 LATLPKSNFPPTTVESVLHQW 242
L + + P V VL W
Sbjct: 85 YQLLSLNGYNPAEVGQVLLAW 105
>gnl|CDD|131721 TIGR02673, FtsE, cell division ATP-binding protein FtsE. This
model describes FtsE, a member of the ABC transporter
ATP-binding protein family. This protein, and its
permease partner FtsX, localize to the division site. In
a number of species, the ftsEX gene pair is located next
to FtsY, the signal recognition particle-docking protein
[Cellular processes, Cell division].
Length = 214
Score = 29.9 bits (68), Expect = 5.4
Identities = 15/42 (35%), Positives = 19/42 (45%), Gaps = 9/42 (21%)
Query: 573 DLGAKIPKGAM--LTGPPGTGKTLLAK-------ATAGEANV 605
D+ I KG LTGP G GKT L K + G+ +
Sbjct: 20 DVSLHIRKGEFLFLTGPSGAGKTTLLKLLYGALTPSRGQVRI 61
>gnl|CDD|204270 pfam09579, Spore_YtfJ, Sporulation protein YtfJ (Spore_YtfJ).
Proteins in this family are encoded by bacterial genomes
if, and only if, the species is capable of endospore
formation. YtfJ was confirmed in spores of B. subtilis;
it appears to be expressed in the forespore under
control of SigF.
Length = 81
Score = 27.9 bits (63), Expect = 5.7
Identities = 11/23 (47%), Positives = 12/23 (52%)
Query: 371 FGGGGGKGGQGSGGKGFGDFSGG 393
FG GGG+G G GFG G
Sbjct: 18 FGAGGGEGKDKKGKTGFGGGGGA 40
>gnl|CDD|235782 PRK06341, PRK06341, single-stranded DNA-binding protein;
Provisional.
Length = 166
Score = 29.4 bits (66), Expect = 5.7
Identities = 10/20 (50%), Positives = 11/20 (55%)
Query: 375 GGKGGQGSGGKGFGDFSGGD 394
G+G G GG G D GGD
Sbjct: 115 DGRGEGGGGGGGGDDGGGGD 134
>gnl|CDD|234931 PRK01265, PRK01265, heat shock protein HtpX; Provisional.
Length = 324
Score = 30.1 bits (68), Expect = 5.8
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 8/40 (20%)
Query: 797 NVLQPEEKKTVAYHEAGHAVAGWFLRYADP--LLKVSIIP 834
+L +E K VA HE GH L++ D L+ + +IP
Sbjct: 133 KILNRDEIKAVAGHELGH------LKHRDVELLMAIGLIP 166
>gnl|CDD|224616 COG1702, PhoH, Phosphate starvation-inducible protein PhoH,
predicted ATPase [Signal transduction mechanisms].
Length = 348
Score = 30.3 bits (69), Expect = 5.8
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 585 TGPPGTGKTLLAKATAGEA 603
GP GTGKT LA A A +A
Sbjct: 149 IGPAGTGKTYLAVAKAVDA 167
>gnl|CDD|219014 pfam06414, Zeta_toxin, Zeta toxin. This family consists of several
bacterial zeta toxin proteins. Zeta toxin is thought to
be part of a postregulational killing system in
bacteria. It relies on antitoxin/toxin systems that
secure stable inheritance of low and medium copy number
plasmids during cell division and kill cells that have
lost the plasmid.
Length = 191
Score = 29.5 bits (67), Expect = 6.0
Identities = 13/42 (30%), Positives = 17/42 (40%), Gaps = 1/42 (2%)
Query: 579 PKGAMLTGPPGTGKTLLAKATAGE-ANVPFITVSGSEFLEMF 619
P +L G PG GKT LA+A E + + E
Sbjct: 12 PVAVLLGGQPGAGKTELARALLEELGGGNVVRIDPDELRTYH 53
>gnl|CDD|182778 PRK10851, PRK10851, sulfate/thiosulfate transporter subunit;
Provisional.
Length = 353
Score = 30.1 bits (68), Expect = 6.2
Identities = 18/48 (37%), Positives = 22/48 (45%), Gaps = 2/48 (4%)
Query: 556 VEIMEFVNFLKNPQQYIDLGAKIPKGAM--LTGPPGTGKTLLAKATAG 601
+EI Q D+ IP G M L GP G+GKT L + AG
Sbjct: 3 IEIANIKKSFGRTQVLNDISLDIPSGQMVALLGPSGSGKTTLLRIIAG 50
>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 = 29.6 bits (67), Expect = 6.3
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 9/49 (18%)
Query: 583 MLTGPPGTGKT------LLAKATAGEANVPFITVSGS--EFLEMFVGVG 623
+L+G PGTGKT L A GE ++T+ S E +E +G
Sbjct: 3 LLSGGPGTGKTTFALQFLYAGLARGE-PGLYVTLEESPEELIENAESLG 50
>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 = 28.4 bits (64), Expect = 6.6
Identities = 10/15 (66%), Positives = 11/15 (73%)
Query: 583 MLTGPPGTGKTLLAK 597
L GPPG GK+ LAK
Sbjct: 2 WLYGPPGCGKSTLAK 16
>gnl|CDD|233448 TIGR01526, nadR_NMN_Atrans, nicotinamide-nucleotide
adenylyltransferase, NadR type. The NadR protein of E.
coli and closely related bacteria is both enzyme and
regulatory protein. The first 60 or so amino acids,
N-terminal to the region covered by this model, is a
DNA-binding helix-turn-helix domain (pfam01381)
responsible for repressing the nadAB genes of NAD de
novo biosynthesis. The NadR homologs in Mycobacterium
tuberculosis, Haemophilus influenzae, and others appear
to lack the repressor domain. NadR has recently been
shown to act as an enzyme of the salvage pathway of NAD
biosynthesis, nicotinamide-nucleotide
adenylyltransferase; members of this family are presumed
to share this activity. E. coli NadR has also been found
to regulate the import of its substrate, nicotinamide
ribonucleotide, but it is not known if the other members
of this model share that activity.
Length = 325
Score = 29.8 bits (67), Expect = 7.2
Identities = 17/71 (23%), Positives = 24/71 (33%), Gaps = 11/71 (15%)
Query: 586 GPPGTGKTLLAKATAGEANVPFITVSGSEFLEMFVGVGPSRVRDMF-----------SMA 634
G TGK+ L A N E++E +G + + A
Sbjct: 169 GGESTGKSTLVNKLAAVFNTTSAWEYAREYVEEKLGGDEALQYSDYAQIALGQQRYIDYA 228
Query: 635 RKHAPCILFID 645
+HA I FID
Sbjct: 229 VRHAHKIAFID 239
>gnl|CDD|220491 pfam09958, DUF2192, Uncharacterized protein conserved in archaea
(DUF2192). This domain, found in various hypothetical
archaeal proteins, has no known function.
Length = 231
Score = 29.6 bits (67), Expect = 7.2
Identities = 15/31 (48%), Positives = 18/31 (58%), Gaps = 7/31 (22%)
Query: 964 ERLLKKEILDRNDMIELLGTRPFPEKSTYEE 994
RLL+ EIL R D+IELL + YEE
Sbjct: 18 SRLLEGEILTREDLIELL-------QEVYEE 41
>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 = 30.2 bits (68), Expect = 7.6
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 576 AKIPKGAMLTGPPGTGKTLLAKATA 600
AK + +L G PG GK++LAKA A
Sbjct: 34 AKQKRNVLLIGEPGVGKSMLAKAMA 58
>gnl|CDD|183521 PRK12422, PRK12422, chromosomal replication initiation protein;
Provisional.
Length = 445
Score = 29.8 bits (67), Expect = 8.0
Identities = 37/137 (27%), Positives = 53/137 (38%), Gaps = 30/137 (21%)
Query: 559 MEFVNFLKNPQQYIDLGAKI--------PKGA-------MLTGPPGTGKTLLAKATAG-- 601
M F NFL P+ DL +I +G L GP G+GKT L +A
Sbjct: 108 MTFANFLVTPEN--DLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVHAL 165
Query: 602 -EANVPFITVSGSEFLEMFVGVGPSRVRDMFSMARKHAPCILFIDEIDAVGRKRGGRNFG 660
E+ + V F E V S F ++ LFI++I+ K
Sbjct: 166 RESGGKILYVRSELFTEHLVSAIRSGEMQRFRQFYRNVD-ALFIEDIEVFSGK------- 217
Query: 661 GHSEQE--NTLNQLLVE 675
G +++E +T N L E
Sbjct: 218 GATQEEFFHTFNSLHTE 234
>gnl|CDD|240623 cd05199, SDH_like, Saccharopine Dehydrogenase like proteins.
Saccharopine Dehydrogenase (SDH) and related proteins,
including bifunctional lysine ketoglutarate
reductase/SDH enzymes and N(5)-(carboxyethyl)ornithine
synthases. SDH catalyzes the final step in the
reversible NAD-dependent oxidative deamination of
saccharopine to alpha-ketoglutarate and lysine, in the
alpha-aminoadipate pathway of L-lysine biosynthesis. SDH
is structurally related to formate dehydrogenase and
similar enzymes, having a 2-domain structure in which a
Rossmann-fold NAD(P)-binding domain is inserted within
the linear sequence of a catalytic domain of related
structure. Bifunctional lysine ketoglutarate
reductase/SDH protein is a pair of enzymes linked on a
single polypeptide chain that catalyze the initial,
consecutive steps of lysine degradation. These proteins
are related to the 2-domain saccharopine dehydrogenases.
Length = 319
Score = 29.5 bits (67), Expect = 8.1
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 405 GSVAVLAAAVMYEMNYKEITWKDFIN 430
G V AA V+ + KE++ +DF+
Sbjct: 185 GRVGSGAAEVLKALGIKEVSPEDFLT 210
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 28.6 bits (64), Expect = 8.3
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 583 MLTGPPGTGKTLLAKATA 600
++TG PG+GKT LAK A
Sbjct: 2 LITGTPGSGKTTLAKELA 19
>gnl|CDD|225114 COG2204, AtoC, Response regulator containing CheY-like receiver,
AAA-type ATPase, and DNA-binding domains [Signal
transduction mechanisms].
Length = 464
Score = 30.0 bits (68), Expect = 8.4
Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 3/32 (9%)
Query: 583 MLTGPPGTGKTLLAKA--TAGE-ANVPFITVS 611
++TG GTGK L+A+A A A PFI V+
Sbjct: 168 LITGESGTGKELVARAIHQASPRAKGPFIAVN 199
>gnl|CDD|223560 COG0484, DnaJ, DnaJ-class molecular chaperone with C-terminal Zn
finger domain [Posttranslational modification, protein
turnover, chaperones].
Length = 371
Score = 29.9 bits (68), Expect = 8.4
Identities = 25/75 (33%), Positives = 36/75 (48%), Gaps = 9/75 (12%)
Query: 324 KFYPDKNKKSA---EKPKEEGKPSDSTQPPLSKPDLSSS--RSGSSPWNMGVFGGGGGKG 378
K++PD+N EK KE + + LS P+ ++ + G + + G FGG G G
Sbjct: 31 KYHPDRNPGDKEAEEKFKEINEAYEV----LSDPEKRAAYDQFGHAGFKAGGFGGFGFGG 86
Query: 379 GQGSGGKGFGDFSGG 393
G G F DF GG
Sbjct: 87 FGGDFGDIFEDFFGG 101
>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 = 29.5 bits (67), Expect = 8.5
Identities = 11/22 (50%), Positives = 15/22 (68%), Gaps = 2/22 (9%)
Query: 578 IPKGA--MLTGPPGTGKTLLAK 597
IP+G ++TG PGTGKT+
Sbjct: 16 IPRGRVVLITGGPGTGKTIFGL 37
>gnl|CDD|238548 cd01128, rho_factor, Transcription termination factor rho is a
bacterial ATP-dependent RNA/DNA helicase. It is a
homohexamer. Each monomer consists of an N-terminal
domain of the OB fold, which is responsible for binding
to cysteine rich nucleotides. This alignment is of the
C-terminal ATP binding domain.
Length = 249
Score = 29.2 bits (66), Expect = 8.8
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 572 IDLGAKIPKG--AMLTGPPGTGKTLLAKATA 600
+DL A I KG ++ PP GKT L ++ A
Sbjct: 7 VDLFAPIGKGQRGLIVAPPKAGKTTLLQSIA 37
>gnl|CDD|237658 PRK14284, PRK14284, chaperone protein DnaJ; Provisional.
Length = 391
Score = 29.8 bits (67), Expect = 9.0
Identities = 30/94 (31%), Positives = 40/94 (42%), Gaps = 17/94 (18%)
Query: 324 KFYPDKNKKSAEKPKEEGKPSDSTQPPLSKPDLSSS--RSGSSPWNMGVFGGGGGKGGQG 381
K++PDKN AE K + S++ + LS S R G G F G GG GG G
Sbjct: 28 KYHPDKNPGDAEAEKRFKEVSEAYEV-LSDAQKRESYDRYGKD----GPFAGAGGFGGAG 82
Query: 382 SG----------GKGFGDFSGGDKEKYFMYGLIG 405
G G G+F GG ++G +G
Sbjct: 83 MGNMEDALRTFMGAFGGEFGGGGSFFEGLFGGLG 116
>gnl|CDD|219320 pfam07172, GRP, Glycine rich protein family. This family of
proteins includes several glycine rich proteins as well
as two nodulins 16 and 24. The family also contains
proteins that are induced in response to various
stresses.
Length = 91
Score = 27.8 bits (62), Expect = 9.4
Identities = 13/25 (52%), Positives = 14/25 (56%)
Query: 369 GVFGGGGGKGGQGSGGKGFGDFSGG 393
G +GGGGG G G G G G GG
Sbjct: 50 GGYGGGGGGGYGGGGYYGGGGGYGG 74
>gnl|CDD|213193 cd03226, ABC_cobalt_CbiO_domain2, Second domain of the ATP-binding
cassette component of cobalt transport system. Domain
II of the ABC component of a cobalt transport family
found in bacteria, archaea, and eukaryota. The
transition metal cobalt is an essential component of
many enzymes and must be transported into cells in
appropriate amounts when needed. The CbiMNQO family ABC
transport system is involved in cobalt transport in
association with the cobalamin (vitamin B12)
biosynthetic pathways. Most cobalt (Cbi) transport
systems possess a separate CbiN component, the
cobalt-binding periplasmic protein, and they are encoded
by the conserved gene cluster cbiMNQO. Both the CbiM and
CbiQ proteins are integral cytoplasmic membrane
proteins, and the CbiO protein has the linker peptide
and the Walker A and B motifs commonly found in the
ATPase components of the ABC-type transport systems.
Length = 205
Score = 29.1 bits (66), Expect = 9.4
Identities = 15/31 (48%), Positives = 17/31 (54%), Gaps = 2/31 (6%)
Query: 573 DLGAKIPKGAM--LTGPPGTGKTLLAKATAG 601
DL + G + LTG G GKT LAK AG
Sbjct: 18 DLSLDLYAGEIIALTGKNGAGKTTLAKILAG 48
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.316 0.135 0.392
Gapped
Lambda K H
0.267 0.0740 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 53,944,600
Number of extensions: 5507556
Number of successful extensions: 6673
Number of sequences better than 10.0: 1
Number of HSP's gapped: 6475
Number of HSP's successfully gapped: 223
Length of query: 1036
Length of database: 10,937,602
Length adjustment: 107
Effective length of query: 929
Effective length of database: 6,191,724
Effective search space: 5752111596
Effective search space used: 5752111596
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 64 (28.4 bits)