RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11433
(941 letters)
>gnl|CDD|233047 TIGR00604, rad3, DNA repair helicase (rad3). All proteins in this
family for which funcitons are known are DNA-DNA
helicases that funciton in the initiation of
transcription and nucleotide excision repair as part of
the TFIIH complex. This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 705
Score = 388 bits (999), Expect = e-122
Identities = 181/419 (43%), Positives = 247/419 (58%), Gaps = 49/419 (11%)
Query: 1 VSKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAV-GREAPLAPGVYSITK 59
VSKER GK+V+G+C LT S ++++ N+ C+FYE FD + E L + I
Sbjct: 114 VSKERQGKVVNGKCIKLTVSKIKEQRTEKPNVESCEFYENFDELREVEDLLLSEIMDIED 173
Query: 60 LKEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNI 119
L E G LGLCPYF R+ + A IV+ Y YLLDPKI + VS EL S+V+FDEAHN+
Sbjct: 174 LVEYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIRSAVSIELK-DSIVIFDEAHNL 232
Query: 120 DNVCVDSLSVRINRRTIEKAVGNIQTLEGTLKEMKEADSAKLREEYARLVEGLRDAQSAR 179
DNVC+ SLS ++ R++++ I ++E KE D+ KL +E +LVEGL+
Sbjct: 233 DNVCISSLSSNLSVRSLKRCSKEIAEYFEKIEERKEVDARKLLDELQKLVEGLKQEDLLT 292
Query: 180 ETDVVLANPVLPDEILQEVVPGNIRTAEHFVGFLKRFIEYLKTRLRVQQVVQESPATFLK 239
+ D+ LANPVLP E+L E VPGNIR AE F+ L R++EYLK L+V VV E P FL+
Sbjct: 293 DEDIFLANPVLPKEVLPEAVPGNIRIAEIFLHKLSRYLEYLKDALKVLGVVSELPDAFLE 352
Query: 240 DISSKPAPSMISEAYRYIFSTEEHLKTRLRVQQVVQESPATFLKDISSKVCIERKPLRFC 299
+ K I+R PLRFC
Sbjct: 353 HLKEKT--------------------------------------------FIDR-PLRFC 367
Query: 300 AERLASLLRTLEITNLTDFSSLVVITHLATLVSSYTKGFAIIVEPFSDKAPTVPNPVLYF 359
+ERL++LLR LEIT+ DFS+LV++ ATLV +YT GF +EP+ +K TVPNP+L F
Sbjct: 368 SERLSNLLRELEITHPEDFSALVLLFTFATLVLTYTNGFLEGIEPYENK--TVPNPILKF 425
Query: 360 CCLDSSLAIKPVFDRFQTVVITSGTLSPLDMYPKILNFQPVIMHSFSMTLARPCLLPMV 418
CLD S+A+KP+F+R ++V++ SGTLSPLD +P+ L F PV S + L R LL ++
Sbjct: 426 MCLDPSIALKPLFERVRSVILASGTLSPLDAFPRNLGFNPVSQDSPTHILKRENLLTLI 484
Score = 211 bits (538), Expect = 1e-57
Identities = 92/216 (42%), Positives = 127/216 (58%), Gaps = 9/216 (4%)
Query: 637 LQKRKLLFIETQDALDSRSVSKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKF 696
L RK L + VSKER GK+V+G+C LT S ++++ N+ C+FYE F
Sbjct: 102 LASRKNLCLHP-------EVSKERQGKVVNGKCIKLTVSKIKEQRTEKPNVESCEFYENF 154
Query: 697 DAV-GREAPLAPGVYSITKLKEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANV 755
D + E L + I L E G LGLCPYF R+ + A IV+ Y YLLDPKI +
Sbjct: 155 DELREVEDLLLSEIMDIEDLVEYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIRSA 214
Query: 756 VSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQTLEGTLKEMKEADSAK 815
VS EL S+V+FDEAHN+DNVC+ SLS ++ R++++ I ++E KE D+ K
Sbjct: 215 VSIELK-DSIVIFDEAHNLDNVCISSLSSNLSVRSLKRCSKEIAEYFEKIEERKEVDARK 273
Query: 816 LREEYARLVEGLRDAQSARETDVVLANPVLPDEILQ 851
L +E +LVEGL+ + D+ LANPVLP E+L
Sbjct: 274 LLDELQKLVEGLKQEDLLTDEDIFLANPVLPKEVLP 309
Score = 148 bits (376), Expect = 6e-37
Identities = 74/184 (40%), Positives = 102/184 (55%), Gaps = 16/184 (8%)
Query: 430 DLPVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLD 489
+L V+FPYE IYPEQ +YM +LK++LD +LEMPSGTGKT SLLSLI+AY P +
Sbjct: 1 ELLVYFPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKP-E 59
Query: 490 VTKLLYCSRTVPEIEKVVEELARLFDYYIKH-NEEINMTGLVLSSRKNLCIHSE-----F 543
V K++Y SRT ++E+ EEL +L Y EE ++GL L+SRKNLC+H E
Sbjct: 60 VRKIIYASRTHSQLEQATEELRKLMSYRTPRIGEESPVSGLSLASRKNLCLHPEVSKERQ 119
Query: 544 ETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVFETRD-------DISVIRNY 596
+ I+ + + P+ C F Y + + E D DI + Y
Sbjct: 120 GKVVNGKCIKLTVSKIKEQRTEKPNVESCEF--YENFDELREVEDLLLSEIMDIEDLVEY 177
Query: 597 GQLL 600
G+LL
Sbjct: 178 GELL 181
Score = 101 bits (253), Expect = 6e-22
Identities = 37/71 (52%), Positives = 59/71 (83%)
Query: 580 LESVFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVVASWYDQGIIDNLQK 639
L S FE R+D S++RN G+LLV+ + ++PDG+V FF SY YLE++V++W + GI++N++K
Sbjct: 494 LSSTFEIRNDPSLVRNLGELLVEFSKIIPDGIVVFFPSYSYLENIVSTWKEMGILENIEK 553
Query: 640 RKLLFIETQDA 650
+KL+F+ET+DA
Sbjct: 554 KKLIFVETKDA 564
Score = 66.7 bits (163), Expect = 4e-11
Identities = 22/50 (44%), Positives = 33/50 (66%), Gaps = 3/50 (6%)
Query: 850 LQGKTDYGIMIFADKRFARSDKRSKLPKWIQEYLTDNLTNLSTEEAVQLS 899
++ K DYG ++ DKR+ARS+KR KLPKWIQ+ + + N A+ L+
Sbjct: 659 IRHKDDYGSIVLLDKRYARSNKRKKLPKWIQDTIQSSDLNG---MAISLT 705
>gnl|CDD|191608 pfam06777, DUF1227, Protein of unknown function (DUF1227). This
family represents a conserved region within a number of
eukaryotic DNA repair helicases (EC:3.6.1.-).
Length = 146
Score = 215 bits (549), Expect = 3e-65
Identities = 94/190 (49%), Positives = 117/190 (61%), Gaps = 44/190 (23%)
Query: 148 GTLKEMKEADSAKLREEYARLVEGLRDAQSARETDVVLANPVLPDEILQEVVPGNIRTAE 207
+ +KE D KL++EY RLVEGLR+A+ ARETD L+NPVLP++IL+E VPGNIR AE
Sbjct: 1 KKIDRIKETDEQKLQDEYDRLVEGLRNAEIARETDEFLSNPVLPEDILKEAVPGNIRKAE 60
Query: 208 HFVGFLKRFIEYLKTRLRVQQVVQESPATFLKDISSKPAPSMISEAYRYIFSTEEHLKTR 267
HF+ FLKRFIEY LKTR
Sbjct: 61 HFISFLKRFIEY--------------------------------------------LKTR 76
Query: 268 LRVQQVVQESPATFLKDISSKVCIERKPLRFCAERLASLLRTLEITNLTDFSSLVVITHL 327
LRV V+ ESP +FLK I + I+RKPLRFCAERL SLL TLEIT++ DFS+L ++ +
Sbjct: 77 LRVTHVISESPLSFLKHIKEETGIDRKPLRFCAERLKSLLNTLEITDIEDFSALSLVANF 136
Query: 328 ATLVSSYTKG 337
ATLVS+Y+KG
Sbjct: 137 ATLVSTYSKG 146
Score = 70.4 bits (173), Expect = 4e-14
Identities = 28/50 (56%), Positives = 38/50 (76%)
Query: 803 GTLKEMKEADSAKLREEYARLVEGLRDAQSARETDVVLANPVLPDEILQG 852
+ +KE D KL++EY RLVEGLR+A+ ARETD L+NPVLP++IL+
Sbjct: 1 KKIDRIKETDEQKLQDEYDRLVEGLRNAEIARETDEFLSNPVLPEDILKE 50
>gnl|CDD|214693 smart00488, DEXDc2, DEAD-like helicases superfamily.
Length = 289
Score = 171 bits (434), Expect = 2e-47
Identities = 65/157 (41%), Positives = 97/157 (61%), Gaps = 1/157 (0%)
Query: 2 SKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGVYSITKLK 61
+ +++G +VD C SLT+S R + C FYE + + L VY I L
Sbjct: 132 TLKQNGLVVDEVCRSLTASKARKYRYENPKVERCPFYENTEFLLVRDLLPAEVYDIEDLL 191
Query: 62 EMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 121
E+G+ LG CPYF +R+AI A +VV Y YLLDPKI +S EL S+V+FDEAHN+DN
Sbjct: 192 ELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIELK-DSIVIFDEAHNLDN 250
Query: 122 VCVDSLSVRINRRTIEKAVGNIQTLEGTLKEMKEADS 158
VC+ +LS ++RR++E+A NI+ +++++E D+
Sbjct: 251 VCISALSSELSRRSLERAHKNIKKYFERIEKIRENDA 287
Score = 171 bits (434), Expect = 2e-47
Identities = 65/157 (41%), Positives = 97/157 (61%), Gaps = 1/157 (0%)
Query: 657 SKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGVYSITKLK 716
+ +++G +VD C SLT+S R + C FYE + + L VY I L
Sbjct: 132 TLKQNGLVVDEVCRSLTASKARKYRYENPKVERCPFYENTEFLLVRDLLPAEVYDIEDLL 191
Query: 717 EMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDN 776
E+G+ LG CPYF +R+AI A +VV Y YLLDPKI +S EL S+V+FDEAHN+DN
Sbjct: 192 ELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIELK-DSIVIFDEAHNLDN 250
Query: 777 VCVDSLSVRINRRTIEKAVGNIQTLEGTLKEMKEADS 813
VC+ +LS ++RR++E+A NI+ +++++E D+
Sbjct: 251 VCISALSSELSRRSLERAHKNIKKYFERIEKIRENDA 287
Score = 130 bits (330), Expect = 1e-33
Identities = 60/155 (38%), Positives = 80/155 (51%), Gaps = 30/155 (19%)
Query: 431 LPVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDV 490
L +FPYE YP QY +M ELK+ LD +LE P+GTGKT SLL L + ++ + P +
Sbjct: 1 LLFYFPYEP-YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERI 59
Query: 491 --TKLLYCSRTVPEIEKVVEELARLFDYYIKHN-----------EEINMT-----GLVLS 532
KL+Y SRTV EIEK +EEL +L + E+ GL L+
Sbjct: 60 QKIKLIYLSRTVSEIEKRLEELRKLMQKVEYESDEESEKQAQLLHELGREKPKVLGLSLT 119
Query: 533 SRKNLCIHSEFETRDDISVIRNYGQ--LLVDIACV 565
SRKNLC++ E +R Q L+VD C
Sbjct: 120 SRKNLCLNPE---------VRTLKQNGLVVDEVCR 145
>gnl|CDD|219153 pfam06733, DEAD_2, DEAD_2. This represents a conserved region
within a number of RAD3-like DNA-binding helicases that
are seemingly ubiquitous - members include proteins of
eukaryotic, bacterial and archaeal origin. RAD3 is
involved in nucleotide excision repair, and forms part
of the transcription factor TFIIH in yeast.
Length = 168
Score = 132 bits (335), Expect = 1e-35
Identities = 53/138 (38%), Positives = 79/138 (57%), Gaps = 11/138 (7%)
Query: 655 SVSKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKF-DAVGREAPLAPGVYSIT 713
V K R G+ ++ +C L S R+ C FY D + L GVY I
Sbjct: 41 EVKKLRKGEDINEKCKELKRSGKRES---------CPFYNNLEDLKKLKDLLGNGVYDIE 91
Query: 714 KLKEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHN 773
L E G++LGLCPY+ +R+ + A I++ Y+YLLDPKI + L ++S+V+FDEAHN
Sbjct: 92 DLVEYGKKLGLCPYYSSREMLKDADIIILPYNYLLDPKIRESLKINL-KNSIVIFDEAHN 150
Query: 774 IDNVCVDSLSVRINRRTI 791
I++VC+ SLS I+ ++
Sbjct: 151 IEDVCISSLSFEISESSL 168
Score = 132 bits (335), Expect = 1e-35
Identities = 53/137 (38%), Positives = 79/137 (57%), Gaps = 11/137 (8%)
Query: 1 VSKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKF-DAVGREAPLAPGVYSITK 59
V K R G+ ++ +C L S R+ C FY D + L GVY I
Sbjct: 42 VKKLRKGEDINEKCKELKRSGKRES---------CPFYNNLEDLKKLKDLLGNGVYDIED 92
Query: 60 LKEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNI 119
L E G++LGLCPY+ +R+ + A I++ Y+YLLDPKI + L ++S+V+FDEAHNI
Sbjct: 93 LVEYGKKLGLCPYYSSREMLKDADIIILPYNYLLDPKIRESLKINL-KNSIVIFDEAHNI 151
Query: 120 DNVCVDSLSVRINRRTI 136
++VC+ SLS I+ ++
Sbjct: 152 EDVCISSLSFEISESSL 168
Score = 57.0 bits (138), Expect = 3e-09
Identities = 21/49 (42%), Positives = 30/49 (61%), Gaps = 7/49 (14%)
Query: 495 YCSRTVPEIEKVVEELARLFDYYIKHNEEINMTGLVLSSRKNLCIHSEF 543
YCSRT ++E+V+ EL +L Y + G++L SRKNLCI+ E
Sbjct: 1 YCSRTHSQLEQVIRELKKLGYYK-------KVRGVILGSRKNLCINPEV 42
>gnl|CDD|224120 COG1199, DinG, Rad3-related DNA helicases [Transcription / DNA
replication, recombination, and repair].
Length = 654
Score = 87.9 bits (218), Expect = 8e-18
Identities = 58/227 (25%), Positives = 87/227 (38%), Gaps = 11/227 (4%)
Query: 3 KERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGVYSI--TKL 60
+ G D SL ++ D D E + PL V + L
Sbjct: 115 LAQLGGDDDDYLQSLALKALADLLVWLTETKTGDLRE-LTPKALDDPLWTLVTDDKDSCL 173
Query: 61 KEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNID 120
E C YF AR+ +A +VV ++ LL L + VVVFDEAHN+
Sbjct: 174 GEDCPYYTECFYFPARKEAENADLVVTNHALLLADVALEESRILLPENDVVVFDEAHNLP 233
Query: 121 NVCVDSLSVRINRRTIEKAVGNIQTLEGTLKEMKEADSAKLREEYARLVEGLRDAQSARE 180
++ +LS+R++ RT+E+ + IQ L TL E D +L + RL + L D +
Sbjct: 234 DIARSALSIRLSERTLERLLKEIQALGETL----EKDLKRLEDLADRLEKALEDLRELLI 289
Query: 181 TDVVLA----NPVLPDEILQEVVPGNIRTAEHFVGFLKRFIEYLKTR 223
DV + +E + E + LK E L
Sbjct: 290 FDVDELGNLRERLREQLSSEEAKEALGKLEEALLEKLKNLSELLGLS 336
Score = 80.6 bits (199), Expect = 2e-15
Identities = 37/155 (23%), Positives = 55/155 (35%), Gaps = 8/155 (5%)
Query: 428 IDDLPVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHP 487
L V FP PEQ + +AL L+E P+GTGKT + L +AY
Sbjct: 4 DGYLAVAFPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEG 63
Query: 488 LDVTKLLYCSRTVPEIEKVVEELARLFDYYIKHNEEINMTGLVLSSRKNLCIHSEFETRD 547
K++ +RT E+++EE + K +L R N S E
Sbjct: 64 K---KVIISTRTKALQEQLLEEDLPIHKLLKKL----GGKFALLKGRSNYLCLSRLERLA 116
Query: 548 DISVIR-NYGQLLVDIACVVPDGVVCFFTSYLYLE 581
+ +Y Q L A + + E
Sbjct: 117 QLGGDDDDYLQSLALKALADLLVWLTETKTGDLRE 151
Score = 78.3 bits (193), Expect = 8e-15
Identities = 54/191 (28%), Positives = 79/191 (41%), Gaps = 7/191 (3%)
Query: 653 SRSVSKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVCDFYEKFDAVGREAPLAPGVYSI 712
SR + G D SL ++ D D E + PL V
Sbjct: 110 SRLERLAQLGGDDDDYLQSLALKALADLLVWLTETKTGDLRE-LTPKALDDPLWTLVTDD 168
Query: 713 --TKLKEMGRELGLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDE 770
+ L E C YF AR+ +A +VV ++ LL L + VVVFDE
Sbjct: 169 KDSCLGEDCPYYTECFYFPARKEAENADLVVTNHALLLADVALEESRILLPENDVVVFDE 228
Query: 771 AHNIDNVCVDSLSVRINRRTIEKAVGNIQTLEGTLKEMKEADSAKLREEYARLVEGLRDA 830
AHN+ ++ +LS+R++ RT+E+ + IQ L TL E D +L + RL + L D
Sbjct: 229 AHNLPDIARSALSIRLSERTLERLLKEIQALGETL----EKDLKRLEDLADRLEKALEDL 284
Query: 831 QSARETDVVLA 841
+ DV
Sbjct: 285 RELLIFDVDEL 295
Score = 49.4 bits (118), Expect = 8e-06
Identities = 29/110 (26%), Positives = 47/110 (42%), Gaps = 13/110 (11%)
Query: 361 CLDSSLAIKPVFDRFQTVVITSGTLSPLDMYPKILNFQPVIMHSFSMTLARPCLLPMVRE 420
L S ++ +F + +VV+TS TLSPLD + +L + ++L P
Sbjct: 389 LLVPSKLLEELFSKVASVVLTSATLSPLDSFSSLLGLLGLEEKLRFLSLPSP-------F 441
Query: 421 NYAMGLMIDDLPVFFP---YEYIYPEQYAYMVELKKALDAKGHCLLEMPS 467
NY +P P + + AY+ E+ KA + G L+ PS
Sbjct: 442 NYE-EQGQLYVPTDLPEPREPELLAKLAAYLREILKA--SPGGVLVLFPS 488
Score = 48.6 bits (116), Expect = 1e-05
Identities = 34/177 (19%), Positives = 53/177 (29%), Gaps = 44/177 (24%)
Query: 577 YLYLESVFETRDDISVIRNYGQLLVDIACVVPDGVVCFFTSYLYLESVVASWYDQGIIDN 636
LY+ + + ++ L +I P GV+ F SY YL+ V D+
Sbjct: 448 QLYVPTDLPEPREPELLAKLAAYLREILKASPGGVLVLFPSYEYLKRVAERLKDERS--- 504
Query: 637 LQKRKLLFIETQDALDSRSVSKERDGKIVDGRCHSLTSSSVRDRHKAGENIPVC----DF 692
L + TQ D R + ++ KA + F
Sbjct: 505 -----TLPVLTQGE-DEREE--------------------LLEKFKASGEGLILVGGGSF 538
Query: 693 YEKFDAVGREA--------PLA-PGVYSITKLKEMGRELGLCP--YFLARQAIIHAK 738
+E D G P P + E + LG P F A+I +
Sbjct: 539 WEGVDFPGDALRLVVIVGLPFPNPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLR 595
Score = 46.3 bits (110), Expect = 7e-05
Identities = 18/79 (22%), Positives = 28/79 (35%), Gaps = 7/79 (8%)
Query: 514 FDYYIKHNE-EINMTGLVLSSRKNLCIH------SEFETRDDISVIRNYGQLLVDIACVV 566
F + E + L L S N ++ + ++ L +I
Sbjct: 419 FSSLLGLLGLEEKLRFLSLPSPFNYEEQGQLYVPTDLPEPREPELLAKLAAYLREILKAS 478
Query: 567 PDGVVCFFTSYLYLESVFE 585
P GV+ F SY YL+ V E
Sbjct: 479 PGGVLVLFPSYEYLKRVAE 497
Score = 42.9 bits (101), Expect = 7e-04
Identities = 9/51 (17%), Positives = 20/51 (39%)
Query: 852 GKTDYGIMIFADKRFARSDKRSKLPKWIQEYLTDNLTNLSTEEAVQLSKRW 902
+ D G+++ DKR+A L + + N S + + ++
Sbjct: 604 SEDDRGVIVLLDKRYATKRYGKLLLDSLPPFPKSKDLNPSAIFLEREAFKF 654
>gnl|CDD|222037 pfam13307, Helicase_C_2, Helicase C-terminal domain. This domain
is the second of two tandem AAA domains found in a wide
variety of helicase enzymes.
Length = 165
Score = 44.9 bits (107), Expect = 3e-05
Identities = 12/53 (22%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 600 LVDIACVVPDGVVCFFTSYLYLESVVASWYDQGIIDNLQKRKLLFIETQDALD 652
++++ +P GV+ F SY LE V + L+K L ++ + + +
Sbjct: 1 ILELLEAIPGGVLVLFPSYSLLEQVAELLASEL----LEKGIELLVQGEGSRE 49
Score = 41.0 bits (97), Expect = 6e-04
Identities = 9/30 (30%), Positives = 14/30 (46%)
Query: 853 KTDYGIMIFADKRFARSDKRSKLPKWIQEY 882
+ DYG++I D+R L KW+
Sbjct: 136 EDDYGVVILLDERLLTRSYGKLLLKWLPPG 165
Score = 37.2 bits (87), Expect = 0.015
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 559 LVDIACVVPDGVVCFFTSYLYLESVFE 585
++++ +P GV+ F SY LE V E
Sbjct: 1 ILELLEAIPGGVLVLFPSYSLLEQVAE 27
>gnl|CDD|236966 PRK11747, dinG, ATP-dependent DNA helicase DinG; Provisional.
Length = 697
Score = 39.8 bits (94), Expect = 0.007
Identities = 38/188 (20%), Positives = 66/188 (35%), Gaps = 53/188 (28%)
Query: 70 CPYFLARQAIIHAKIVVYSYHYLL-------------DPKIANVVSKELARSSVVVFDEA 116
CP+F AR+ I A +VV + H L+ DP+ + + V DE
Sbjct: 208 CPFFKARREIDEADVVVAN-HDLVLADLELGGGVVLPDPE-----------NLLYVLDEG 255
Query: 117 HNIDNVCVD----SLSVRINRRTIEKAVGNIQTLEGTLKEMKEADSAKLREEYARLVEGL 172
H++ +V D S ++ +EK + + L + E A +L E L
Sbjct: 256 HHLPDVARDHFAASAELKGTADWLEKLLKLLTKLVALIMEPPLALPERL----NAHCEEL 311
Query: 173 RDAQS--ARETDVVL-----------ANPVLPDEILQEVVPGNIRTA-----EHFVGFLK 214
R+ + + ++ L LP+E+L+ + L
Sbjct: 312 RELLASLNQILNLFLPAGGEEARYRFEMGELPEELLELA--ERLAKLTEKLLGLLEKLLN 369
Query: 215 RFIEYLKT 222
E +KT
Sbjct: 370 DLSEAMKT 377
Score = 37.5 bits (88), Expect = 0.038
Identities = 34/157 (21%), Positives = 60/157 (38%), Gaps = 46/157 (29%)
Query: 725 CPYFLARQAIIHAKIVVYSYHYLL-------------DPKIANVVSKELARSSVVVFDEA 771
CP+F AR+ I A +VV + H L+ DP+ + + V DE
Sbjct: 208 CPFFKARREIDEADVVVAN-HDLVLADLELGGGVVLPDPE-----------NLLYVLDEG 255
Query: 772 HNIDNVCVD----SLSVRINRRTIEKAVGNIQTLEGTLKEMKEADSAKLREEYARLVEGL 827
H++ +V D S ++ +EK + + L + E A +L E L
Sbjct: 256 HHLPDVARDHFAASAELKGTADWLEKLLKLLTKLVALIMEPPLALPERL----NAHCEEL 311
Query: 828 RDAQS--ARETDVVL-----------ANPVLPDEILQ 851
R+ + + ++ L LP+E+L+
Sbjct: 312 RELLASLNQILNLFLPAGGEEARYRFEMGELPEELLE 348
>gnl|CDD|221912 pfam13086, AAA_11, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins.
Length = 220
Score = 36.6 bits (85), Expect = 0.039
Identities = 17/47 (36%), Positives = 29/47 (61%), Gaps = 2/47 (4%)
Query: 451 LKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCS 497
+KKAL + L++ P GTGKTT+++ +I ++ P K+L C+
Sbjct: 10 IKKALSSSDITLIQGPPGTGKTTTIVEIIKQLLSNAPG--KKVLVCA 54
>gnl|CDD|214694 smart00491, HELICc2, helicase superfamily c-terminal domain.
Length = 142
Score = 34.9 bits (81), Expect = 0.063
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 3/33 (9%)
Query: 618 YLYLESVVASWYDQGIIDNLQKRKLLFIETQDA 650
Y YLE VV W + GI L+ K +FIE +D+
Sbjct: 1 YRYLEQVVEYWKENGI---LEINKPVFIEGKDS 30
Score = 33.0 bits (76), Expect = 0.28
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 850 LQGKTDYGIMIFADKRFAR 868
++ K DYG+++ DKR+AR
Sbjct: 124 IRHKNDYGVVVLLDKRYAR 142
>gnl|CDD|238005 cd00046, DEXDc, DEAD-like helicases superfamily. A diverse family
of proteins involved in ATP-dependent RNA or DNA
unwinding. This domain contains the ATP-binding region.
Length = 144
Score = 34.2 bits (79), Expect = 0.098
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 460 HCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEELARLFDYYIK 519
LL P+G+GKT + L I+ +++ ++L + T +V E L LF IK
Sbjct: 2 DVLLAAPTGSGKTLAALLPILELLDSL--KGGQVLVLAPTRELANQVAERLKELFGEGIK 59
Score = 29.6 bits (67), Expect = 4.0
Identities = 17/79 (21%), Positives = 29/79 (36%), Gaps = 6/79 (7%)
Query: 68 GLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSL 127
G + IVV + LLD +S L + +++ DEAH + N
Sbjct: 66 GTSIKQQEKLLSGKTDIVVGTPGRLLDELERLKLS--LKKLDLLILDEAHRLLN----QG 119
Query: 128 SVRINRRTIEKAVGNIQTL 146
+ + + K + Q L
Sbjct: 120 FGLLGLKILLKLPKDRQVL 138
Score = 29.6 bits (67), Expect = 4.0
Identities = 17/79 (21%), Positives = 29/79 (36%), Gaps = 6/79 (7%)
Query: 723 GLCPYFLARQAIIHAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSL 782
G + IVV + LLD +S L + +++ DEAH + N
Sbjct: 66 GTSIKQQEKLLSGKTDIVVGTPGRLLDELERLKLS--LKKLDLLILDEAHRLLN----QG 119
Query: 783 SVRINRRTIEKAVGNIQTL 801
+ + + K + Q L
Sbjct: 120 FGLLGLKILLKLPKDRQVL 138
>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 34.4 bits (79), Expect = 0.16
Identities = 16/66 (24%), Positives = 27/66 (40%), Gaps = 2/66 (3%)
Query: 451 LKKALDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLLYCSRTVPEIEKVVEEL 510
++ L +L P+G+GKT + L+ A ++L T E+ EEL
Sbjct: 17 IEALLSGLRDVILAAPTGSGKTLAA--LLPALEALKRGKGGRVLVLVPTRELAEQWAEEL 74
Query: 511 ARLFDY 516
+L
Sbjct: 75 KKLGPS 80
Score = 29.8 bits (67), Expect = 5.1
Identities = 12/58 (20%), Positives = 25/58 (43%), Gaps = 2/58 (3%)
Query: 81 HAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEK 138
I+V + LLD + +S L+ +V+ DEAH + + ++ + +
Sbjct: 105 KTDILVTTPGRLLDLLENDKLS--LSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKN 160
Score = 29.8 bits (67), Expect = 5.1
Identities = 12/58 (20%), Positives = 25/58 (43%), Gaps = 2/58 (3%)
Query: 736 HAKIVVYSYHYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEK 793
I+V + LLD + +S L+ +V+ DEAH + + ++ + +
Sbjct: 105 KTDILVTTPGRLLDLLENDKLS--LSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKN 160
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 33.6 bits (78), Expect = 0.46
Identities = 15/30 (50%), Positives = 18/30 (60%), Gaps = 5/30 (16%)
Query: 452 KKALDAKGHCLLEMPSGTGKTTSLLSLIVA 481
+ALD H LL P G GKTT L+ I+A
Sbjct: 48 GEALD---HVLLYGPPGLGKTT--LANIIA 72
>gnl|CDD|233816 TIGR02302, aProt_lowcomp, TIGR02302 family protein. Members of
this family are long (~850 residue) bacterial proteins
from the alpha Proteobacteria. Each has 2-3 predicted
transmembrane helices near the N-terminus and a long
C-terminal region that includes stretches of
Gln/Gly-rich low complexity sequence, predicted by TMHMM
to be outside the membrane. In Bradyrhizobium japonicum,
two tandem reading frames are together homologous the
single members found in other species; the cutoffs
scores are set low enough that the longer scores above
the trusted cutoff and the shorter above the noise
cutoff for this model.
Length = 851
Score = 33.4 bits (76), Expect = 0.66
Identities = 39/167 (23%), Positives = 65/167 (38%), Gaps = 29/167 (17%)
Query: 745 HYLLDPKIANVVSKELARSSVVVFDEAHNIDNVCVDSLSVRINRRTIEKAVGNIQTLEGT 804
HYL I + E AR+ + D A N+ ++ + IE G++ E
Sbjct: 459 HYLGLYTIRTRL--ERARTDDALRDVADNLWSLAL----------GIED--GDLSDAERR 504
Query: 805 LKEMKEADSAKLR-----EEYARLVEGLRDA---------QSARETDVVLANPVLPDEIL 850
L+ ++A L EE +L + LR A Q R LA P+ P+ +
Sbjct: 505 LRAAQDALKDALERGASDEEIKQLTDKLRAAMQTYMRQLAQQLRNNPQQLARPLDPNTKV 564
Query: 851 QGKTDYGIMIFADKRFARSDKRSKLPKWIQEYLTDNLTNLSTEEAVQ 897
+ D M+ + ARS R + + + + L + NL + Q
Sbjct: 565 LRQQDLQNMMDQIENLARSGDRDQAKQLLSQ-LQQMMNNLQMGQPGQ 610
>gnl|CDD|163587 TIGR03875, RNA_lig_partner, RNA ligase partner, MJ_0950 family.
This uncharacterized protein family is found almost
perfectly in the same set of genomes as the Pab1020
family described by model TIGR01209. These pairs are
found mostly in Archaea, but also in a few bacteria
(e.g. Alkalilimnicola ehrlichei MLHE-1, Aquifex
aeolicus). While the partner protein has been described
as homodimeric ligase that has RNA circularization
activity, the function of this protein (also called
Upfam0278) is unknown.
Length = 206
Score = 31.9 bits (73), Expect = 1.1
Identities = 28/116 (24%), Positives = 50/116 (43%), Gaps = 17/116 (14%)
Query: 779 VDSLSVRINR--RTIEKAVGNIQTLEGTLKEMKEADS--------AKLREEYAR-LVEGL 827
++ + RI++ R E+ V + + E + KLRE+Y L +G+
Sbjct: 97 IEEVRERIDKGLRVAEEHV--REAALAGDEISAEHEKKEEVGKIIRKLREKYREALRKGI 154
Query: 828 RDAQSARETDVVLANPVLPDEILQGKTDYGIMIFADKRFARSDKRSKLPKWIQEYL 883
D SA + DV+L L ++ D GI +A++ R P+ ++E L
Sbjct: 155 LD--SAEDLDVLLLAKELDAAVVS--ADEGIRKWAERLGLRFVDARNFPEMLEELL 206
>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA
replication, recombination, and repair].
Length = 332
Score = 32.1 bits (74), Expect = 1.2
Identities = 15/29 (51%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 454 ALDAKGHCLLEMPSGTGKTTSLLSLIVAY 482
ALD H LL P G GKTT L+ I+A
Sbjct: 51 ALD---HVLLFGPPGLGKTT--LAHIIAN 74
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 32.4 bits (75), Expect = 1.4
Identities = 18/70 (25%), Positives = 31/70 (44%), Gaps = 10/70 (14%)
Query: 451 LKKALDAK--GHCLLEMPSGTGKTTSLLSLIVAYMNAH--PLDVTKLLYCSRTVPEIEKV 506
L++ ++A +L P GTGKTT L +I +A L + V ++ +V
Sbjct: 27 LRRMIEAGRLSSMILWGPPGTGKTT-LARIIAGATDAPFEALSAV-----TSGVKDLREV 80
Query: 507 VEELARLFDY 516
+EE +
Sbjct: 81 IEEARQRRSA 90
>gnl|CDD|215920 pfam00437, T2SE, Type II/IV secretion system protein. This family
contains both type II and type IV pathway secretion
proteins from bacteria. VirB11 ATPase is a subunit of
the Agrobacterium tumefaciens transfer DNA (T-DNA)
transfer system, a type IV secretion pathway required
for delivery of T-DNA and effector proteins to plant
cells during infection.
Length = 273
Score = 31.1 bits (71), Expect = 2.6
Identities = 19/69 (27%), Positives = 35/69 (50%), Gaps = 7/69 (10%)
Query: 418 VRENYAMGLMIDDLPVFFPYEYIYPEQYAYMVELKKALDAKGHCLLEMPSGTGKTTSLLS 477
+R+ + L +DDL + A L++A+ A+G+ L+ +G+GKTT L +
Sbjct: 95 IRKPSSRSLTLDDL-GMTG---AFDADIAEF--LRQAVQARGNILVSGGTGSGKTTLLYA 148
Query: 478 LIVAYMNAH 486
L+ +N
Sbjct: 149 LL-NEINTD 156
>gnl|CDD|177813 PLN02152, PLN02152, indole-3-acetate beta-glucosyltransferase.
Length = 455
Score = 31.2 bits (70), Expect = 3.0
Identities = 17/72 (23%), Positives = 33/72 (45%), Gaps = 7/72 (9%)
Query: 837 DVVLANPVLPDEILQGKTDYGIMIFADKRFARSDKRSKLPKWIQEYLTDNLTNLSTEEAV 896
++V P+LP EI G + K + D+ S W+ ++ +S V
Sbjct: 220 EMVAVGPLLPAEIFTGSE-------SGKDLSVRDQSSSYTLWLDSKTESSVIYVSFGTMV 272
Query: 897 QLSKRWLRQMAQ 908
+LSK+ + ++A+
Sbjct: 273 ELSKKQIEELAR 284
>gnl|CDD|117315 pfam08745, UPF0278, UPF0278 family. Members of this family are
uncharacterized proteins about 200 amino acids in
length.
Length = 206
Score = 30.4 bits (69), Expect = 3.6
Identities = 33/113 (29%), Positives = 55/113 (48%), Gaps = 14/113 (12%)
Query: 779 VDSLSVRINR--RTIEKAVGNIQTLEGTLKEMKEADS-----AKLREEYAR-LVEGLRDA 830
++ + RI++ R E+AV + T KE + +LRE+Y L +G+ D
Sbjct: 97 IEDVRERIDKGLRIAEEAV--REAALETYKEEIIREVVGKIIRRLREKYREALRQGILD- 153
Query: 831 QSARETDVVLANPVLPDEILQGKTDYGIMIFADKRFARSDKRSKLPKWIQEYL 883
SA + DV+L L ++ +D GI +A+K R S P+ ++EYL
Sbjct: 154 -SAEDLDVLLLAKELDAAVVA--SDEGIRKWAEKLGLRFVDASNFPEMLEEYL 203
>gnl|CDD|233759 TIGR02170, thyX, thymidylate synthase, flavin-dependent. Two forms
of microbial thymidylate synthase are known: ThyA
(2.1.1.45) and ThyX (2.1.1.148). This model describes
ThyX, a homotetrameric flavoprotein. Both enzymes
convert dUMP to dTMP. Under oxygen-limiting conditions,
thyX can complement a thyA mutation [Purines,
pyrimidines, nucleosides, and nucleotides,
2'-Deoxyribonucleotide metabolism].
Length = 209
Score = 30.4 bits (69), Expect = 3.7
Identities = 29/107 (27%), Positives = 41/107 (38%), Gaps = 18/107 (16%)
Query: 142 NIQTLEGTLKEMKEADSAKLREEYARLVEGLRD---AQSARETDVVLANPVLPDEILQE- 197
N L+ +E+ E A+ + Y E R A ARE A VLP+ +
Sbjct: 107 NDTNLDEKPEEVVEKAYAEAEDHYRASYELYRKLLEAGIARE----DARFVLPNALYTHI 162
Query: 198 VVPGNIRTAEHFVGFLKRF-------IEYLKTRLRVQQVVQESPATF 237
VV GN R+ HF+ R I L + V + +P F
Sbjct: 163 VVTGNARSLMHFLD--LRASNDAQWEIRELAEAML-DIVKEVAPWVF 206
>gnl|CDD|216004 pfam00580, UvrD-helicase, UvrD/REP helicase N-terminal domain. The
Rep family helicases are composed of four structural
domains. The Rep family function as dimers. REP
helicases catalyze ATP dependent unwinding of double
stranded DNA to single stranded DNA. Some members have
large insertions near to the carboxy-terminus relative
to other members of the family.
Length = 267
Score = 30.3 bits (69), Expect = 4.1
Identities = 10/37 (27%), Positives = 17/37 (45%)
Query: 458 KGHCLLEMPSGTGKTTSLLSLIVAYMNAHPLDVTKLL 494
G L+ +G+GKT L I + +D ++L
Sbjct: 13 GGPLLVLAGAGSGKTRVLTERIAYLILEGGIDPEEIL 49
>gnl|CDD|237525 PRK13830, PRK13830, conjugal transfer protein TrbE; Provisional.
Length = 818
Score = 30.6 bits (69), Expect = 5.0
Identities = 14/27 (51%), Positives = 20/27 (74%), Gaps = 1/27 (3%)
Query: 455 LDAKGHCLLEMPSGTGKTTSLLSLIVA 481
+D GH L+ P+G+GK+T LL+LI A
Sbjct: 453 VDDVGHTLIFGPTGSGKST-LLALIAA 478
>gnl|CDD|188151 TIGR01517, ATPase-IIB_Ca, plasma-membrane calcium-translocating
P-type ATPase. This model describes the P-type ATPase
responsible for translocating calcium ions across the
plasma membrane of eukaryotes , out of the cell. In some
organisms, this type of pump may also be found in
vacuolar membranes. In humans and mice, at least, there
are multiple isoforms of the PMCA pump with overlapping
but not redundant functions. Accordingly, there are no
human diseases linked to PMCA defects, although
alterations of PMCA function do elicit physiological
effects. The calcium P-type ATPases have been
characterized as Type IIB based on a phylogenetic
analysis which distinguishes this group from the Type
IIA SERCA calcium pump. A separate analysis divides Type
IIA into sub-types (SERCA and PMR1) which are modelled
by TIGR01116 and TIGR01522. This model is well separated
from those.
Length = 944
Score = 30.5 bits (69), Expect = 5.2
Identities = 20/75 (26%), Positives = 30/75 (40%), Gaps = 4/75 (5%)
Query: 865 RFARSDKRSKLPKWIQEYLTDNLTNLSTEEAVQLSKRWLRQMAQPFTREDMLGVALLSLD 924
RF D +PK ++ L + ++ S+ E V + T +L LL L
Sbjct: 405 RFNVRDVLRNVPKHVRNILVEGISLNSSSEEVVDRGGKRAFIGSK-TECALLDFGLLLLR 463
Query: 925 QLLEKEHARAEEEEV 939
E RAEE+ V
Sbjct: 464 DYQEV---RAEEKVV 475
>gnl|CDD|233582 TIGR01812, sdhA_frdA_Gneg, succinate dehydrogenase or fumarate
reductase, flavoprotein
subunitGram-negative/mitochondrial subgroup. This model
represents the succinate dehydrogenase flavoprotein
subunit as found in Gram-negative bacteria,
mitochondria, and some Archaea. Mitochondrial forms
interact with ubiquinone and are designated EC 1.3.5.1,
but can be degraded to 1.3.99.1. Some isozymes in E.
coli and other species run primarily in the opposite
direction and are designated fumarate reductase [Energy
metabolism, Aerobic, Energy metabolism, Anaerobic,
Energy metabolism, TCA cycle].
Length = 541
Score = 30.4 bits (69), Expect = 5.2
Identities = 41/176 (23%), Positives = 65/176 (36%), Gaps = 24/176 (13%)
Query: 162 REEYARLVEGLRDAQSARETDVVLANPVLPDEILQEVVPGNIRTAEHFVGFLKRFI---- 217
E +V+GL A V AN + + +L+ VV G I E + +
Sbjct: 327 ICETRSIVKGLFAAGECACVSVHGANRLGGNSLLELVVFGRI-AGEAAAEYAAKTGNPAA 385
Query: 218 ----EYLKTRLRVQQVVQESPATF-LKDISSKPAPSMISEAYRYIFSTEEHLKTRLRVQQ 272
E +K + ++ E + I + +M + IF TEE LK +
Sbjct: 386 DIEEEAVKAEEALIDLLVERNGGERVAKIREELGDTM--DDNVGIFRTEELLK------K 437
Query: 273 VVQESPATFLKDISSKVCIERKPLRFCAERLASLLRTLEITNLTDFSSLVVITHLA 328
V E L++ V I K F + LL LE+ N+ D + +V L
Sbjct: 438 AVDEIEE--LRERYKNVRINDKSKVFNTD----LLEALELGNMLDLAEVVAAGALN 487
>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 = 28.8 bits (65), Expect = 7.1
Identities = 13/34 (38%), Positives = 14/34 (41%)
Query: 455 LDAKGHCLLEMPSGTGKTTSLLSLIVAYMNAHPL 488
L G LL GTGK+T L L A P
Sbjct: 30 LPRGGLTLLAGAPGTGKSTLALDLAAAVATGRPF 63
>gnl|CDD|239862 cd04397, RhoGAP_fLRG1, RhoGAP_fLRG1: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
fungal LRG1-like proteins. Yeast Lrg1p is required for
efficient cell fusion, and mother-daughter cell
separation, possibly through acting as a RhoGAP
specifically regulating 1,3-beta-glucan synthesis. Small
GTPases cluster into distinct families, and all act as
molecular switches, active in their GTP-bound form but
inactive when GDP-bound. The Rho family of GTPases
activates effectors involved in a wide variety of
developmental processes, including regulation of
cytoskeleton formation, cell proliferation and the JNK
signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 213
Score = 29.3 bits (66), Expect = 8.9
Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 889 NLSTEEAVQLS---KRWLRQMAQPFTREDMLGVALLSLDQLLEKEHARA 934
+LS E VQL+ K++LR++ P + + + S E+E R
Sbjct: 74 DLSKENPVQLAALLKKFLRELPDPLLTFKLYRLWISSQKIEDEEERKRV 122
>gnl|CDD|227204 COG4867, COG4867, Uncharacterized protein with a von Willebrand
factor type A (vWA) domain [General function prediction
only].
Length = 652
Score = 29.6 bits (66), Expect = 9.6
Identities = 24/84 (28%), Positives = 37/84 (44%), Gaps = 3/84 (3%)
Query: 124 VDSLSVRINRRTIEKAVGNIQTLEGTLKEMKEADSAKLREEYARLVEGLRDAQSARETDV 183
D L+ +NRR E N L+GTL+E+K+ + E L L D E +
Sbjct: 64 ADRLAAEVNRRRRELLRRN--NLDGTLQEIKKLLDEAVLAERKELARALDDDARFAELQL 121
Query: 184 VLANPVLPDEILQEVVPGNIRTAE 207
A P P + +QE+ R+ +
Sbjct: 122 D-ALPESPAKAVQELAEYRWRSGQ 144
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
0.321 0.136 0.391
Gapped
Lambda K H
0.267 0.0745 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 48,705,472
Number of extensions: 4964915
Number of successful extensions: 5480
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5457
Number of HSP's successfully gapped: 77
Length of query: 941
Length of database: 10,937,602
Length adjustment: 106
Effective length of query: 835
Effective length of database: 6,236,078
Effective search space: 5207125130
Effective search space used: 5207125130
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 64 (28.4 bits)