RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4856
(654 letters)
>2wp8_J Exosome complex exonuclease DIS3; nucleus, hydrolase, RNA-binding,
exonucle binding, mitochondrion, rRNA processing; 3.00A
{Saccharomyces cerevisiae}
Length = 977
Score = 360 bits (926), Expect = e-112
Identities = 132/383 (34%), Positives = 203/383 (53%), Gaps = 41/383 (10%)
Query: 1 LKDLI--SNPSRKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHL-ES 57
L+ L S+ ++F VF NE T+VE+ P E++NDRNDRA+R+ WY EHL
Sbjct: 108 LRTLCRDSDDHKRFIVFHNEFSEHTFVERLPNETINDRNDRAIRKTCQWY---SEHLKPY 164
Query: 58 AVRVILLSEDVRNRDLA---TQSGLLTSSIEGYISTLSNGEPLLDKLSKKEAVVETSVKD 114
+ V+L++ D NR+ A +S ++T S+ YI L N + + D + + ++ + +D
Sbjct: 165 DINVVLVTNDRLNREAATKEVESNIITKSLVQYIELLPNADDIRDSIPQMDSFDKDLERD 224
Query: 115 S----LYPLHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLN 170
+ +P + + + + G+KN L QG+ Q S NFLEG V+ + KP+L+ G++ LN
Sbjct: 225 TFSDFTFPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLN 284
Query: 171 RAIDGDTVAVRLLPESQWSAPLELVLEDE-------------GSGEDEEGEDGKLIKGNK 217
RA +GD V V LLP+S+W AP +VL+ E ++ E + +K
Sbjct: 285 RAFNGDQVIVELLPQSEWKAPSSIVLDSEHFDVNDNPDIEAGDDDDNNESSSNTTVISDK 344
Query: 218 TV-----------PPAERRPTGQIVGIIKRKWRQYCGILQPNPLA----GSSRHLFVPAE 262
+ +PT ++V I +R WRQY G L P+ + + + +
Sbjct: 345 QRRLLAKDAMIAQRSKKIQPTAKVVYIQRRSWRQYVGQLAPSSVDPQSSSTQNVFVILMD 404
Query: 263 RKIPKIRVETRQIATLSGQRIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEH 322
+ +PK+R+ TR+ A L +RIV++IDSWP +YP GHFVR LG I E E LLLEH
Sbjct: 405 KCLPKVRIRTRRAAELLDKRIVISIDSWPTTHKYPLGHFVRDLGTIESAQAETEALLLEH 464
Query: 323 DVPHSKFSDLVLSYLPPMPWEKS 345
DV + FS VL LP +
Sbjct: 465 DVEYRPFSKKVLECLPAEGHDWK 487
Score = 118 bits (297), Expect = 1e-27
Identities = 35/70 (50%), Positives = 41/70 (58%)
Query: 404 QAVYFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDK 463
A YF SG DF HYGLA IYTHFTSPIRRY D++ HR LA IG + + DK
Sbjct: 791 AAQYFYSGAYSYPDFRHYGLAVDIYTHFTSPIRRYCDVVAHRQLAGAIGYEPLSLTHRDK 850
Query: 464 KASTALCYNL 473
+C N+
Sbjct: 851 NKMDMICRNI 860
Score = 117 bits (294), Expect = 2e-27
Identities = 40/136 (29%), Positives = 53/136 (38%), Gaps = 48/136 (35%)
Query: 476 DFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLPGC 535
DF HYGLA IYTHFTSPIRRY D++ HR LA IG + + DK
Sbjct: 804 DFRHYGLAVDIYTHFTSPIRRYCDVVAHRQLAGAIGYEPLSLTHRDKNK----------- 852
Query: 536 TDIDDALHCRPLPNGNIEVTYPSLGMSQSCKDIQACLLELGYNLNYRNRQAQYAGRASVA 595
+ + N+N ++R AQ+AGRAS+
Sbjct: 853 ------------------------------------MDMICRNINRKHRNAQFAGRASIE 876
Query: 596 LHTHLFFRRKSITEEE 611
+ R + E
Sbjct: 877 YYVGQVMRNN-ESTET 891
Score = 81.0 bits (200), Expect = 6e-16
Identities = 33/90 (36%), Positives = 45/90 (50%), Gaps = 9/90 (10%)
Query: 567 DIQACLLELGYNLNYRN------RQAQYAGRASVALHTHLFFRRKSITEEEVARRTDLRH 620
+ +A LLE +++ YR G T L + + +R DLR
Sbjct: 456 ETEALLLE--HDVEYRPFSKKVLECLPAEGH-DWKAPTKLDDPEAVSKDPLLTKRKDLRD 512
Query: 621 LDVCSVDPPGCTDIDDALHCRPLPNGNIEV 650
+CS+DPPGC DI+DALH + LPNGN EV
Sbjct: 513 KLICSIDPPGCVDINDALHAKKLPNGNWEV 542
Score = 48.2 bits (115), Expect = 8e-06
Identities = 16/22 (72%), Positives = 18/22 (81%)
Query: 533 PGCTDIDDALHCRPLPNGNIEV 554
PGC DI+DALH + LPNGN EV
Sbjct: 521 PGCVDINDALHAKKLPNGNWEV 542
>2vnu_D Exosome complex exonuclease RRP44; hydrolase-RNA complex, RNA
degradation, RNA-binding, RNA Pro; HET: 1PE; 2.30A
{Saccharomyces cerevisiae} SCOP: b.40.4.5 b.40.4.5
b.40.4.5 b.40.4.16
Length = 760
Score = 256 bits (657), Expect = 8e-76
Identities = 92/261 (35%), Positives = 135/261 (51%), Gaps = 28/261 (10%)
Query: 113 KDSLYPLHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLNRA 172
D +P + + + + G+KN L QG+ Q S NFLEG V+ + KP+L+ G++ LNRA
Sbjct: 10 SDFTFPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRA 69
Query: 173 IDGDTVAVRLLPESQWSAPLELVLEDEGSG-------------EDEEGEDGKLIKGNKTV 219
+GD V V LLP+S+W AP +VL+ E ++ E + +K
Sbjct: 70 FNGDQVIVELLPQSEWKAPSSIVLDSEHFDVNDNPDIEAGDDDDNNESSSNTTVISDKQR 129
Query: 220 -----------PPAERRPTGQIVGIIKRKWRQYCGILQPNPLA----GSSRHLFVPAERK 264
+ +PT ++V I +R WRQY G L P+ + + + ++
Sbjct: 130 RLLAKDAMIAQRSKKIQPTAKVVYIQRRSWRQYVGQLAPSSVDPQSSSTQNVFVILMDKC 189
Query: 265 IPKIRVETRQIATLSGQRIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEHDV 324
+PK+R+ TR+ A L +RIV++IDSWP +YP GHFVR LG I E E LLLEHDV
Sbjct: 190 LPKVRIRTRRAAELLDKRIVISIDSWPTTHKYPLGHFVRDLGTIESAQAETEALLLEHDV 249
Query: 325 PHSKFSDLVLSYLPPMPWEKS 345
+ FS VL LP +
Sbjct: 250 EYRPFSKKVLECLPAEGHDWK 270
Score = 118 bits (297), Expect = 7e-28
Identities = 35/70 (50%), Positives = 41/70 (58%)
Query: 404 QAVYFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDK 463
A YF SG DF HYGLA IYTHFTSPIRRY D++ HR LA IG + + DK
Sbjct: 574 AAQYFYSGAYSYPDFRHYGLAVDIYTHFTSPIRRYCDVVAHRQLAGAIGYEPLSLTHRDK 633
Query: 464 KASTALCYNL 473
+C N+
Sbjct: 634 NKMDMICRNI 643
Score = 117 bits (295), Expect = 2e-27
Identities = 40/136 (29%), Positives = 53/136 (38%), Gaps = 48/136 (35%)
Query: 476 DFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLPGC 535
DF HYGLA IYTHFTSPIRRY D++ HR LA IG + + DK
Sbjct: 587 DFRHYGLAVDIYTHFTSPIRRYCDVVAHRQLAGAIGYEPLSLTHRDKNK----------- 635
Query: 536 TDIDDALHCRPLPNGNIEVTYPSLGMSQSCKDIQACLLELGYNLNYRNRQAQYAGRASVA 595
+ + N+N ++R AQ+AGRAS+
Sbjct: 636 ------------------------------------MDMICRNINRKHRNAQFAGRASIE 659
Query: 596 LHTHLFFRRKSITEEE 611
+ R + E
Sbjct: 660 YYVGQVMRNN-ESTET 674
Score = 83.2 bits (206), Expect = 1e-16
Identities = 33/90 (36%), Positives = 45/90 (50%), Gaps = 9/90 (10%)
Query: 567 DIQACLLELGYNLNYRN------RQAQYAGRASVALHTHLFFRRKSITEEEVARRTDLRH 620
+ +A LLE +++ YR G T L + + +R DLR
Sbjct: 239 ETEALLLE--HDVEYRPFSKKVLECLPAEGH-DWKAPTKLDDPEAVSKDPLLTKRKDLRD 295
Query: 621 LDVCSVDPPGCTDIDDALHCRPLPNGNIEV 650
+CS+DPPGC DI+DALH + LPNGN EV
Sbjct: 296 KLICSIDPPGCVDINDALHAKKLPNGNWEV 325
Score = 49.3 bits (118), Expect = 4e-06
Identities = 16/22 (72%), Positives = 18/22 (81%)
Query: 533 PGCTDIDDALHCRPLPNGNIEV 554
PGC DI+DALH + LPNGN EV
Sbjct: 304 PGCVDINDALHAKKLPNGNWEV 325
>2r7d_A Ribonuclease II family protein; structural genomics, PSI-2,
structure initiative, northeast structural genomics
consort NESG; 1.80A {Deinococcus radiodurans R1} SCOP:
b.40.4.5 b.40.4.16 PDB: 2r7f_A
Length = 469
Score = 76.9 bits (190), Expect = 4e-15
Identities = 18/66 (27%), Positives = 32/66 (48%), Gaps = 7/66 (10%)
Query: 404 QAVYFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACI-GADATYPSLLD 462
+ + Q S H+G+ +Y TSP+RRY D++VH+ L A + G D ++
Sbjct: 317 RTRF------QPSPGPHHGMGLDLYAQATSPMRRYLDLVVHQQLRAFLAGRDPLSSKVMA 370
Query: 463 KKASTA 468
+ +
Sbjct: 371 AHIAES 376
Score = 76.6 bits (189), Expect = 6e-15
Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 477 FHHYGLATPIYTHFTSPIRRYADIIVHRLLAACI-GADATYPSLLDKKASTA 527
H+G+ +Y TSP+RRY D++VH+ L A + G D ++ + +
Sbjct: 325 GPHHGMGLDLYAQATSPMRRYLDLVVHQQLRAFLAGRDPLSSKVMAAHIAES 376
Score = 64.6 bits (158), Expect = 4e-11
Identities = 23/92 (25%), Positives = 34/92 (36%), Gaps = 6/92 (6%)
Query: 559 LGMSQSCKDIQACLLELGYNLNYRNRQAQYAGRASVALHTHLFFRRKSITEEEVARRTDL 618
L + ++ + A LL LG R A A A+ + + R DL
Sbjct: 31 LKLPETPEAAHALLLRLGVWDEARTPYADRLRAALNAVELPV------PDFDPAEERLDL 84
Query: 619 RHLDVCSVDPPGCTDIDDALHCRPLPNGNIEV 650
HL ++D G D DDA+ L G +
Sbjct: 85 THLPTFAIDDEGNQDPDDAVGVEDLGGGLTRL 116
Score = 41.5 bits (98), Expect = 7e-04
Identities = 11/73 (15%), Positives = 25/73 (34%), Gaps = 7/73 (9%)
Query: 274 QIATLSGQRIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLL---LEHDVPHSKFS 330
Q QR V + + R + +R L + + +LL + + ++
Sbjct: 3 QPELTPAQRTEVELLARGR---ADKSRVLRDLKLPETPEAAHALLLRLGVWDEART-PYA 58
Query: 331 DLVLSYLPPMPWE 343
D + + L +
Sbjct: 59 DRLRAALNAVELP 71
Score = 37.7 bits (88), Expect = 0.010
Identities = 7/22 (31%), Positives = 9/22 (40%)
Query: 533 PGCTDIDDALHCRPLPNGNIEV 554
G D DDA+ L G +
Sbjct: 95 EGNQDPDDAVGVEDLGGGLTRL 116
>2id0_A Exoribonuclease 2; RNAse, exonuclease, hydrolyase, mRNA decay, RNR
family, hydrolase; 2.35A {Escherichia coli} SCOP:
b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 PDB: 2ix0_A* 2ix1_A
Length = 644
Score = 74.9 bits (185), Expect = 3e-14
Identities = 24/214 (11%), Positives = 59/214 (27%), Gaps = 53/214 (24%)
Query: 131 KNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLNRAIDGDTVAVRLLPESQWSA 190
+G +A+ + F G + + K + + + + + GD + + E
Sbjct: 17 SQTPRAEGVVKATEKGF--GFLEVDA-QKSYFIPPPQ-MKKVMHGDRIIAVIHSE----- 67
Query: 191 PLELVLEDEGSGEDEEGEDGKLIKGNKTVPPAERRPTGQIVGIIKRKWRQYCGILQPNPL 250
+ R + + +++ ++ G +Q
Sbjct: 68 --------------------------------KERESAEPEELVEPFLTRFVGKVQG--- 92
Query: 251 AGSSRHLFV-PAERKIPK-IRVETRQIATL---SGQRIVVAIDSWP-RHSRYPQGHFVRA 304
+ L + P + I + G V + P + R +
Sbjct: 93 --KNDRLAIVPDHPLLKDAIPCRAARGLNHEFKEGDWAVAEMRRHPLKGDRSFYAELTQY 150
Query: 305 LGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLP 338
+ D V L H++ + D V + +
Sbjct: 151 ITFGDDHFVPWWVTLARHNLEK-EAPDGVATEML 183
Score = 73.7 bits (182), Expect = 8e-14
Identities = 18/32 (56%), Positives = 22/32 (68%)
Query: 420 HYGLATPIYTHFTSPIRRYADIIVHRLLAACI 451
H+GL Y +TSPIR+Y D+I HRLL A I
Sbjct: 484 HFGLGLEAYATWTSPIRKYGDMINHRLLKAVI 515
Score = 73.7 bits (182), Expect = 8e-14
Identities = 18/32 (56%), Positives = 22/32 (68%)
Query: 479 HYGLATPIYTHFTSPIRRYADIIVHRLLAACI 510
H+GL Y +TSPIR+Y D+I HRLL A I
Sbjct: 484 HFGLGLEAYATWTSPIRKYGDMINHRLLKAVI 515
Score = 50.6 bits (122), Expect = 1e-06
Identities = 14/43 (32%), Positives = 23/43 (53%)
Query: 609 EEEVARRTDLRHLDVCSVDPPGCTDIDDALHCRPLPNGNIEVT 651
+E R DL LD ++D D+DDAL + LP+ +++
Sbjct: 183 LDEGLVREDLTALDFVTIDSASTEDMDDALFAKALPDDKLQLI 225
Score = 33.7 bits (78), Expect = 0.24
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 537 DIDDALHCRPLPNGNIEVT 555
D+DDAL + LP+ +++
Sbjct: 207 DMDDALFAKALPDDKLQLI 225
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 61.2 bits (148), Expect = 1e-09
Identities = 64/411 (15%), Positives = 119/411 (28%), Gaps = 109/411 (26%)
Query: 249 PLA---GSSRHLF-VPAERKIPKIRVETRQIATLSGQRIVVAIDSWPRH-----SRYPQG 299
PL GS H+ VP +++ + L A D P ++ G
Sbjct: 8 PLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKF-LG 66
Query: 300 HFVRALGPIGDKDTENEVL--LLEH---------DVPHSKFSDLVLSYLPPMPWEKSTGR 348
+ + P ++VL L D+ H+ L L +
Sbjct: 67 YVSSLVEP-SKVGQFDQVLNLCLTEFENCYLEGNDI-HA----LAAKLLQENDTTLVKTK 120
Query: 349 PWCSG--TSIGLSQISTGVISVGLEQGFPSLLKPRTTFVFYDFPRTTRTNFILLFLF--Q 404
T+ +++ ++ S L F N L+ +F Q
Sbjct: 121 ELIKNYITARIMAKRP-------FDKKSNSAL----------FRAVGEGNAQLVAIFGGQ 163
Query: 405 ---AVYFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLL 461
YF L+ D + Y + +++ + L+ + A+ + L
Sbjct: 164 GNTDDYFEE--LR--DLYQ------TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL 213
Query: 462 D-----KKASTA-----LCYNLVS-------DFHHY-------GLATP--IYTHFTSPIR 495
+ + S L +S HY G TP + ++
Sbjct: 214 NILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGF-TPGELRSYLKGATG 272
Query: 496 RYADIIVHRLLAACIGADATYPSLLD--KKASTAL------CYNLPGCTDIDDALHCRPL 547
++ A I ++ S +KA T L CY T + ++ L
Sbjct: 273 HSQGLVT----AVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSL 328
Query: 548 PNGNIEVTYPSLGMSQSCKDI-QACLLELGYNLNYRNRQAQYAGRASVALH 597
N PS M S ++ Q + + +N N + ++L
Sbjct: 329 ENNE---GVPSP-ML-SISNLTQEQVQDY---VNKTNSHLPAGKQVEISLV 371
Score = 48.9 bits (116), Expect = 6e-06
Identities = 77/495 (15%), Positives = 138/495 (27%), Gaps = 179/495 (36%)
Query: 13 YVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHLESAVRVILLSEDVRNRD 72
Y+ N+ H + E ND + + Y A + R D
Sbjct: 95 YLEGNDIH--ALAAKLLQE--NDTTLVKTKELIKNY--IT-----ARIMAK-----RPFD 138
Query: 73 LATQSGLLTSSIEGYISTLS------NGEPLLDKLSK--------KEAVVETSVKDSLYP 118
+ S L + EG ++ N + ++L +++ S + +L
Sbjct: 139 KKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAE-TLSE 197
Query: 119 LHATPSEIH----AGIKNQSLLQGSFQASRENFLEG-----------Q-----VNCE--G 156
L T + G+ L+ +++L Q V + G
Sbjct: 198 LIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLG 257
Query: 157 YDKPIL---VQGREGLNRAI-------DGDT---------VAVRLL----PESQWSAPLE 193
+ L ++G G ++ + + D+ A+ +L + P
Sbjct: 258 FTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYP-N 316
Query: 194 LVLEDEGSGEDEEGEDGK-----LIKG-------------NKTVPPAERRPTGQIVGIIK 235
L + E +G I N +P ++ +I +
Sbjct: 317 TSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQ---VEISLVNG 373
Query: 236 RKWRQY--CGILQPNPLAGSSRHL---FVPAE---RKIP----KIRVETR--QIATLSGQ 281
+ G P L G + L P+ +IP K++ R +A+
Sbjct: 374 A--KNLVVSG--PPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVAS---- 425
Query: 282 RIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEHD--VP--HS-------KFS 330
P HS A I +N V D +P + S
Sbjct: 426 ---------PFHSHLLVP----ASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLS 472
Query: 331 DLVLSYLPPM----P--WEKST----------GRPWCSGTSIGLSQIS------TG--VI 366
+ + P WE +T G P G + GL ++ TG VI
Sbjct: 473 GSISERIVDCIIRLPVKWETTTQFKATHILDFG-P---GGASGLGVLTHRNKDGTGVRVI 528
Query: 367 SVGL-------EQGF 374
G + GF
Sbjct: 529 VAGTLDINPDDDYGF 543
Score = 40.0 bits (93), Expect = 0.003
Identities = 56/304 (18%), Positives = 91/304 (29%), Gaps = 119/304 (39%)
Query: 404 QAVYFSSGM--------------LQQSDFH---HYGLA---------TPIYTHFTSP--- 434
Q GM ++D H YG + + HF
Sbjct: 1627 QEQ----GMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGK 1682
Query: 435 -IR-RYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLVSDFHHYGLATPIYTHFTS 492
IR Y+ +I ++ + + + + + ST+ + GL + T FT
Sbjct: 1683 RIRENYSAMIFETIVDGKLKTEKIFKEINEH--STSYTFR-----SEKGLLS--ATQFTQ 1733
Query: 493 P---IRRYADIIVHRLLAA--CIGADATYPSLLDKKA--S----TALCYNLPGCTDIDDA 541
P + A L + I ADAT+ A S AL L I+
Sbjct: 1734 PALTLMEKA---AFEDLKSKGLIPADATF-------AGHSLGEYAALAS-LADVMSIESL 1782
Query: 542 ---LHCR------PLPNGNIEVTYPSLGM-----------------SQSCKDIQA---CL 572
+ R +P E+ + GM + + L
Sbjct: 1783 VEVVFYRGMTMQVAVPRD--ELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWL 1840
Query: 573 LELGYNLNYRNRQAQY--AGRASVALHTHL-----FFRRKSITEEEVARRTDLRHLDVC- 624
+E+ N N N+ QY AG AL T + F + + I D+ L
Sbjct: 1841 VEIV-NYNVENQ--QYVAAGDL-RALDT-VTNVLNFIKLQKI---------DIIELQKSL 1886
Query: 625 SVDP 628
S++
Sbjct: 1887 SLEE 1890
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 51.4 bits (122), Expect = 8e-07
Identities = 95/652 (14%), Positives = 174/652 (26%), Gaps = 202/652 (30%)
Query: 4 LISNPSRKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHLESAVRVIL 63
L+S FV E Y +
Sbjct: 71 LLSKQEEMVQKFVEEVLRINY---------------------KF---------------- 93
Query: 64 LSEDVRNRDLATQSGLLTSSIEGYISTLSNGEPLLDKL--SKKEAVVETSVKDSLYPLHA 121
L ++ Q ++T L N + K S+ + ++ ++ +L L
Sbjct: 94 LMSPIKTEQR--QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK--LRQALLEL-- 147
Query: 122 TPSE---IH--AGIKNQSL-LQGSFQASRENFLEGQV------NCEGYDKPILVQGREGL 169
P++ I G + L + ++ ++ NC + + + + L
Sbjct: 148 RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML--QKL 205
Query: 170 NRAIDGDTVAVRLLPESQWSAPLELVLEDEGSGEDEEGEDGKLIKGNKTVPPAERRPTGQ 229
ID + + + + L + + E +L+
Sbjct: 206 LYQIDPNWTS---RSDHSSNIKLRI--------HSIQAELRRLL---------------- 238
Query: 230 IVGIIKRKWRQYCGILQPNPL-----AGSSRHL--FVPAERKIP-KIRVETRQIATLSGQ 281
K + Y N L +++ F + KI + TR
Sbjct: 239 -------KSKPY-----ENCLLVLLNVQNAKAWNAF-----NLSCKILLTTRFKQ----- 276
Query: 282 RIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLL------EHDVPHS--KFSDLV 333
V S + H L P E + LLL D+P +
Sbjct: 277 --VTDFLSAATTTHISLDHHSMTLTP-----DEVKSLLLKYLDCRPQDLPREVLTTNPRR 329
Query: 334 LSYLP------PMPWEKSTGRPWCSGTSIGLSQISTGVISVGLEQGFPSLLKPRTTFVFY 387
LS + W+ W + +++T +I L P+ + F
Sbjct: 330 LSIIAESIRDGLATWD-----NW---KHVNCDKLTT-IIESSLNVLEPAEYRKM----FD 376
Query: 388 D---FPRTTR-TNFILLFLFQAVYFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIV 443
FP + +L ++ V S M+ + H Y L + I +
Sbjct: 377 RLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL---VEKQPKESTISIPSIYL 433
Query: 444 HRLLAACIGADATYPSLLDKKASTALCYNLVSDFHHYGLATP-----IYTHF-------- 490
L A + S++D YN+ F L P Y+H
Sbjct: 434 -ELKVKLENEYALHRSIVDH-------YNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE 485
Query: 491 ----TSPIRR-YADI------IVHRLLAACIGADATYPSLLD-KKASTALCYNLPGCTD- 537
+ R + D I H A +L K +C N P
Sbjct: 486 HPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSIL-NTLQQLKFYKPYICDNDPKYERL 544
Query: 538 IDDALHCRPLPNGNIEVTYPSLGMSQSCKDI-QACLL-ELGYNLNYRNRQAQ 587
++ L P N+ + D+ + L+ E ++Q Q
Sbjct: 545 VNAILDFLPKIEENL-ICSK-------YTDLLRIALMAEDEAIFEEAHKQVQ 588
Score = 42.9 bits (100), Expect = 4e-04
Identities = 67/430 (15%), Positives = 129/430 (30%), Gaps = 142/430 (33%)
Query: 2 KDLISNPSRKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHLESAVRV 61
+ ++ + Y + ++ LRR+ YE L +
Sbjct: 196 ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE-LRRLLKSK-PYENCL-----L 248
Query: 62 ILLSEDVRNR------DLATQSGLLTSSIEGYISTLSNG-------EPLLDKLSKKEA-- 106
+L +V+N +L+ + LLT+ + LS + L+ E
Sbjct: 249 VL--LNVQNAKAWNAFNLSCKI-LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
Query: 107 ----VVETSVKD------SLYPLHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEG 156
++ +D + P S I I++ A+ +N+ VNC
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRL--SIIAESIRD-------GLATWDNWK--HVNC-- 352
Query: 157 YDKPILVQGREGLNRAIDG-----DTVAVR-------LLPESQWSAPLELVLE---DEGS 201
DK L I+ + R + P S P +L +
Sbjct: 353 -DK---------LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAH-IPTI-LLSLIWFDVI 400
Query: 202 GEDEEGEDGKLIKGNKTVPPAERRPTGQIVGI------IKRK-----------------W 238
D KL K ++ E++P + I +K K
Sbjct: 401 KSDVMVVVNKLHK--YSL--VEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIP 456
Query: 239 RQYCGI-LQPNPLAG-----SSRHLFV--PAERK--IPKIRVETRQIATLSGQRIVVAID 288
+ + L P L HL ER + ++ R + Q+I
Sbjct: 457 KTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFL----EQKIRHDST 512
Query: 289 SWPRHS---------RYPQGHFVRALGPIGDKDTENEVLL---------LEHDVPHSKFS 330
+W ++ + + I D D + E L+ +E ++ SK++
Sbjct: 513 AWNASGSILNTLQQLKFYKPY-------ICDNDPKYERLVNAILDFLPKIEENLICSKYT 565
Query: 331 DLV-LSYLPP 339
DL+ ++ +
Sbjct: 566 DLLRIALMAE 575
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 34.4 bits (78), Expect = 0.066
Identities = 13/92 (14%), Positives = 25/92 (27%), Gaps = 39/92 (42%)
Query: 5 ISNPSRKFYVFVNEHHYETYVEQEPGESV-------------NDRNDR---------ALR 42
I+ R + QEP ES+ D + A +
Sbjct: 74 IAQADR--------------LTQEP-ESIRKWREEQRKRLQELDAASKVMEQEWREKAKK 118
Query: 43 RVATWYVKYEEHLESAVRVILLSED--VRNRD 72
+ W + E +E +++ + D
Sbjct: 119 DLEEWNQRQSEQVEKNKINNRIADKAFYQQPD 150
>2dok_A Telomerase-binding protein EST1A; telomerase-associated protein,
unknown function; 1.80A {Homo sapiens} PDB: 2hww_A
2hwx_A
Length = 186
Score = 33.9 bits (77), Expect = 0.088
Identities = 15/98 (15%), Positives = 26/98 (26%), Gaps = 10/98 (10%)
Query: 7 NPSRKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVK----------YEEHLE 56
+ + E ND + Y K EE +
Sbjct: 89 DSCLRALTSRGNELESIAFRSEDITGQLGNNDDLILSCCLHYCKDKAKDFMPASKEEPIR 148
Query: 57 SAVRVILLSEDVRNRDLATQSGLLTSSIEGYISTLSNG 94
V+LL++D R A + I +++ G
Sbjct: 149 LLREVVLLTDDRNLRVKALTRNVPVRDIPAFLTWAQVG 186
>3icg_A Endoglucanase D; cellulase, xylanase, carbohydrate binding DOM
glucanase, carbohydrate metabolism, cellulose
degradation, glycosidase; HET: BTB; 2.10A {Clostridium
cellulovorans}
Length = 515
Score = 29.1 bits (64), Expect = 4.8
Identities = 11/49 (22%), Positives = 21/49 (42%), Gaps = 2/49 (4%)
Query: 9 SRKFYVFVNEHHYETYVEQEPG--ESVNDRNDRALRRVATWYVKYEEHL 55
YV +N HH +++ V + + ++A + KY +HL
Sbjct: 97 DNDMYVIINLHHENEWLKPFYANEAQVKAQLTKVWTQIANNFKKYGDHL 145
>1miu_A BRCA2, breast cancer type 2 susceptibility protein; tumor
suppressor, breast cancer susceptibility, DNA-binding;
3.10A {Mus musculus} SCOP: a.170.1.1 a.171.1.1 b.40.4.3
b.40.4.3 b.40.4.3 PDB: 1iyj_B 1mje_A
Length = 738
Score = 28.7 bits (63), Expect = 7.4
Identities = 18/173 (10%), Positives = 49/173 (28%), Gaps = 8/173 (4%)
Query: 24 YVEQEPGESVNDRNDRA-LRRVATWYVKYEEHLESAVRVILLSEDVRNRDLATQSGLLTS 82
+VE+ R++R + + ++ LE+ + D + L +
Sbjct: 374 WVEKTVSGLYIFRSEREEEKEALRFAEAQQKKLEALFTKVHTEFKDHEEDTTQRCVLSRT 433
Query: 83 SIEGYISTLSNGEPLLDKLSKKEAVVETSVKDSLYPLHATPSEIHAGIKNQSLLQGSFQA 142
+ L +G L + + + + ++ A + +L QA
Sbjct: 434 LTRQQVHALQDGAELYAAV-------QYASDPDHLEACFSEEQLRALNNYRQMLNDKKQA 486
Query: 143 SRENFLEGQVNCEGYDKPILVQGREGLNRAIDGDTVAVRLLPESQWSAPLELV 195
++ + ++ + + + S W +L
Sbjct: 487 RIQSEFRKALESAEKEEGLSRDVTTVWKLRVTSYKKKEKSALLSIWRPSSDLS 539
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.319 0.137 0.414
Gapped
Lambda K H
0.267 0.0501 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 10,319,874
Number of extensions: 637403
Number of successful extensions: 1070
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1048
Number of HSP's successfully gapped: 34
Length of query: 654
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 554
Effective length of database: 3,909,693
Effective search space: 2165969922
Effective search space used: 2165969922
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 60 (27.4 bits)