RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8383
(421 letters)
>1zvd_A SMAD ubiquitination regulatory factor 2; ubiquitin ligasecatalytic
mechanism,X-RAY ligase; 2.10A {Homo sapiens}
Length = 380
Score = 504 bits (1301), Expect = e-179
Identities = 235/346 (67%), Positives = 272/346 (78%), Gaps = 25/346 (7%)
Query: 50 RLIMKMRPKEMRKRLMVKFRAEEGLDYGGVAREWLYLLSHEMLNPQYGLFQYSREDNYTL 109
R +MKMRPK++ KRLM+KFR EEGLDYGGVAREWLYLLSHEMLNP YGLFQYSR+D YTL
Sbjct: 40 RQVMKMRPKDLWKRLMIKFRGEEGLDYGGVAREWLYLLSHEMLNPYYGLFQYSRDDIYTL 99
Query: 110 QINPDSGVNPEHLSYFHFAGRIIGIAVFHGHYIDGGFTTPFYKISRVTTPFYKMLLNKPI 169
QINPDS VNPEHLSYFHF GRI+G+AVFHGHYIDGGFT PFYK LL K I
Sbjct: 100 QINPDSAVNPEHLSYFHFVGRIMGMAVFHGHYIDGGFTLPFYK----------QLLGKSI 149
Query: 170 TLEDIEGVDPELHRSLTWILENTLSNDVLDTTFAVEVNSFGVLKVHELKGGGKDIQVTED 229
TL+D+E VDP+LH SL WILEN ++ VLD TF VE N++G + HELK GK I V E+
Sbjct: 150 TLDDMELVDPDLHNSLVWILENDIT-GVLDHTFCVEHNAYGEIIQHELKPNGKSIPVNEE 208
Query: 230 NKKEYVRLYVNWRFMRGIEQQFLALQKGFTEIVPIHLLRPFDERELELVIGGLTSIDIHD 289
NKKEYVRLYVNWRF+RGIE QFLALQKGF E++P HLL+ FDE+ELEL+I GL ID++D
Sbjct: 209 NKKEYVRLYVNWRFLRGIEAQFLALQKGFNEVIPQHLLKTFDEKELELIICGLGKIDVND 268
Query: 290 WKQHTRLKHCTSDTPVVKWFWQIVESYSEEMRARLLQCSTG--------------AAGPR 335
WK +TRLKHCT D+ +VKWFW+ VE + EE RARLLQ TG AAGPR
Sbjct: 269 WKVNTRLKHCTPDSNIVKWFWKAVEFFDEERRARLLQFVTGSSRVPLQGFKALQGAAGPR 328
Query: 336 LFTIHATDSPSDNLPKAHTCFNRIDLPNYDSYQKLYDKLSQAVEET 381
LFTIH D+ ++NLPKAHTCFNRID+P Y+SY+KLY+KL A+EET
Sbjct: 329 LFTIHQIDACTNNLPKAHTCFNRIDIPPYESYEKLYEKLLTAIEET 374
>3h1d_A E3 ubiquitin-protein ligase HUWE1; E3ligase, HECT, LOBE,
alternative splicing, chromosomal rearrangement,
cytoplasm, differentiation; 1.89A {Homo sapiens} PDB:
3g1n_A
Length = 405
Score = 502 bits (1294), Expect = e-178
Identities = 142/346 (41%), Positives = 194/346 (56%), Gaps = 24/346 (6%)
Query: 50 RLIMKMRPKEMRKRLMVKFRAEEGLDYGGVAREWLYLLSHEMLNPQYGLFQYSREDNYTL 109
R + + P+EM+ RL + F EEG D GG+ REW ++S EM NP Y LF+ S D T
Sbjct: 63 RELHRKSPEEMKNRLYIVFEGEEGQDAGGLLREWYMIISREMFNPMYALFRTSPGDRVTY 122
Query: 110 QINPDSGVNPEHLSYFHFAGRIIGIAVFHGHYIDGGFTTPFYKISRVTTPFYKMLLNKPI 169
INP S NP HLSYF F GRI+ AV+ ++ FT FYK +L K +
Sbjct: 123 TINPSSHANPNHLSYFKFVGRIVAKAVYDNRLLECYFTRSFYK----------HILGKSV 172
Query: 170 TLEDIEGVDPELHRSLTWILENTLSNDVLDTTFAVEVNSFGVLKVHELKGGGKDIQVTED 229
D+E D ++ L ++LEN +S D TF+ EV FGV +V +LK G +I VTE+
Sbjct: 173 RYTDMESEDYHFYQGLVYLLENDVSTLGYDLTFSTEVQEFGVAEVRDLKPNGANILVTEE 232
Query: 230 NKKEYVRLYVNWRFMRGIEQQFLALQKGFTEIVPIHLLRPFDERELELVIGGLTSIDIHD 289
NKKEYV L R I +Q A +GF EI+P L+ F E+ELEL+I GL +IDI D
Sbjct: 233 NKKEYVHLVCQMRMTGAIRKQLAAFLEGFYEIIPKRLISIFTEQELELLISGLPTIDIDD 292
Query: 290 WKQHTRLKHCTSDTPVVKWFWQIVESYSEEMRARLLQ----CS----------TGAAGPR 335
K +T S++ ++WFW+ + S+ + RA+ LQ S G G +
Sbjct: 293 LKSNTEYHKYQSNSIQIQWFWRALRSFDQADRAKFLQFVTGTSKVPLQGFAALEGMNGIQ 352
Query: 336 LFTIHATDSPSDNLPKAHTCFNRIDLPNYDSYQKLYDKLSQAVEET 381
F IH D +D LP AHTCFN++DLP Y+S++KL L A++E
Sbjct: 353 KFQIHRDDRSTDRLPSAHTCFNQLDLPAYESFEKLRHMLLLAIQEA 398
>3olm_A E3 ubiquitin-protein ligase RSP5; ligase; 2.50A {Saccharomyces
cerevisiae}
Length = 429
Score = 491 bits (1265), Expect = e-173
Identities = 168/346 (48%), Positives = 226/346 (65%), Gaps = 26/346 (7%)
Query: 50 RLIMKMRPKEMRKRLMVKFRAEEGLDYGGVAREWLYLLSHEMLNPQYGLFQYSREDNYTL 109
+ IM+ P++++KRLM+KF EEGLDYGGV+RE+ +LLSHEM NP Y LF+YS DNYT+
Sbjct: 90 QEIMRQTPEDLKKRLMIKFDGEEGLDYGGVSREFFFLLSHEMFNPFYCLFEYSAYDNYTI 149
Query: 110 QINPDSGVNPEHLSYFHFAGRIIGIAVFHGHYIDGGFTTPFYKISRVTTPFYKMLLNKPI 169
QINP+SG+NPEHL+YF F GR++G+ VFH ++D F YK M+L K +
Sbjct: 150 QINPNSGINPEHLNYFKFIGRVVGLGVFHRRFLDAFFVGALYK----------MMLRKKV 199
Query: 170 TLEDIEGVDPELHRSLTWILENTLSNDVLDTTFAVEVNSFGVLKVHELKGGGKDIQVTED 229
L+D+EGVD E++ SL W+LEN++ VLD TF+ + FG + +LK G++I+VT+
Sbjct: 200 VLQDMEGVDAEVYNSLNWMLENSID-GVLDLTFSADDERFGEVVTVDLKPDGRNIEVTDG 258
Query: 230 NKKEYVRLYVNWRFMRGIEQQFLALQKGFTEIVPIHLLRPFDERELELVIGGLTSIDIHD 289
NKKEYV LY WR + +++QF A GF E++P L+ FDERELEL+IGG+ IDI D
Sbjct: 259 NKKEYVELYTQWRIVDRVQEQFKAFMDGFNELIPEDLVTVFDERELELLIGGIAEIDIED 318
Query: 290 WKQHTRLKHCTSDTPVVKWFWQIVESYSEEMRARLLQCSTG--------------AAGPR 335
WK+HT + V++WFW+ V + E RARLLQ +TG + GPR
Sbjct: 319 WKKHTDYRGYQESDEVIQWFWKCVSEWDNEQRARLLQFTTGTSRIPVNGFKDLQGSDGPR 378
Query: 336 LFTIHATDSPSDNLPKAHTCFNRIDLPNYDSYQKLYDKLSQAVEET 381
FTI LPK+HTCFNR+DLP Y Y + KL+ AVEET
Sbjct: 379 RFTIEKAGEV-QQLPKSHTCFNRVDLPQYVDYDSMKQKLTLAVEET 423
>1nd7_A WW domain-containing protein 1; HECT, ubiquitin, ligase, WWP1;
2.10A {Homo sapiens} SCOP: d.148.1.1 PDB: 3tug_A
Length = 374
Score = 488 bits (1258), Expect = e-173
Identities = 157/346 (45%), Positives = 226/346 (65%), Gaps = 25/346 (7%)
Query: 50 RLIMKMRPKEMRKRLMVKFRAEEGLDYGGVAREWLYLLSHEMLNPQYGLFQYSREDNYTL 109
+ IM ++P ++R+RL V FR EEGLDYGG+AREW +LLSHE+LNP Y LF+Y+ ++NY L
Sbjct: 39 QQIMALKPYDLRRRLYVIFRGEEGLDYGGLAREWFFLLSHEVLNPMYCLFEYAGKNNYCL 98
Query: 110 QINPDSGVNPEHLSYFHFAGRIIGIAVFHGHYIDGGFTTPFYKISRVTTPFYKMLLNKPI 169
QINP S +NP+HLSYF F GR I +A+FHG +ID GF+ PFYK +L+K +
Sbjct: 99 QINPASTINPDHLSYFCFIGRFIAMALFHGKFIDTGFSLPFYK----------RMLSKKL 148
Query: 170 TLEDIEGVDPELHRSLTWILENTLSNDVLDTTFAVEVNSFGVLKVHELKGGGKDIQVTED 229
T++D+E +D E + SL WI +N + L+ F+V++ G + H+LK GG +I VTE+
Sbjct: 149 TIKDLESIDTEFYNSLIWIRDNNIEECGLEMYFSVDMEILGKVTSHDLKLGGSNILVTEE 208
Query: 230 NKKEYVRLYVNWRFMRGIEQQFLALQKGFTEIVPIHLLRPFDERELELVIGGLTSIDIHD 289
NK EY+ L WRF RG+++Q A GF E+VP+ L+ FDE+ELE+++ G+ +D+ D
Sbjct: 209 NKDEYIGLMTEWRFSRGVQEQTKAFLDGFNEVVPLQWLQYFDEKELEVMLCGMQEVDLAD 268
Query: 290 WKQHTRLKHCTSDTPVVKWFWQIVESYSEEMRARLLQ----CS----------TGAAGPR 335
W+++T +H T ++ + WFWQ V+ E+R RLLQ G+ GP+
Sbjct: 269 WQRNTVYRHYTRNSKQIIWFWQFVKETDNEVRMRLLQFVTGTCRLPLGGFAELMGSNGPQ 328
Query: 336 LFTIHATDSPSDNLPKAHTCFNRIDLPNYDSYQKLYDKLSQAVEET 381
F I LP++HTCFNR+DLP Y SY++L +KL A+EET
Sbjct: 329 KFCIEKVGKD-TWLPRSHTCFNRLDLPPYKSYEQLKEKLLFAIEET 373
>2oni_A E3 ubiquitin-protein ligase NEDD4-like protein; alpha and beta
protein (A + B), E3 ligase, HECT domain, UBL-
conjugation pathway; HET: MSE; 2.20A {Homo sapiens} PDB:
3jvz_C 3jw0_C 2xbf_A 2xbb_A
Length = 392
Score = 480 bits (1237), Expect = e-170
Identities = 166/349 (47%), Positives = 227/349 (65%), Gaps = 29/349 (8%)
Query: 47 TFERLIMKMRPKEMRKRLMVKFRAEEGLDYGGVAREWLYLLSHEMLNPQYGLFQYSREDN 106
++ R++ RP ++ RL ++F +E+GLDYGGVAREW +LLS EM NP YGLF+YS DN
Sbjct: 56 SYRRIMSVKRPDVLKARLWIEFESEKGLDYGGVAREWFFLLSKEMFNPYYGLFEYSATDN 115
Query: 107 YTLQINPDSG-VNPEHLSYFHFAGRIIGIAVFHGHYIDGGFTTPFYKISRVTTPFYKMLL 165
YTLQINP+SG N +HLSYF F GR+ G+AVFHG +DG F PFYK M+L
Sbjct: 116 YTLQINPNSGLCNEDHLSYFTFIGRVAGLAVFHGKLLDGFFIRPFYK----------MML 165
Query: 166 NKPITLEDIEGVDPELHRSLTWILENTLSNDVLDTTFAVEVNSFGVLKVHELKGGGKDIQ 225
K ITL D+E VD E + SL WILEN + LD F ++ +FG +LK G +I
Sbjct: 166 GKQITLNDMESVDSEYYNSLKWILENDPTE--LDLMFCIDEENFGQTYQVDLKPNGSEIM 223
Query: 226 VTEDNKKEYVRLYVNWRFMRGIEQQFLALQKGFTEIVPIHLLRPFDERELELVIGGLTSI 285
VT +NK+EY+ L + WRF+ +++Q A +GFTE++PI L++ FDE ELEL++ GL +
Sbjct: 224 VTNENKREYIDLVIQWRFVNRVQKQMNAFLEGFTELLPIDLIKIFDENELELLMCGLGDV 283
Query: 286 DIHDWKQHTRLKHC-TSDTPVVKWFWQIVESYSEEMRARLLQ----CS----------TG 330
D++DW+QH+ K+ + PV++WFW+ V E R RLLQ S G
Sbjct: 284 DVNDWRQHSIYKNGYCPNHPVIQWFWKAVLLMDAEKRIRLLQFVTGTSRVPMNGFAELYG 343
Query: 331 AAGPRLFTIHATDSPSDNLPKAHTCFNRIDLPNYDSYQKLYDKLSQAVE 379
+ GP+LFTI SP + LP+AHTCFNR+DLP Y++++ L +KL AVE
Sbjct: 344 SNGPQLFTIEQWGSP-EKLPRAHTCFNRLDLPPYETFEDLREKLLMAVE 391
>1c4z_A E6AP, ubiquitin-protein ligase E3A; bilobal structure, elongated
shape, E3 ubiquitin ligase, E2 ubiquitin conjugating
enzyme; 2.60A {Homo sapiens} SCOP: d.148.1.1 PDB: 1d5f_A
Length = 358
Score = 441 bits (1136), Expect = e-155
Identities = 101/343 (29%), Positives = 175/343 (51%), Gaps = 25/343 (7%)
Query: 50 RLIMKMRPKEMRKRLMVKFRAEEGLDYGGVAREWLYLLSHEMLNPQYGLFQYSREDNYTL 109
+I P +++K+L V+F E+G+D GGV++E+ L+ E+ NP G+F Y E
Sbjct: 24 EMIAMENPADLKKQLYVEFEGEQGVDEGGVSKEFFQLVVEEIFNPDIGMFTYD-ESTKLF 82
Query: 110 QINPDSGVNPEHLSYFHFAGRIIGIAVFHGHYIDGGFTTPFYKISRVTTPFYKMLLNKPI 169
NP S E F G ++G+A+++ +D F Y+ L+ K
Sbjct: 83 WFNPSS---FETEGQFTLIGIVLGLAIYNNCILDVHF----------PMVVYRKLMGKKG 129
Query: 170 TLEDIEGVDPELHRSLTWILENTLSN-DVLDTTFAV-EVNSFGVLKVHELKGGGKDIQVT 227
T D+ P L++SL +LE + D + TF + + + FG +++LK G I +T
Sbjct: 130 TFRDLGDSHPVLYQSLKDLLEYEGNVEDDMMITFQISQTDLFGNPMMYDLKENGDKIPIT 189
Query: 228 EDNKKEYVRLYVNWRFMRGIEQQFLALQKGFTEIVPIHLLRP-FDERELELVIGGLTSID 286
+N+KE+V LY ++ + +E+QF A ++GF + L+ F E+EL+I G ++D
Sbjct: 190 NENRKEFVNLYSDYILNKSVEKQFKAFRRGFHMVTNESPLKYLFRPEEIELLICGSRNLD 249
Query: 287 IHDWKQHTRLK-HCTSDTPVVKWFWQIVESYSEEMRARLLQCSTGAAGPRL-------FT 338
++ T T D+ +++ FW+IV S+++E + LQ +TG +
Sbjct: 250 FQALEETTEYDGGYTRDSVLIREFWEIVHSFTDEQKRLFLQFTTGTDRAPVGGLGKLKMI 309
Query: 339 IHATDSPSDNLPKAHTCFNRIDLPNYDSYQKLYDKLSQAVEET 381
I ++ LP +HTCFN + LP Y S +KL ++L +A+
Sbjct: 310 IAKNGPDTERLPTSHTCFNVLLLPEYSSKEKLKERLLKAITYA 352
>3pt3_A E3 ubiquitin-protein ligase UBR5; EDD, HHYD, mixed alpha-beta fold,
ubiquitin ligase; 1.97A {Homo sapiens}
Length = 118
Score = 127 bits (321), Expect = 6e-36
Identities = 27/112 (24%), Positives = 42/112 (37%), Gaps = 17/112 (15%)
Query: 285 IDIHDWKQHTRLKHCTSDT-----PVVKWFWQIVESYSEEMRARLLQCSTGAAGPR---- 335
+ T + + +WFW IVE S R L+ T + P
Sbjct: 4 GSVQMLISFTSFNDESGENAEKLLQFKRWFWSIVEKMSMTERQDLVYFWTSS--PSLPAS 61
Query: 336 ------LFTIHATDSPSDNLPKAHTCFNRIDLPNYDSYQKLYDKLSQAVEET 381
+ +I +LP A+TC +R+ +P Y S Q L KL A++
Sbjct: 62 EEGFQPMPSITIRPPDDQHLPTANTCISRLYVPLYSSKQILKQKLLLAIKTK 113
>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 = 50.8 bits (121), Expect = 6e-07
Identities = 45/245 (18%), Positives = 77/245 (31%), Gaps = 61/245 (24%)
Query: 183 RSLTWILENTLSNDVLDTTFAVEVNSFGVLKVHELKGGGKDI------QVTE-----DNK 231
R LT LS+ L+ V SF + ++ + TE D
Sbjct: 7 RPLT------LSHGSLEHVLLVPTASFFIASQL------QEQFNKILPEPTEGFAADDEP 54
Query: 232 KEYVRLYVNWRFMRGIEQQFLALQKGFTEIVPIHLLRPFDERELELVIGGLTSIDIHDWK 291
L +F+ + + G + V L F E L DIH
Sbjct: 55 TTPAELVG--KFLGYVSSLVEPSKVGQFDQVLNLCLTEF-ENCY------LEGNDIHALA 105
Query: 292 QHTRLKHCTSDTPVVKWFWQIVESYSEEMRARLL--QCSTGAAGPRLFTIHATDSPSDNL 349
+DT +VK +++++Y + AR++ + + LF + +
Sbjct: 106 AKL---LQENDTTLVKTK-ELIKNY---ITARIMAKRPFDKKSNSALFR-AVGEGNA--- 154
Query: 350 PKAHTCFN------------RIDLPNYDSYQKLYDKLSQAVEETLTCLYRIDTPCRLTCL 397
+ F R DL Y +Y L L + ETL+ L R
Sbjct: 155 -QLVAIFGGQGNTDDYFEELR-DL--YQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT 210
Query: 398 YRIDL 402
+++
Sbjct: 211 QGLNI 215
Score = 42.0 bits (98), Expect = 4e-04
Identities = 49/265 (18%), Positives = 77/265 (29%), Gaps = 105/265 (39%)
Query: 73 GLD-YG--GVARE-WLYLLSHEMLNPQYGLFQYSREDNYTLQINPDSGVNPEHLSYFHFA 128
G+D Y A++ W +H YG +S L I + NP +L HF
Sbjct: 1632 GMDLYKTSKAAQDVWNRADNH--FKDTYG---FS-----ILDIVIN---NPVNL-TIHFG 1677
Query: 129 GRIIGIAVFHGHYIDGGFTTPFYKISRVTTPFYKMLLNKPITLEDIEGVDPELHRSLTWI 188
G G I ++ ++ ++ K T + + ++ S T+
Sbjct: 1678 GE-------KGKRIRENYSAMIFE---------TIVDGKLKTEKIFKEINEHS-TSYTF- 1719
Query: 189 LENTLSNDVLDTT-------FAVEVNSFGVLKV------------HELKGGGKDIQVTED 229
+L T +E +F LK H L G
Sbjct: 1720 ---RSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSL-G---------- 1765
Query: 230 NKKEY---------------VRLYVNWRFMRGIEQQFLALQK-------GFTEIVPIHLL 267
EY V + V F RG+ Q + G I P +
Sbjct: 1766 ---EYAALASLADVMSIESLVEV-V---FYRGMTMQVAVPRDELGRSNYGMIAINPGRVA 1818
Query: 268 RPFDERELELVI-------GGLTSI 285
F + L+ V+ G L I
Sbjct: 1819 ASFSQEALQYVVERVGKRTGWLVEI 1843
Score = 41.2 bits (96), Expect = 8e-04
Identities = 73/403 (18%), Positives = 117/403 (29%), Gaps = 175/403 (43%)
Query: 17 QGDAQETYGEVSRRGGARLRG---------RPLSILSNGTFERLIMKMRPKEMRKRLMVK 67
QG+ + + E LR L S T LI R L +
Sbjct: 163 QGNTDDYFEE--------LRDLYQTYHVLVGDLIKFSAETLSELI--------RTTLDAE 206
Query: 68 FRAEEGLDYGGVAREWL----------YLLSHEMLNPQYGLFQYSREDNY--TLQINPDS 115
+GL+ EWL YLLS + P G+ Q + +Y T ++
Sbjct: 207 KVFTQGLN----ILEWLENPSNTPDKDYLLSIPISCPLIGVIQLA---HYVVTAKL---L 256
Query: 116 GVNPEHLSYFHFAG---RIIGI--AVFHGHYIDGGFTTPFYKISRVTT--PFYKMLLNKP 168
G P L + G G+ AV I+ + F+ + K
Sbjct: 257 GFTPGEL-RSYLKGATGHSQGLVTAVA---------------IAETDSWESFFV-SVRKA 299
Query: 169 ITLEDIEGVDPELHRSLTWI------------LENTLSNDVLDTTFAVEVNSFGV----L 212
IT+ L +I L ++ D L+ N+ GV L
Sbjct: 300 ITV-------------LFFIGVRCYEAYPNTSLPPSILEDSLE-------NNEGVPSPML 339
Query: 213 KVHELKGGGKDIQVTEDNKKEYVRLYVNWRFMRGIEQQFLALQKGFTEIV----PIHL-- 266
+ QV ++YV N G +Q ++L G +V P L
Sbjct: 340 SIS----NLTQEQV-----QDYVN-KTNSHLPAG-KQVEISLVNGAKNLVVSGPPQSLYG 388
Query: 267 ----LR-------------PFDEREL----------------------ELVIGGLTSIDI 287
LR PF ER+L +L+ L ++
Sbjct: 389 LNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNV 448
Query: 288 HDWKQHTRLK---HCTSDTPVVKWFWQIVESYSEEMRARLLQC 327
+ ++ + T D + S + R++ C
Sbjct: 449 -SFNAK-DIQIPVYDTFD-------GSDLRVLSGSISERIVDC 482
Score = 31.9 bits (72), Expect = 0.42
Identities = 49/299 (16%), Positives = 86/299 (28%), Gaps = 108/299 (36%)
Query: 10 YYNEDAA-----QGDA--QETYGEVSRRGGARLRGRPLSILSNGTFERLIMKMRPKEMRK 62
Y AA + D ++TYG SIL I+ P
Sbjct: 1636 YKTSKAAQDVWNRADNHFKDTYG--------------FSILD-------IVINNPVN--- 1671
Query: 63 RLMVKFRAEEGL----DYGGVAREWLYLLSHEMLNPQYGLFQYSREDNYTLQINPDSGV- 117
L + F E+G +Y + E + + +F+ E + + + G+
Sbjct: 1672 -LTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEK----IFKEINEHSTSYTFRSEKGLL 1726
Query: 118 -NPEH-------LSYFHFA-----GRIIGIAVFHGH----Y---------------ID-- 143
+ + F G I A F GH Y ++
Sbjct: 1727 SATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVV 1786
Query: 144 ---GGFTTPFYKISRVTTPFYKMLLNKP------ITLEDIEGVDPELHRSLTWILE---- 190
G + Y M+ P + E ++ V + + W++E
Sbjct: 1787 FYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNY 1846
Query: 191 NT------LSNDV--LDTTFAVEV-NSFGVLKVHELKGGGKDIQVTEDNKKEYVR--LY 238
N + D+ LDT V N + K+ I++ + E V L+
Sbjct: 1847 NVENQQYVAAGDLRALDT--VTNVLNFIKLQKI-------DIIELQKSLSLEEVEGHLF 1896
>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 = 49.9 bits (118), Expect = 1e-06
Identities = 65/530 (12%), Positives = 131/530 (24%), Gaps = 168/530 (31%)
Query: 39 PLSILSNGTFERLIMKMRPKEMRKRLM-----------VKFRAEEGL--DYGGVAREW-- 83
P SILS + I+ + + V+ EE L +Y +
Sbjct: 42 PKSILSKEEIDH-IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKT 100
Query: 84 ----------LYLLSHEML---NPQYGLFQYSREDNYT------LQINPDSGVNPEHLSY 124
+Y+ + L N + + SR Y L++ P V
Sbjct: 101 EQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNV------L 154
Query: 125 FH-FAG--------------RIIGIAVFHGHYID-GGFTTP----------FYKISRVTT 158
G ++ F +++ +P Y+I T
Sbjct: 155 IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWT 214
Query: 159 PFYKMLLNKPITLEDIEG------VDPELHRSLTWILENTLSNDVLD----------TTF 202
N + + I+ L +L N + + TT
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL-VLLNVQNAKAWNAFNLSCKILLTTR 273
Query: 203 AVEV-NSFGVLKVHELKGGGKDIQVTEDNKKEYVRLYVNWRFMRGIEQQFLALQKGFTEI 261
+V + + + +T D K + Y++ Q L +
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD------CRPQDLPREV--LTT 325
Query: 262 VPIHL------LRPFDER----------ELELVIG-GLTSIDIHDWKQHTRLKHCT---S 301
P L +R +L +I L ++ ++++ +
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM--FDRLSVFPP 383
Query: 302 DTP----VVKWFWQIVESYSEEM------RARLLQCSTGAAGPRLFTIHA----TDSPSD 347
++ W V + + L++ +I + +
Sbjct: 384 SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQ---PKESTISIPSIYLELKVKLE 440
Query: 348 NLPKAHT------------CFNRIDLPNYDSYQKLY-----DKLSQAVEETL-TCLY--- 386
N H + + P D Y + + TL ++
Sbjct: 441 NEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF 500
Query: 387 -------RIDTPCRLTCLYR----IDLPNYDSY----QKLYDKLSQAVEE 421
R D+ L Y Y Y++L A+ +
Sbjct: 501 RFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILD 550
Score = 33.7 bits (76), Expect = 0.14
Identities = 38/317 (11%), Positives = 91/317 (28%), Gaps = 84/317 (26%)
Query: 32 GARLRGRPLSI--LSNGTFERL--IMKM-----RPKEMRKRL--MVKFRAEEGLDYGGVA 80
+R + + ++L I++ P E RK + F + ++
Sbjct: 334 AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLS 393
Query: 81 REWLYLLSHEMLNPQYGLFQYS----REDNYTLQINPDSGVNPEHLSYFHFAGRIIGIAV 136
W ++ +++ L +YS + T+ I Y ++
Sbjct: 394 LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI---------PSIYLELKVKLENEYA 444
Query: 137 FHGHYIDGGFTTPFYKISRVTTPFYKMLLNKPITLEDIEGVDPELHRSLTWILENTLSND 196
H +D Y I + D + L
Sbjct: 445 LHRSIVD------HYNIPK--------------------TFDS-----------DDLIPP 467
Query: 197 VLDTTFAVEVNSFGVLKVHELKGGGKDIQVTEDNKKEYVRLYVNWRFMRG-IEQQFLALQ 255
LD F + G H LK + + +++++RF+ I A
Sbjct: 468 YLDQYFY---SHIG----HHLKNIEHP-----ERMTLFRMVFLDFRFLEQKIRHDSTAWN 515
Query: 256 KGFTEIVPIHLLRPF------DERELELVIGGLTSIDIHDWKQHTRLKHCTSDTPVVKWF 309
+ + + L+ + ++ + E ++ + + + C+ T +++
Sbjct: 516 ASGSILNTLQQLKFYKPYICDNDPKYERLVNAI----LDFLPKIEENLICSKYTDLLRIA 571
Query: 310 WQIVESYSEEMRARLLQ 326
+ E + +Q
Sbjct: 572 LMAEDEAIFEEAHKQVQ 588
>2ns2_A Spindlin-1; beta barrel, repeat domains, cell cycle; 2.20A {Homo
sapiens}
Length = 242
Score = 28.5 bits (63), Expect = 3.2
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 84 LYLLSHEMLNPQYGLFQYSREDNYTLQINPDSGVNPEHLSYFHFAGRIIGIAVFHG 139
LYL+ ++ + YGL E L++ PD +S H A +IG AV H
Sbjct: 66 LYLIKYDGFDCVYGLELNKDERVSALEVLPDRVATSR-ISDAHLADTMIGKAVEHM 120
>3l2n_A Peptidase M14, carboxypeptidase A; putative carboxypeptidase A,
structural genomics, joint CENT structural genomics,
JCSG; 2.39A {Shewanella denitrificans}
Length = 395
Score = 28.2 bits (62), Expect = 5.7
Identities = 8/27 (29%), Positives = 12/27 (44%), Gaps = 2/27 (7%)
Query: 101 YSREDNYTLQINPDSGVNPEHLSYFHF 127
+ D+ L I PD E +F+F
Sbjct: 36 LANPDDIQLAIRPD--AGGEFYQWFNF 60
>4a37_A Metallo-carboxypeptidase; metallo-protease, hydrolase; 1.60A
{Pseudomonas aeruginosa} PDB: 4a38_A 4a39_A*
Length = 388
Score = 28.2 bits (62), Expect = 6.3
Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 2/28 (7%)
Query: 100 QYSREDNYTLQINPDSGVNPEHLSYFHF 127
S L I PD + +H +FHF
Sbjct: 29 DASDPRRIRLAIRPD--LASQHFQWFHF 54
>2fpn_A YWMB; structural genomocs, domain swappin structural genomics, PSI,
protein structure initiative, MID center for structural
genomics, MCSG; 2.49A {Bacillus subtilis} SCOP:
d.129.10.1
Length = 216
Score = 27.1 bits (59), Expect = 9.2
Identities = 14/117 (11%), Positives = 39/117 (33%), Gaps = 10/117 (8%)
Query: 273 RELELVIGGLT--SIDIHDWKQHTRLKHCTSDTPVVKWFWQIVESY--------SEEMRA 322
L + G+ + I W H + ++ + ++ + Y E+
Sbjct: 2 TPLAQMAEGMERQDVSIDKWTLHAKQNLSLTEKEFYQKVQRLKQEYRQYDWVIAREDKMI 61
Query: 323 RLLQCSTGAAGPRLFTIHATDSPSDNLPKAHTCFNRIDLPNYDSYQKLYDKLSQAVE 379
+ + T F + + + P ++ + ++ L DS+ Y++ +
Sbjct: 62 KAIGTYTDKKNRTSFRLQLVTTLKKHNPTSYLLYEQMSLETPDSWNDTYEQFERETL 118
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
0.321 0.139 0.423
Gapped
Lambda K H
0.267 0.0505 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,880,834
Number of extensions: 428466
Number of successful extensions: 794
Number of sequences better than 10.0: 1
Number of HSP's gapped: 755
Number of HSP's successfully gapped: 27
Length of query: 421
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 325
Effective length of database: 4,021,377
Effective search space: 1306947525
Effective search space used: 1306947525
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: 59 (27.0 bits)