RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16438
(458 letters)
>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 = 160 bits (407), Expect = 6e-45
Identities = 74/303 (24%), Positives = 140/303 (46%), Gaps = 30/303 (9%)
Query: 132 FSTASSSNQFYVHLNPFENDITESNIRQYVVLPTTRYSKSCAFQGILLGIAIRTGHYLNL 191
F +++ N +NP E ++ + F G + G+A+ G L+
Sbjct: 108 FEYSATDNYTL-QINPNSGLCNEDHLSYF------------TFIGRVAGLAVFHGKLLDG 154
Query: 192 FLAEPIWTLLSGDILSLHDLMEIDQNFITVLSNMTQMPGEEVNALQMPFSTASSSN-QFY 250
F P + ++ G ++L+D+ +D + L + + E L + F + Q Y
Sbjct: 155 FFIRPFYKMMLGKQITLNDMESVDSEYYNSLKWILENDPTE---LDLMFCIDEENFGQTY 211
Query: 251 VH-LNPFENDI--TESNIRQYVVLVLQFRLHE-FDERIHYVRKGLYQVIPVPLLHLFSGA 306
L P ++I T N R+Y+ LV+Q+R ++++ +G +++P+ L+ +F
Sbjct: 212 QVDLKPNGSEIMVTNENKREYIDLVIQWRFVNRVQKQMNAFLEGFTELLPIDLIKIFDEN 271
Query: 307 EIETLVCSTPEISIDVLKQVTFYKDEMNVTTPQIIWFWEVLEEMSNQDRVLFIRFVSGRS 366
E+E L+C ++ ++ +Q + YK+ P I WFW+ + M + R+ ++FV+G S
Sbjct: 272 ELELLMCGLGDVDVNDWRQHSIYKNGYCPNHPVIQWFWKAVLLMDAEKRIRLLQFVTGTS 331
Query: 367 R-----LAKSAREFRGLKFEIQFLDRDCDPDTLFPESSTCFFLLRLPRYTNKDTLKHKLV 421
R A+ F I+ + P+ L P + TCF L LP Y + L+ KL+
Sbjct: 332 RVPMNGFAELYGSNGPQLFTIE---QWGSPEKL-PRAHTCFNRLDLPPYETFEDLREKLL 387
Query: 422 EAI 424
A+
Sbjct: 388 MAV 390
Score = 44.9 bits (107), Expect = 4e-05
Identities = 36/165 (21%), Positives = 68/165 (41%), Gaps = 19/165 (11%)
Query: 5 DAGGGYNECLSELCEELRDNSLLKVLIPTPNSN--DENGSNRDKFILNPDPFAAAGSNDK 62
D GG E L +E+ + P + + ++ +NP+ +
Sbjct: 84 DYGGVAREWFFLLSKEMFN----------PYYGLFEYSATDNYTLQINPNSGLCNEDHLS 133
Query: 63 LFFFLGILLGIAIRTGHYLNLFLAEPIWTLLSGDILSLHDLMEIDQNFITVLSNMTQMPG 122
F F+G + G+A+ G L+ F P + ++ G ++L+D+ +D + L + +
Sbjct: 134 YFTFIGRVAGLAVFHGKLLDGFFIRPFYKMMLGKQITLNDMESVDSEYYNSLKWILENDP 193
Query: 123 EEVNALQMPFSTASSSN-QFYVH-LNPFENDI--TESNIRQYVVL 163
E L + F + Q Y L P ++I T N R+Y+ L
Sbjct: 194 TE---LDLMFCIDEENFGQTYQVDLKPNGSEIMVTNENKREYIDL 235
>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 = 158 bits (402), Expect = 1e-44
Identities = 67/263 (25%), Positives = 120/263 (45%), Gaps = 14/263 (5%)
Query: 174 FQGILLGIAIRTGHYLNLFLAEPIWTLLSGDILSLHDLMEIDQNFITVLSNMTQMPGEEV 233
GI+LG+AI L++ ++ L G + DL + L ++ + G
Sbjct: 97 LIGIVLGLAIYNNCILDVHFPMVVYRKLMGKKGTFRDLGDSHPVLYQSLKDLLEYEGNVE 156
Query: 234 NALQMPFSTASSSNQF----YVHLNPFENDI--TESNIRQYVVLVLQFRLHE-FDERIHY 286
+ + + F S ++ F L + I T N +++V L + L++ +++
Sbjct: 157 DDMMITFQI-SQTDLFGNPMMYDLKENGDKIPITNENRKEFVNLYSDYILNKSVEKQFKA 215
Query: 287 VRKGLYQVIPV-PLLHLFSGAEIETLVCSTPEISIDVLKQVTFYKDEMNVTTPQIIWFWE 345
R+G + V PL +LF EIE L+C + + L++ T Y + I FWE
Sbjct: 216 FRRGFHMVTNESPLKYLFRPEEIELLICGSRNLDFQALEETTEYDGGYTRDSVLIREFWE 275
Query: 346 VLEEMSNQDRVLFIRFVSGRSRLAKSAREFRGLKFEIQFLDRDCDPDTLFPESSTCFFLL 405
++ +++ + LF++F +G R LK I D + P S TCF +L
Sbjct: 276 IVHSFTDEQKRLFLQFTTGTDRA--PVGGLGKLKMIIAKNGPDTE---RLPTSHTCFNVL 330
Query: 406 RLPRYTNKDTLKHKLVEAIHLSK 428
LP Y++K+ LK +L++AI +K
Sbjct: 331 LLPEYSSKEKLKERLLKAITYAK 353
Score = 47.1 bits (113), Expect = 6e-06
Identities = 26/120 (21%), Positives = 48/120 (40%), Gaps = 11/120 (9%)
Query: 50 NPDPFAAAGSNDKLFFFLGILLGIAIRTGHYLNLFLAEPIWTLLSGDILSLHDLMEIDQN 109
NP F + F +GI+LG+AI L++ ++ L G + DL +
Sbjct: 85 NPSSF----ETEGQFTLIGIVLGLAIYNNCILDVHFPMVVYRKLMGKKGTFRDLGDSHPV 140
Query: 110 FITVLSNMTQMPGEEVNALQMPFSTASSSNQF----YVHLNPFENDI--TESNIRQYVVL 163
L ++ + G + + + F S ++ F L + I T N +++V L
Sbjct: 141 LYQSLKDLLEYEGNVEDDMMITFQI-SQTDLFGNPMMYDLKENGDKIPITNENRKEFVNL 199
>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 = 159 bits (405), Expect = 1e-44
Identities = 79/304 (25%), Positives = 125/304 (41%), Gaps = 29/304 (9%)
Query: 132 FSTASSSNQFYVHLNPFENDITESNIRQYVVLPTTRYSKSCAFQGILLGIAIRTGHYLNL 191
F T+ Y +NP + +++ + F G ++ A+ L
Sbjct: 112 FRTSPGDRVTY-TINP-SSHANPNHLSYF------------KFVGRIVAKAVYDNRLLEC 157
Query: 192 FLAEPIWTLLSGDILSLHDLMEIDQNFITVLSNMTQMPGEEVNALQMPFS-TASSSNQFY 250
+ + + G + D+ D +F L + + + + FS
Sbjct: 158 YFTRSFYKHILGKSVRYTDMESEDYHFYQGLVYLLENDVSTL-GYDLTFSTEVQEFGVAE 216
Query: 251 VH-LNPFENDI--TESNIRQYVVLVLQFRLHE-FDERIHYVRKGLYQVIPVPLLHLFSGA 306
V L P +I TE N ++YV LV Q R+ +++ +G Y++IP L+ +F+
Sbjct: 217 VRDLKPNGANILVTEENKKEYVHLVCQMRMTGAIRKQLAAFLEGFYEIIPKRLISIFTEQ 276
Query: 307 EIETLVCSTPEISIDVLKQVTFYKDEMNVTTPQIIWFWEVLEEMSNQDRVLFIRFVSGRS 366
E+E L+ P I ID LK T Y + QI WFW L DR F++FV+G S
Sbjct: 277 ELELLISGLPTIDIDDLKSNTEYHK-YQSNSIQIQWFWRALRSFDQADRAKFLQFVTGTS 335
Query: 367 R-----LAKSAREFRGLKFEIQFLDRDCDPDTLFPESSTCFFLLRLPRYTNKDTLKHKLV 421
+ A KF+I DR D P + TCF L LP Y + + L+H L+
Sbjct: 336 KVPLQGFAALEGMNGIQKFQIHRDDRSTD---RLPSAHTCFNQLDLPAYESFEKLRHMLL 392
Query: 422 EAIH 425
AI
Sbjct: 393 LAIQ 396
Score = 45.3 bits (108), Expect = 2e-05
Identities = 33/165 (20%), Positives = 59/165 (35%), Gaps = 18/165 (10%)
Query: 5 DAGGGYNECLSELCEELRDNSLLKVLIPTPNSN--DENGSNRDKFILNPDPFAAAGSNDK 62
DAGG E + E+ + P + +R + +NP A ++
Sbjct: 88 DAGGLLREWYMIISREMFN----------PMYALFRTSPGDRVTYTINPSSHAN-PNHLS 136
Query: 63 LFFFLGILLGIAIRTGHYLNLFLAEPIWTLLSGDILSLHDLMEIDQNFITVLSNMTQMPG 122
F F+G ++ A+ L + + + G + D+ D +F L + +
Sbjct: 137 YFKFVGRIVAKAVYDNRLLECYFTRSFYKHILGKSVRYTDMESEDYHFYQGLVYLLENDV 196
Query: 123 EEVNALQMPFS-TASSSNQFYVH-LNPFENDI--TESNIRQYVVL 163
+ + FS V L P +I TE N ++YV L
Sbjct: 197 STL-GYDLTFSTEVQEFGVAEVRDLKPNGANILVTEENKKEYVHL 240
>3olm_A E3 ubiquitin-protein ligase RSP5; ligase; 2.50A {Saccharomyces
cerevisiae}
Length = 429
Score = 157 bits (399), Expect = 2e-43
Identities = 66/262 (25%), Positives = 119/262 (45%), Gaps = 17/262 (6%)
Query: 174 FQGILLGIAIRTGHYLNLFLAEPIWTLLSGDILSLHDLMEIDQNFITVLSNMTQMPGEEV 233
F G ++G+ + +L+ F ++ ++ + L D+ +D L+ M + + V
Sbjct: 167 FIGRVVGLGVFHRRFLDAFFVGALYKMMLRKKVVLQDMEGVDAEVYNSLNWMLENSIDGV 226
Query: 234 NALQMPFS-TASSSNQFYVH-LNPFENDI--TESNIRQYVVLVLQFRLHE-FDERIHYVR 288
L + FS + L P +I T+ N ++YV L Q+R+ + E+
Sbjct: 227 --LDLTFSADDERFGEVVTVDLKPDGRNIEVTDGNKKEYVELYTQWRIVDRVQEQFKAFM 284
Query: 289 KGLYQVIPVPLLHLFSGAEIETLVCSTPEISIDVLKQVTFYKDEMNVTTPQIIWFWEVLE 348
G ++IP L+ +F E+E L+ EI I+ K+ T Y+ + I WFW+ +
Sbjct: 285 DGFNELIPEDLVTVFDERELELLIGGIAEIDIEDWKKHTDYRG-YQESDEVIQWFWKCVS 343
Query: 349 EMSNQDRVLFIRFVSGRSR-----LAKSAREFRGLKFEIQFLDRDCDPDTLFPESSTCFF 403
E N+ R ++F +G SR +F I+ + + L P+S TCF
Sbjct: 344 EWDNEQRARLLQFTTGTSRIPVNGFKDLQGSDGPRRFTIE---KAGEVQQL-PKSHTCFN 399
Query: 404 LLRLPRYTNKDTLKHKLVEAIH 425
+ LP+Y + D++K KL A+
Sbjct: 400 RVDLPQYVDYDSMKQKLTLAVE 421
Score = 46.1 bits (110), Expect = 2e-05
Identities = 26/127 (20%), Positives = 53/127 (41%), Gaps = 7/127 (5%)
Query: 42 SNRDKFILNPDPFAAAGSND-KLFFFLGILLGIAIRTGHYLNLFLAEPIWTLLSGDILSL 100
S D + + +P + F F+G ++G+ + +L+ F ++ ++ + L
Sbjct: 142 SAYDNYTIQINPNSGINPEHLNYFKFIGRVVGLGVFHRRFLDAFFVGALYKMMLRKKVVL 201
Query: 101 HDLMEIDQNFITVLSNMTQMPGEEVNALQMPFS-TASSSNQFYVH-LNPFENDI--TESN 156
D+ +D L+ M + + V L + FS + L P +I T+ N
Sbjct: 202 QDMEGVDAEVYNSLNWMLENSIDGV--LDLTFSADDERFGEVVTVDLKPDGRNIEVTDGN 259
Query: 157 IRQYVVL 163
++YV L
Sbjct: 260 KKEYVEL 266
>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 = 156 bits (396), Expect = 2e-43
Identities = 75/264 (28%), Positives = 122/264 (46%), Gaps = 20/264 (7%)
Query: 174 FQGILLGIAIRTGHYLNLFLAEPIWTLLSGDILSLHDLMEIDQNFITVLSNMTQMPGEEV 233
F G + +A+ G +++ + P + + L++ DL ID F L + EE
Sbjct: 116 FIGRFIAMALFHGKFIDTGFSLPFYKRMLSKKLTIKDLESIDTEFYNSLIWIRDNNIEEC 175
Query: 234 NALQMPFSTASSSN-QFYVH-LNPFENDI--TESNIRQYVVLVLQFRLHE-FDERIHYVR 288
L+M FS + H L ++I TE N +Y+ L+ ++R E+
Sbjct: 176 -GLEMYFSVDMEILGKVTSHDLKLGGSNILVTEENKDEYIGLMTEWRFSRGVQEQTKAFL 234
Query: 289 KGLYQVIPVPLLHLFSGAEIETLVCSTPEISIDVLKQVTFYKDEMNVTTPQIIWFWEVLE 348
G +V+P+ L F E+E ++C E+ + ++ T Y+ + QIIWFW+ ++
Sbjct: 235 DGFNEVVPLQWLQYFDEKELEVMLCGMQEVDLADWQRNTVYRH-YTRNSKQIIWFWQFVK 293
Query: 349 EMSNQDRVLFIRFVSGRSRLAKSAREFRGL-------KFEIQFLDRDCDPDTLFPESSTC 401
E N+ R+ ++FV+G RL F L KF I+ + DT P S TC
Sbjct: 294 ETDNEVRMRLLQFVTGTCRL--PLGGFAELMGSNGPQKFCIEKV----GKDTWLPRSHTC 347
Query: 402 FFLLRLPRYTNKDTLKHKLVEAIH 425
F L LP Y + + LK KL+ AI
Sbjct: 348 FNRLDLPPYKSYEQLKEKLLFAIE 371
Score = 46.4 bits (111), Expect = 1e-05
Identities = 37/172 (21%), Positives = 64/172 (37%), Gaps = 24/172 (13%)
Query: 1 ESVDDAGGGYNECLSELCEELRDNSLLKVLIPTPNSNDENG----SNRDKFILNPDPFAA 56
E D GG E L E+ N + ++ + L +P +
Sbjct: 60 EEGLDYGGLAREWFFLLSHEV--------------LNPMYCLFEYAGKNNYCLQINPAST 105
Query: 57 AGSND-KLFFFLGILLGIAIRTGHYLNLFLAEPIWTLLSGDILSLHDLMEIDQNFITVLS 115
+ F F+G + +A+ G +++ + P + + L++ DL ID F L
Sbjct: 106 INPDHLSYFCFIGRFIAMALFHGKFIDTGFSLPFYKRMLSKKLTIKDLESIDTEFYNSLI 165
Query: 116 NMTQMPGEEVNALQMPFSTASSSN-QFYVH-LNPFENDI--TESNIRQYVVL 163
+ EE L+M FS + H L ++I TE N +Y+ L
Sbjct: 166 WIRDNNIEEC-GLEMYFSVDMEILGKVTSHDLKLGGSNILVTEENKDEYIGL 216
>1zvd_A SMAD ubiquitination regulatory factor 2; ubiquitin ligasecatalytic
mechanism,X-RAY ligase; 2.10A {Homo sapiens}
Length = 380
Score = 153 bits (390), Expect = 1e-42
Identities = 68/262 (25%), Positives = 120/262 (45%), Gaps = 16/262 (6%)
Query: 174 FQGILLGIAIRTGHYLNLFLAEPIWTLLSGDILSLHDLMEIDQNFITVLSNMTQMPGEEV 233
F G ++G+A+ GHY++ P + L G ++L D+ +D + L + + V
Sbjct: 117 FVGRIMGMAVFHGHYIDGGFTLPFYKQLLGKSITLDDMELVDPDLHNSLVWILENDITGV 176
Query: 234 NALQMPFSTASSSN-QFYVH-LNPFENDI--TESNIRQYVVLVLQFRLHE-FDERIHYVR 288
L F ++ + H L P I E N ++YV L + +R + + ++
Sbjct: 177 --LDHTFCVEHNAYGEIIQHELKPNGKSIPVNEENKKEYVRLYVNWRFLRGIEAQFLALQ 234
Query: 289 KGLYQVIPVPLLHLFSGAEIETLVCSTPEISIDVLKQVTFYKDEMNVTTPQIIWFWEVLE 348
KG +VIP LL F E+E ++C +I ++ K T K + + WFW+ +E
Sbjct: 235 KGFNEVIPQHLLKTFDEKELELIICGLGKIDVNDWKVNTRLKH-CTPDSNIVKWFWKAVE 293
Query: 349 EMSNQDRVLFIRFVSGRSRL----AKSAREFRGL-KFEIQFLDRDCDPDTLFPESSTCFF 403
+ R ++FV+G SR+ K+ + G F I +D + P++ TCF
Sbjct: 294 FFDEERRARLLQFVTGSSRVPLQGFKALQGAAGPRLFTIHQIDACTN---NLPKAHTCFN 350
Query: 404 LLRLPRYTNKDTLKHKLVEAIH 425
+ +P Y + + L KL+ AI
Sbjct: 351 RIDIPPYESYEKLYEKLLTAIE 372
Score = 43.7 bits (104), Expect = 9e-05
Identities = 32/127 (25%), Positives = 55/127 (43%), Gaps = 7/127 (5%)
Query: 42 SNRDKFILNPDPFAAAGSND-KLFFFLGILLGIAIRTGHYLNLFLAEPIWTLLSGDILSL 100
S D + L +P +A F F+G ++G+A+ GHY++ P + L G ++L
Sbjct: 92 SRDDIYTLQINPDSAVNPEHLSYFHFVGRIMGMAVFHGHYIDGGFTLPFYKQLLGKSITL 151
Query: 101 HDLMEIDQNFITVLSNMTQMPGEEVNALQMPFSTASSSN-QFYVH-LNPFENDI--TESN 156
D+ +D + L + + V L F ++ + H L P I E N
Sbjct: 152 DDMELVDPDLHNSLVWILENDITGV--LDHTFCVEHNAYGEIIQHELKPNGKSIPVNEEN 209
Query: 157 IRQYVVL 163
++YV L
Sbjct: 210 KKEYVRL 216
>3pt3_A E3 ubiquitin-protein ligase UBR5; EDD, HHYD, mixed alpha-beta fold,
ubiquitin ligase; 1.97A {Homo sapiens}
Length = 118
Score = 117 bits (296), Expect = 3e-32
Identities = 33/114 (28%), Positives = 50/114 (43%), Gaps = 8/114 (7%)
Query: 316 PEISIDVLKQVTFYKDEMN----VTTPQIIWFWEVLEEMSNQDRVLFIRFVSGRSRLAKS 371
P S+ +L T + DE WFW ++E+MS +R + F + L S
Sbjct: 2 PLGSVQMLISFTSFNDESGENAEKLLQFKRWFWSIVEKMSMTERQDLVYFWTSSPSLPAS 61
Query: 372 AREFRGLKFEIQFLDRDCDPDTLFPESSTCFFLLRLPRYTNKDTLKHKLVEAIH 425
F+ + R D L P ++TC L +P Y++K LK KL+ AI
Sbjct: 62 EEGFQPMPS---ITIRPPDDQHL-PTANTCISRLYVPLYSSKQILKQKLLLAIK 111
>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 = 54.3 bits (130), Expect = 6e-08
Identities = 86/543 (15%), Positives = 165/543 (30%), Gaps = 207/543 (38%)
Query: 27 LKVLIPTPNSNDENGSN-RDKFILN-PDPFAAAGSNDK------LFF-FLGILLGIAIRT 77
L+ ++ P ++ S +++F P+P ++D+ L FLG
Sbjct: 16 LEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG--------- 66
Query: 78 GHYLNLFLA---EPIWTLLSGDILSLHDLMEIDQNFITVLSNMTQMPGEEVNALQMPFST 134
+++ EP +L+L L E + + + G +++AL
Sbjct: 67 ------YVSSLVEPSKVGQFDQVLNLC-LTEFENCY---------LEGNDIHAL------ 104
Query: 135 ASSSNQFYVHLNPFENDITESN----IRQY------VVLPTTRYSKSCAFQGILLGIAIR 184
A+ END T I+ Y P + S S F+ A+
Sbjct: 105 AAKL--------LQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFR------AVG 150
Query: 185 TGH---YLNLF------------LAEPIWTL---LSGDILS-----LHDLMEIDQ----- 216
G+ +F L + ++ L GD++ L +L+
Sbjct: 151 EGNAQLVA-IFGGQGNTDDYFEELRD-LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKV 208
Query: 217 -----NFITVLSNMTQMPGEEV---NALQMPFSTASSSNQFYV-----HLNPFE-NDITE 262
N + L N + P ++ + P + V P E +
Sbjct: 209 FTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK 268
Query: 263 --SNIRQYVVLVLQFRL----HEFDERIHYVRK-----GL--YQVIPV----PLLHLFSG 305
+ Q +V + F + G+ Y+ P P + S
Sbjct: 269 GATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSL 328
Query: 306 AEIETLVCSTPEISI-DV-LKQVTFYKDEMNVTTPQIIWFWEVLEEMSNQDRVLFI---- 359
E + +P +SI ++ +QV Y ++ N P + + I
Sbjct: 329 ENNEGV--PSPMLSISNLTQEQVQDYVNKTNSHLPA--------------GKQVEISLVN 372
Query: 360 ---RFV-SG--RS--RLAKSARE-------------F--RGLKFEIQFL----------- 385
V SG +S L + R+ F R LKF +FL
Sbjct: 373 GAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLL 432
Query: 386 -------DRDCDPDTL-FPESSTCFFLLRLPRY---TNKD------TLKHKLVEAIHLSK 428
++D + + F +++P Y D ++ ++V+ I +
Sbjct: 433 VPASDLINKDLVKNNVSFNAKD-----IQIPVYDTFDGSDLRVLSGSISERIVDCI-IRL 486
Query: 429 AIN 431
+
Sbjct: 487 PVK 489
Score = 34.6 bits (79), Expect = 0.073
Identities = 28/146 (19%), Positives = 48/146 (32%), Gaps = 32/146 (21%)
Query: 296 PVPLLHLFSGAEIET--LVCSTPEISIDVLKQVTFYKDEMNVTTPQIIWFWEVLEEMSNQ 353
P+ L H +E LV + L++ F K T F E +
Sbjct: 8 PLTLSH----GSLEHVLLVPTASFFIASQLQE-QFNKILPEPTEG----FAADDEPTTPA 58
Query: 354 DRVL-FIRFVSGRSRLAKSAREFRGLK-----FEIQFLDRDCDPDTLFPESSTCFFLLRL 407
+ V F+ +VS +K + + L FE +L D L +L
Sbjct: 59 ELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYL-EGNDIHAL---------AAKL 108
Query: 408 PRYTNKDTLKHKLV-----EAIHLSK 428
+ + +K K + A ++K
Sbjct: 109 LQENDTTLVKTKELIKNYITARIMAK 134
Score = 29.2 bits (65), Expect = 3.6
Identities = 38/245 (15%), Positives = 78/245 (31%), Gaps = 79/245 (32%)
Query: 80 YLNLFLAEPIWT-----LLSGDILSLHDLMEIDQNFITVLSNMTQMPGEEVNALQMPFST 134
Y A+ +W S+ D++ + +T+ + G+ +
Sbjct: 1636 YKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEK--GKRIRENYSAMIF 1693
Query: 135 ASSSNQFYVHLNPFENDITESNIRQYV------VLPTTRY--------SKSCAFQ----- 175
+ + F+ +I E + Y +L T++ K+ AF+
Sbjct: 1694 ETIVDGKLKTEKIFK-EINE-HSTSYTFRSEKGLLSATQFTQPALTLMEKA-AFEDLKSK 1750
Query: 176 GILLGIAIRTGH----YLNLFLAEPIWTLLS--GDILSLHDLMEIDQNFITV----LSNM 225
G++ A GH Y L+ D++S+ L+E+ V ++
Sbjct: 1751 GLIPADATFAGHSLGEY----------AALASLADVMSIESLVEV------VFYRGMTMQ 1794
Query: 226 TQMPGEE----------VNALQMPFSTASSSNQFYVHLNPFE--------NDITESNIR- 266
+P +E +N ++ S + + Q+ V N N+
Sbjct: 1795 VAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNY----NVEN 1850
Query: 267 -QYVV 270
QYV
Sbjct: 1851 QQYVA 1855
>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 = 53.3 bits (127), Expect = 1e-07
Identities = 71/506 (14%), Positives = 149/506 (29%), Gaps = 139/506 (27%)
Query: 10 YNECLSELCEELRDNSLLKVLIPTPNSNDENGS--------NRDKFI---------LNPD 52
Y +S + E R S++ + N + +R + L P
Sbjct: 91 YKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPA 150
Query: 53 PFAA----AGSNDKLFFFLG--ILLGIAIRTGHYLNLFLAEPIWTLLSGDILSLHDLMEI 106
GS G + + + W L + S ++E+
Sbjct: 151 KNVLIDGVLGS--------GKTWVALDVCLSYKVQCKMDFKIFW-LNLKNCNSPETVLEM 201
Query: 107 DQNFITVLSNMTQMPGEEVNALQMPFSTASSSNQFYVHLNPFEN------DITESNIRQY 160
Q + + + + +++ + + + + P+EN ++ +
Sbjct: 202 LQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNA 261
Query: 161 V-----VLPTTRYSKSCAFQGILLGIAIRTGHYLNLFLAEPIWTLLSGDILSLHDLMEID 215
+L TTR+ K + ++ L TL ++ SL
Sbjct: 262 FNLSCKILLTTRF-KQVTD-------FLSAATTTHISLDHHSMTLTPDEVKSL------- 306
Query: 216 QNFITVLSNMTQ-MPGE--EVNALQMPFSTASSSN-----QFYVHLNPFE-NDITESNIR 266
+ L Q +P E N ++ S + + H+N + I ES++
Sbjct: 307 --LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN 364
Query: 267 QYVVLVLQFRLHEFDERIHYVRKGLYQV---IPVPLLHLF----SGAEIETLV------- 312
L + R + R ++ IP LL L +++ +V
Sbjct: 365 V---------LEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYS 415
Query: 313 ----------CSTPEISIDVLKQ-----------VTFY----KDEMNVTTPQII---WFW 344
S P I +++ + V Y + + P + ++
Sbjct: 416 LVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYS 475
Query: 345 EVLEEMSNQDRVLFIRFVSGRSRLAKSAREFRGLKFEIQFLDRDCDPDTLFPESSTCFF- 403
+ + N + + FR + + +FL++ D+ +S
Sbjct: 476 HIGHHLKNIEH-------------PERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILN 522
Query: 404 -LLRLPRY----TNKDTLKHKLVEAI 424
L +L Y + D +LV AI
Sbjct: 523 TLQQLKFYKPYICDNDPKYERLVNAI 548
Score = 41.0 bits (95), Expect = 8e-04
Identities = 21/126 (16%), Positives = 44/126 (34%), Gaps = 17/126 (13%)
Query: 261 TESNIRQYVVLVLQFR--LHEFDERIHYVRKGLYQVIPVPLLHLFSGAEIETLVCSTPEI 318
E+ QY Q++ L F++ +V + + + S EI+ ++ S +
Sbjct: 9 FETGEHQY-----QYKDILSVFEDA--FVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAV 61
Query: 319 S-----IDVL--KQVTFYKDEMN-VTTPQIIWFWEVLEEMSNQDRVLFIRFVSGRSRLAK 370
S L KQ + + V + ++ Q ++ ++ R RL
Sbjct: 62 SGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN 121
Query: 371 SAREFR 376
+ F
Sbjct: 122 DNQVFA 127
>2nuw_A 2-keto-3-deoxygluconate/2-keto-3-deoxy-6-phospho aldolase; TIM
barrel, lyase; 1.80A {Sulfolobus acidocaldarius dsm 639}
PDB: 2nux_A 2nuy_A
Length = 288
Score = 28.3 bits (64), Expect = 4.5
Identities = 6/45 (13%), Positives = 15/45 (33%)
Query: 96 DILSLHDLMEIDQNFITVLSNMTQMPGEEVNALQMPFSTASSSNQ 140
I L D++ + + + + G +V + P +
Sbjct: 225 LINRLADILRKYGSISAIYVLVNEFQGYDVGYPRPPIFPLTDEEA 269
Score = 28.3 bits (64), Expect = 4.5
Identities = 6/45 (13%), Positives = 15/45 (33%)
Query: 204 DILSLHDLMEIDQNFITVLSNMTQMPGEEVNALQMPFSTASSSNQ 248
I L D++ + + + + G +V + P +
Sbjct: 225 LINRLADILRKYGSISAIYVLVNEFQGYDVGYPRPPIFPLTDEEA 269
>3fvc_A GP115, glycoprotein GP110; viral fusion protein, PH domains, fusion
loops, glycoprotein protein, membrane, transmembrane,
viral protein; HET: NAG; 3.20A {Human herpesvirus 4}
Length = 663
Score = 28.8 bits (64), Expect = 4.9
Identities = 16/83 (19%), Positives = 36/83 (43%), Gaps = 5/83 (6%)
Query: 73 IAIRTGHYLNLFLAEPIWTLLSGDILSLHDLMEIDQNFITVLSNMTQMPGEEVNALQMP- 131
I ++ + + GD++S+ + ++Q +T+ +M ++PG E P
Sbjct: 476 TKINPTTVMSSIYGKAVAAKRLGDVISVSQCVPVNQATVTLRKSM-RVPGSETMCYSRPL 534
Query: 132 --FSTASSSNQFYVHLNPFENDI 152
FS + + + L +N+I
Sbjct: 535 VSFSFINDTKTYEGQLGT-DNEI 556
Score = 28.8 bits (64), Expect = 4.9
Identities = 16/83 (19%), Positives = 36/83 (43%), Gaps = 5/83 (6%)
Query: 181 IAIRTGHYLNLFLAEPIWTLLSGDILSLHDLMEIDQNFITVLSNMTQMPGEEVNALQMP- 239
I ++ + + GD++S+ + ++Q +T+ +M ++PG E P
Sbjct: 476 TKINPTTVMSSIYGKAVAAKRLGDVISVSQCVPVNQATVTLRKSM-RVPGSETMCYSRPL 534
Query: 240 --FSTASSSNQFYVHLNPFENDI 260
FS + + + L +N+I
Sbjct: 535 VSFSFINDTKTYEGQLGT-DNEI 556
>1w3i_A EDA, 2-keto-3-deoxy gluconate aldolase; archaeal metabolism,
pyruvate; 1.7A {Sulfolobus solfataricus} SCOP: c.1.10.1
PDB: 1w37_A 1w3n_A* 1w3t_A* 2yda_A*
Length = 293
Score = 27.9 bits (63), Expect = 6.4
Identities = 3/45 (6%), Positives = 11/45 (24%)
Query: 96 DILSLHDLMEIDQNFITVLSNMTQMPGEEVNALQMPFSTASSSNQ 140
+ + I + + G ++ + P +
Sbjct: 227 LHDEVIEASRIFGSLSSNYVLTKYFQGYDLGYPRPPIFPLDDEEE 271
Score = 27.9 bits (63), Expect = 6.4
Identities = 3/45 (6%), Positives = 11/45 (24%)
Query: 204 DILSLHDLMEIDQNFITVLSNMTQMPGEEVNALQMPFSTASSSNQ 248
+ + I + + G ++ + P +
Sbjct: 227 LHDEVIEASRIFGSLSSNYVLTKYFQGYDLGYPRPPIFPLDDEEE 271
>3nwa_A GB, GB-1, GB1, envelope glycoprotein B; coiled-coil, membrane
fusion, viral P glycoprotein B, HSV-1, membrane; HET:
NAG; 2.26A {Human herpesvirus 1} PDB: 3nwf_A* 3nw8_A*
3nwd_A*
Length = 703
Score = 28.0 bits (62), Expect = 7.2
Identities = 8/83 (9%), Positives = 28/83 (33%), Gaps = 5/83 (6%)
Query: 73 IAIRTGHYLNLFLAEPIWTLLSGDILSLHDLMEIDQNFITVLSNMTQMPGEEVNALQMP- 131
+ ++ + + + GD++++ + + + + V ++M ++ P
Sbjct: 516 RKLNPNAIASVTVGRRVSARMLGDVMAVSTCVPVAADNVIVQNSM-RISSRPGACYSRPL 574
Query: 132 --FSTASSSNQFYVHLNPFENDI 152
F L N++
Sbjct: 575 VSFRYEDQGPLVEGQLGE-NNEL 596
Score = 28.0 bits (62), Expect = 7.2
Identities = 8/83 (9%), Positives = 28/83 (33%), Gaps = 5/83 (6%)
Query: 181 IAIRTGHYLNLFLAEPIWTLLSGDILSLHDLMEIDQNFITVLSNMTQMPGEEVNALQMP- 239
+ ++ + + + GD++++ + + + + V ++M ++ P
Sbjct: 516 RKLNPNAIASVTVGRRVSARMLGDVMAVSTCVPVAADNVIVQNSM-RISSRPGACYSRPL 574
Query: 240 --FSTASSSNQFYVHLNPFENDI 260
F L N++
Sbjct: 575 VSFRYEDQGPLVEGQLGE-NNEL 596
>2bry_A NEDD9 interacting protein with calponin homology and LIM domains;
transport, coiled coil, cytoskeleton, FAD, flavoprotein,
metal-binding, zinc; HET: FAD; 1.45A {Mus musculus} PDB:
2c4c_A* 2bra_A*
Length = 497
Score = 27.8 bits (61), Expect = 8.0
Identities = 21/101 (20%), Positives = 34/101 (33%), Gaps = 17/101 (16%)
Query: 73 IAIRTGHYLNLFLA-----EPIWTLLSGDILSLHDLMEIDQNFITVLSNMTQMPGEEVNA 127
+ + G L L L EP W L +G + + M + E
Sbjct: 386 VQEKHGARLLLGLVGDCLVEPFWPLGTGVARGFLAAFD--------AAWMVKRWAEGAGP 437
Query: 128 LQMPFSTASSSNQFYVHLNPFENDITESNIRQYVVLPTTRY 168
L++ + Y L+ + N+ QY + P TRY
Sbjct: 438 LEV----LAERESLYQLLSQTSPENMHRNVAQYGLDPATRY 474
>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP,
50S subunit, cryo-EM, REAL-space refinement,
ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H
Length = 704
Score = 27.9 bits (63), Expect = 8.1
Identities = 8/33 (24%), Positives = 14/33 (42%), Gaps = 5/33 (15%)
Query: 419 KLVEAIHLSKAINTDDNILAEYLEGNESPVNSI 451
L+E+ A + ++ +YL G E I
Sbjct: 221 NLIES-----AAEASEELMEKYLGGEELTEAEI 248
>3fkd_A L-threonine-O-3-phosphate decarboxylase; structural genomic, ,
structural genomics, PSI-2, protein structure
initiative; 2.50A {Porphyromonas gingivalis}
Length = 350
Score = 27.5 bits (62), Expect = 8.8
Identities = 14/61 (22%), Positives = 20/61 (32%), Gaps = 15/61 (24%)
Query: 362 VSGRSRLAKSAREFRGLKFEIQFLDRDCDPDTLFPESSTCFFLLRLPRYTNKDTLKHKLV 421
+ G++ P S T FFLLRL + T + K+ L
Sbjct: 254 QRNTVDFITALNRLDGVEV--------------HP-SGTTFFLLRLKKGTAAELKKYMLE 298
Query: 422 E 422
E
Sbjct: 299 E 299
>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein;
1.90A {Staphylococcus aureus}
Length = 693
Score = 27.8 bits (63), Expect = 9.1
Identities = 9/33 (27%), Positives = 15/33 (45%), Gaps = 5/33 (15%)
Query: 419 KLVEAIHLSKAINTDDNILAEYLEGNESPVNSI 451
L+EA T D ++ +YL E V+ +
Sbjct: 213 SLIEA-----VAETSDELMEKYLGDEEISVSEL 240
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 0.138 0.404
Gapped
Lambda K H
0.267 0.0726 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,991,171
Number of extensions: 424946
Number of successful extensions: 727
Number of sequences better than 10.0: 1
Number of HSP's gapped: 696
Number of HSP's successfully gapped: 36
Length of query: 458
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 361
Effective length of database: 3,993,456
Effective search space: 1441637616
Effective search space used: 1441637616
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 (26.5 bits)