RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12140
(173 letters)
>3pt3_A E3 ubiquitin-protein ligase UBR5; EDD, HHYD, mixed alpha-beta
fold, ubiquitin ligase; 1.97A {Homo sapiens}
Length = 118
Score = 47.3 bits (113), Expect = 8e-08
Identities = 29/46 (63%), Positives = 37/46 (80%)
Query: 47 DINVTVLISYTSFIDESGEPSERLIKFKRWLWSIVEKMTHLERMDL 92
+V +LIS+TSF DESGE +E+L++FKRW WSIVEKM+ ER DL
Sbjct: 3 LGSVQMLISFTSFNDESGENAEKLLQFKRWFWSIVEKMSMTERQDL 48
Score = 47.3 bits (113), Expect = 8e-08
Identities = 29/46 (63%), Positives = 37/46 (80%)
Query: 128 DINVTVLISYTSFIDESGEPSERLIKFKRWLWSIVEKMTHLERMDL 173
+V +LIS+TSF DESGE +E+L++FKRW WSIVEKM+ ER DL
Sbjct: 3 LGSVQMLISFTSFNDESGENAEKLLQFKRWFWSIVEKMSMTERQDL 48
>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 = 44.5 bits (106), Expect = 4e-06
Identities = 17/77 (22%), Positives = 36/77 (46%), Gaps = 4/77 (5%)
Query: 16 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFKR 75
A G +++P ++ + LL+ G+GD++V ++ + + P+ +I+
Sbjct: 251 AFLEGFTELLPIDLIKIFDENELELLMCGLGDVDVNDWRQHSIYKNGY-CPNHPVIQ--- 306
Query: 76 WLWSIVEKMTHLERMDL 92
W W V M +R+ L
Sbjct: 307 WFWKAVLLMDAEKRIRL 323
Score = 44.5 bits (106), Expect = 4e-06
Identities = 17/77 (22%), Positives = 36/77 (46%), Gaps = 4/77 (5%)
Query: 97 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFKR 156
A G +++P ++ + LL+ G+GD++V ++ + + P+ +I+
Sbjct: 251 AFLEGFTELLPIDLIKIFDENELELLMCGLGDVDVNDWRQHSIYKNGY-CPNHPVIQ--- 306
Query: 157 WLWSIVEKMTHLERMDL 173
W W V M +R+ L
Sbjct: 307 WFWKAVLLMDAEKRIRL 323
>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 = 44.5 bits (106), Expect = 5e-06
Identities = 16/77 (20%), Positives = 34/77 (44%), Gaps = 5/77 (6%)
Query: 16 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFKR 75
A G +VVP L+ ++ ++L G+ ++++ T + + + + I
Sbjct: 232 AFLDGFNEVVPLQWLQYFDEKELEVMLCGMQEVDLADWQRNTVYRHYT--RNSKQII--- 286
Query: 76 WLWSIVEKMTHLERMDL 92
W W V++ + RM L
Sbjct: 287 WFWQFVKETDNEVRMRL 303
Score = 44.5 bits (106), Expect = 5e-06
Identities = 16/77 (20%), Positives = 34/77 (44%), Gaps = 5/77 (6%)
Query: 97 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFKR 156
A G +VVP L+ ++ ++L G+ ++++ T + + + + I
Sbjct: 232 AFLDGFNEVVPLQWLQYFDEKELEVMLCGMQEVDLADWQRNTVYRHYT--RNSKQII--- 286
Query: 157 WLWSIVEKMTHLERMDL 173
W W V++ + RM L
Sbjct: 287 WFWQFVKETDNEVRMRL 303
>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 = 44.1 bits (105), Expect = 7e-06
Identities = 15/77 (19%), Positives = 32/77 (41%), Gaps = 5/77 (6%)
Query: 16 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFKR 75
A G ++++P + T ++ LL++G+ I++ L S T + + I+
Sbjct: 256 AFLEGFYEIIPKRLISIFTEQELELLISGLPTIDIDDLKSNTEYHKYQ--SNSIQIQ--- 310
Query: 76 WLWSIVEKMTHLERMDL 92
W W + +R
Sbjct: 311 WFWRALRSFDQADRAKF 327
Score = 44.1 bits (105), Expect = 7e-06
Identities = 15/77 (19%), Positives = 32/77 (41%), Gaps = 5/77 (6%)
Query: 97 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFKR 156
A G ++++P + T ++ LL++G+ I++ L S T + + I+
Sbjct: 256 AFLEGFYEIIPKRLISIFTEQELELLISGLPTIDIDDLKSNTEYHKYQ--SNSIQIQ--- 310
Query: 157 WLWSIVEKMTHLERMDL 173
W W + +R
Sbjct: 311 WFWRALRSFDQADRAKF 327
>3olm_A E3 ubiquitin-protein ligase RSP5; ligase; 2.50A {Saccharomyces
cerevisiae}
Length = 429
Score = 43.8 bits (104), Expect = 8e-06
Identities = 15/77 (19%), Positives = 33/77 (42%), Gaps = 5/77 (6%)
Query: 16 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFKR 75
A G +++P + + LL+ G+ +I++ +T + S+ +I+
Sbjct: 282 AFMDGFNELIPEDLVTVFDERELELLIGGIAEIDIEDWKKHTDYRGYQ--ESDEVIQ--- 336
Query: 76 WLWSIVEKMTHLERMDL 92
W W V + + +R L
Sbjct: 337 WFWKCVSEWDNEQRARL 353
Score = 43.8 bits (104), Expect = 8e-06
Identities = 15/77 (19%), Positives = 33/77 (42%), Gaps = 5/77 (6%)
Query: 97 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFKR 156
A G +++P + + LL+ G+ +I++ +T + S+ +I+
Sbjct: 282 AFMDGFNELIPEDLVTVFDERELELLIGGIAEIDIEDWKKHTDYRGYQ--ESDEVIQ--- 336
Query: 157 WLWSIVEKMTHLERMDL 173
W W V + + +R L
Sbjct: 337 WFWKCVSEWDNEQRARL 353
>1zvd_A SMAD ubiquitination regulatory factor 2; ubiquitin ligasecatalytic
mechanism,X-RAY ligase; 2.10A {Homo sapiens}
Length = 380
Score = 43.3 bits (103), Expect = 1e-05
Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 5/77 (6%)
Query: 16 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFKR 75
A++ G +V+P L+ ++ L++ G+G I+V T + P ++K
Sbjct: 232 ALQKGFNEVIPQHLLKTFDEKELELIICGLGKIDVNDWKVNTRL--KHCTPDSNIVK--- 286
Query: 76 WLWSIVEKMTHLERMDL 92
W W VE R L
Sbjct: 287 WFWKAVEFFDEERRARL 303
Score = 43.3 bits (103), Expect = 1e-05
Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 5/77 (6%)
Query: 97 AIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFKR 156
A++ G +V+P L+ ++ L++ G+G I+V T + P ++K
Sbjct: 232 ALQKGFNEVIPQHLLKTFDEKELELIICGLGKIDVNDWKVNTRL--KHCTPDSNIVK--- 286
Query: 157 WLWSIVEKMTHLERMDL 173
W W VE R L
Sbjct: 287 WFWKAVEFFDEERRARL 303
>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 = 43.7 bits (102), Expect = 1e-05
Identities = 28/188 (14%), Positives = 56/188 (29%), Gaps = 33/188 (17%)
Query: 12 NTHWAIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLI 71
W + + P + LE L + ++ + I RL+
Sbjct: 183 KIFW-LNLKNCNS-PETVLEML--QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238
Query: 72 KFKRWLWSI-----VEKMTHLERMDLGCAIAI--R-AGIFDVVPASCLENLTPEDFRLLL 123
K K + + V+ +L C I + R + D + A+ +++ + + L
Sbjct: 239 KSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL 298
Query: 124 NGVGDINVTVLISYTSFIDESGEPSE------------------RLIKFKRWLWSIVEKM 165
D ++L+ Y P E L + W +K+
Sbjct: 299 T--PDEVKSLLLKYLD-CRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL 355
Query: 166 THLERMDL 173
T + L
Sbjct: 356 TTIIESSL 363
Score = 39.5 bits (91), Expect = 3e-04
Identities = 34/210 (16%), Positives = 66/210 (31%), Gaps = 67/210 (31%)
Query: 28 SCLENLTPEDFRLLLNGVG----DINVT--VLISYTSFIDESGEPSERLIKFKRWLWSIV 81
S L L P ++R + + + ++ +L + +S + + K ++ S+V
Sbjct: 361 SSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKS-DVMVVVNKLHKY--SLV 417
Query: 82 EK----MT---HLERMDLGCAIAIRAGI-------FDVVPASCLENLTPE---------- 117
EK T ++L + + +++ ++L P
Sbjct: 418 EKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHI 477
Query: 118 ---------------------DFRLL----------LNGVGDIN--VTVLISYTSFIDES 144
DFR L N G I + L Y +I ++
Sbjct: 478 GHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDN 537
Query: 145 GEPSERLIK-FKRWLWSIVEKMTHLERMDL 173
ERL+ +L I E + + DL
Sbjct: 538 DPKYERLVNAILDFLPKIEENLICSKYTDL 567
>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 = 39.8 bits (94), Expect = 2e-04
Identities = 22/75 (29%), Positives = 31/75 (41%), Gaps = 5/75 (6%)
Query: 16 AIRAGIFDVVPASCLENL-TPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFK 74
A R G V S L+ L PE+ LL+ G +++ L T + D LI
Sbjct: 215 AFRRGFHMVTNESPLKYLFRPEEIELLICGSRNLDFQALEETTEY-DGGYTRDSVLI--- 270
Query: 75 RWLWSIVEKMTHLER 89
R W IV T ++
Sbjct: 271 REFWEIVHSFTDEQK 285
Score = 39.8 bits (94), Expect = 2e-04
Identities = 22/75 (29%), Positives = 31/75 (41%), Gaps = 5/75 (6%)
Query: 97 AIRAGIFDVVPASCLENL-TPEDFRLLLNGVGDINVTVLISYTSFIDESGEPSERLIKFK 155
A R G V S L+ L PE+ LL+ G +++ L T + D LI
Sbjct: 215 AFRRGFHMVTNESPLKYLFRPEEIELLICGSRNLDFQALEETTEY-DGGYTRDSVLI--- 270
Query: 156 RWLWSIVEKMTHLER 170
R W IV T ++
Sbjct: 271 REFWEIVHSFTDEQK 285
>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 = 33.1 bits (75), Expect = 0.046
Identities = 41/198 (20%), Positives = 63/198 (31%), Gaps = 74/198 (37%)
Query: 25 VPASC----------------LENLTPEDFRLLLNGV----GDINVTVLI----SYTSFI 60
+P SC L TP + R L G + V I S+ SF
Sbjct: 234 IPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFF 293
Query: 61 DESGEPSERLIKFKRWL-W----------------SIVEK-MTHLE----RMDLGCAIAI 98
K L + SI+E + + E M L +
Sbjct: 294 VSV-------RKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM-LSISNLT 345
Query: 99 RAGIFDVVPASCLENLTPEDFRL---LLNGVGDINVT----VL---------ISYTSFID 142
+ + D V + P ++ L+NG ++ V+ L S +D
Sbjct: 346 QEQVQDYVNKTNSH--LPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD 403
Query: 143 ESGEP-SERLIKF-KRWL 158
+S P SER +KF R+L
Sbjct: 404 QSRIPFSERKLKFSNRFL 421
Score = 28.9 bits (64), Expect = 0.93
Identities = 27/131 (20%), Positives = 41/131 (31%), Gaps = 43/131 (32%)
Query: 46 GDINVTVLISYTSFI-----------------------DESGEPSERLIKFKRWLWSIVE 82
G + +L+ SF DE P+E + KF ++ S+VE
Sbjct: 14 GSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVE 73
Query: 83 KMTHLERMDLGCAIAIRAGIFDVVPASCLENLTPEDFRLLLNGVGDINVTVLISYTSFID 142
G FD V CL + L G DI+ + D
Sbjct: 74 PSK--------------VGQFDQVLNLCLTEFE-NCY---LEG-NDIH-ALAAKLLQEND 113
Query: 143 ESGEPSERLIK 153
+ ++ LIK
Sbjct: 114 TTLVKTKELIK 124
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.4 bits (62), Expect = 0.89
Identities = 8/29 (27%), Positives = 14/29 (48%), Gaps = 8/29 (27%)
Query: 82 EK--MTHLE-RM-----DLGCAIAIRAGI 102
EK + L+ + D A+AI+A +
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATM 46
>2e8p_A ELF3 protein; cell-free protein synthesis, protein regulation,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 92
Score = 24.6 bits (53), Expect = 9.5
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 32 NLTPEDFRLLLNGVGDI 48
N E+ RL+ +GD
Sbjct: 64 NCALEELRLVFGPLGDQ 80
Score = 24.6 bits (53), Expect = 9.5
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 113 NLTPEDFRLLLNGVGDI 129
N E+ RL+ +GD
Sbjct: 64 NCALEELRLVFGPLGDQ 80
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
0.322 0.138 0.425
Gapped
Lambda K H
0.267 0.0520 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,912,395
Number of extensions: 177408
Number of successful extensions: 331
Number of sequences better than 10.0: 1
Number of HSP's gapped: 314
Number of HSP's successfully gapped: 29
Length of query: 173
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 86
Effective length of database: 4,272,666
Effective search space: 367449276
Effective search space used: 367449276
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: 54 (25.1 bits)