RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14612
(140 letters)
>1zvd_A SMAD ubiquitination regulatory factor 2; ubiquitin ligasecatalytic
mechanism,X-RAY ligase; 2.10A {Homo sapiens}
Length = 380
Score = 187 bits (476), Expect = 2e-59
Identities = 67/174 (38%), Positives = 94/174 (54%), Gaps = 36/174 (20%)
Query: 1 MLASKKDLAKCKLYAQFDSEDGLDYGGPSREFFFLLSRQLFNPYYGLFEYSANDTYTVQI 60
M KDL +L +F E+GLDYGG +RE+ +LLS ++ NPYYGLF+YS +D YT+QI
Sbjct: 43 MKMRPKDL-WKRLMIKFRGEEGLDYGGVAREWLYLLSHEMLNPYYGLFQYSRDDIYTLQI 101
Query: 61 SPMSAFVDN----------------YH------------------EPVALSDLESLDNEF 86
+P SA +H + + L D+E +D +
Sbjct: 102 NPDSAVNPEHLSYFHFVGRIMGMAVFHGHYIDGGFTLPFYKQLLGKSITLDDMELVDPDL 161
Query: 87 HQSLLWIKEHDVTNEVLDLNFAVTEEIFGQAKERELKPGGRNIAVTEKNKKTYV 140
H SL+WI E+D+T VLD F V +G+ + ELKP G++I V E+NKK YV
Sbjct: 162 HNSLVWILENDIT-GVLDHTFCVEHNAYGEIIQHELKPNGKSIPVNEENKKEYV 214
>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 = 184 bits (470), Expect = 3e-58
Identities = 60/174 (34%), Positives = 87/174 (50%), Gaps = 35/174 (20%)
Query: 1 MLASKKDLAKCKLYAQFDSEDGLDYGGPSREFFFLLSRQLFNPYYGLFEYSANDTYTVQI 60
S +++ K +LY F+ E+G D GG RE++ ++SR++FNP Y LF S D T I
Sbjct: 66 HRKSPEEM-KNRLYIVFEGEEGQDAGGLLREWYMIISREMFNPMYALFRTSPGDRVTYTI 124
Query: 61 SPMSAFVDN----------------YH------------------EPVALSDLESLDNEF 86
+P S N Y + V +D+ES D F
Sbjct: 125 NPSSHANPNHLSYFKFVGRIVAKAVYDNRLLECYFTRSFYKHILGKSVRYTDMESEDYHF 184
Query: 87 HQSLLWIKEHDVTNEVLDLNFAVTEEIFGQAKERELKPGGRNIAVTEKNKKTYV 140
+Q L+++ E+DV+ DL F+ + FG A+ R+LKP G NI VTE+NKK YV
Sbjct: 185 YQGLVYLLENDVSTLGYDLTFSTEVQEFGVAEVRDLKPNGANILVTEENKKEYV 238
>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 = 183 bits (466), Expect = 7e-58
Identities = 72/175 (41%), Positives = 101/175 (57%), Gaps = 37/175 (21%)
Query: 1 MLASKKDLAKCKLYAQFDSEDGLDYGGPSREFFFLLSRQLFNPYYGLFEYSANDTYTVQI 60
M + D+ K +L+ +F+SE GLDYGG +RE+FFLLS+++FNPYYGLFEYSA D YT+QI
Sbjct: 61 MSVKRPDVLKARLWIEFESEKGLDYGGVAREWFFLLSKEMFNPYYGLFEYSATDNYTLQI 120
Query: 61 SPMSAFVDNYH-----------------------------------EPVALSDLESLDNE 85
+P S + H + + L+D+ES+D+E
Sbjct: 121 NPNSGLCNEDHLSYFTFIGRVAGLAVFHGKLLDGFFIRPFYKMMLGKQITLNDMESVDSE 180
Query: 86 FHQSLLWIKEHDVTNEVLDLNFAVTEEIFGQAKERELKPGGRNIAVTEKNKKTYV 140
++ SL WI E+D T LDL F + EE FGQ + +LKP G I VT +NK+ Y+
Sbjct: 181 YYNSLKWILENDPTE--LDLMFCIDEENFGQTYQVDLKPNGSEIMVTNENKREYI 233
>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 = 180 bits (459), Expect = 5e-57
Identities = 62/174 (35%), Positives = 93/174 (53%), Gaps = 35/174 (20%)
Query: 1 MLASKKDLAKCKLYAQFDSEDGLDYGGPSREFFFLLSRQLFNPYYGLFEYSANDTYTVQI 60
M DL + +LY F E+GLDYGG +RE+FFLLS ++ NP Y LFEY+ + Y +QI
Sbjct: 42 MALKPYDL-RRRLYVIFRGEEGLDYGGLAREWFFLLSHEVLNPMYCLFEYAGKNNYCLQI 100
Query: 61 SPMSAFVDN----------------YH------------------EPVALSDLESLDNEF 86
+P S + +H + + + DLES+D EF
Sbjct: 101 NPASTINPDHLSYFCFIGRFIAMALFHGKFIDTGFSLPFYKRMLSKKLTIKDLESIDTEF 160
Query: 87 HQSLLWIKEHDVTNEVLDLNFAVTEEIFGQAKERELKPGGRNIAVTEKNKKTYV 140
+ SL+WI+++++ L++ F+V EI G+ +LK GG NI VTE+NK Y+
Sbjct: 161 YNSLIWIRDNNIEECGLEMYFSVDMEILGKVTSHDLKLGGSNILVTEENKDEYI 214
>3olm_A E3 ubiquitin-protein ligase RSP5; ligase; 2.50A {Saccharomyces
cerevisiae}
Length = 429
Score = 180 bits (459), Expect = 2e-56
Identities = 73/174 (41%), Positives = 96/174 (55%), Gaps = 36/174 (20%)
Query: 1 MLASKKDLAKCKLYAQFDSEDGLDYGGPSREFFFLLSRQLFNPYYGLFEYSANDTYTVQI 60
M + +DL K +L +FD E+GLDYGG SREFFFLLS ++FNP+Y LFEYSA D YT+QI
Sbjct: 93 MRQTPEDL-KKRLMIKFDGEEGLDYGGVSREFFFLLSHEMFNPFYCLFEYSAYDNYTIQI 151
Query: 61 SPMSAFVDN----------------YH------------------EPVALSDLESLDNEF 86
+P S +H + V L D+E +D E
Sbjct: 152 NPNSGINPEHLNYFKFIGRVVGLGVFHRRFLDAFFVGALYKMMLRKKVVLQDMEGVDAEV 211
Query: 87 HQSLLWIKEHDVTNEVLDLNFAVTEEIFGQAKERELKPGGRNIAVTEKNKKTYV 140
+ SL W+ E+ + VLDL F+ +E FG+ +LKP GRNI VT+ NKK YV
Sbjct: 212 YNSLNWMLENSID-GVLDLTFSADDERFGEVVTVDLKPDGRNIEVTDGNKKEYV 264
>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 = 164 bits (418), Expect = 5e-51
Identities = 43/174 (24%), Positives = 74/174 (42%), Gaps = 37/174 (21%)
Query: 1 MLASKKDLAKCKLYAQFDSEDGLDYGGPSREFFFLLSRQLFNPYYGLFEYSANDTYTVQI 60
+ + DL K +LY +F+ E G+D GG S+EFF L+ ++FNP G+F Y T
Sbjct: 27 AMENPADL-KKQLYVEFEGEQGVDEGGVSKEFFQLVVEEIFNPDIGMFTYDE-STKLFWF 84
Query: 61 SPMSAFVDNY-------------------------------HEPVALSDLESLDNEFHQS 89
+P S + + DL +QS
Sbjct: 85 NPSSFETEGQFTLIGIVLGLAIYNNCILDVHFPMVVYRKLMGKKGTFRDLGDSHPVLYQS 144
Query: 90 LLWIKEH--DVTNEVLDLNFAVTE-EIFGQAKERELKPGGRNIAVTEKNKKTYV 140
L + E+ +V + + + F +++ ++FG +LK G I +T +N+K +V
Sbjct: 145 LKDLLEYEGNVE-DDMMITFQISQTDLFGNPMMYDLKENGDKIPITNENRKEFV 197
>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 = 34.3 bits (78), Expect = 0.008
Identities = 26/144 (18%), Positives = 47/144 (32%), Gaps = 51/144 (35%)
Query: 3 ASKKDLAKCKLYAQFDSEDGLDYG-GPSREFFFLLSRQLFNPYYG----LFEYSANDTYT 57
A + A+ L A F G G G + ++F L R L+ Y+ L ++SA
Sbjct: 148 AVGEGNAQ--LVAIF----G---GQGNTDDYFEEL-RDLYQTYHVLVGDLIKFSAETLSE 197
Query: 58 VQISPMSAFVDNYHEPVALSDLESLDNEFHQSLLWIKEHDVT--NEVLD----------- 104
+ + + A L ++ W++ T + L
Sbjct: 198 LIRTTLDA---EKVFTQGL-NILE----------WLENPSNTPDKDYLLSIPISCPLIGV 243
Query: 105 ---LNFAVTEEIFGQAKERELKPG 125
++ VT ++ G PG
Sbjct: 244 IQLAHYVVTAKLLG------FTPG 261
>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 = 31.0 bits (69), Expect = 0.11
Identities = 19/92 (20%), Positives = 29/92 (31%), Gaps = 27/92 (29%)
Query: 36 LSRQLFNPYYGLFEYSANDTYTVQISPMSAFVDNY-------H----EPVALSDLES--- 81
L R + + Y + ++D + P ++D Y H E L
Sbjct: 445 LHRSIVDHYNIPKTFDSDD-----LIPP--YLDQYFYSHIGHHLKNIEHPERMTLFRMVF 497
Query: 82 LDNEF------HQSLLWIKEHDVTNEVLDLNF 107
LD F H S W + N + L F
Sbjct: 498 LDFRFLEQKIRHDSTAWNASGSILNTLQQLKF 529
>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 = 29.1 bits (64), Expect = 0.37
Identities = 10/23 (43%), Positives = 11/23 (47%), Gaps = 5/23 (21%)
Query: 5 KKDLAK----CKLYAQFDSEDGL 23
K+ L K KLYA DS L
Sbjct: 19 KQALKKLQASLKLYAD-DSAPAL 40
>2wp8_J Exosome complex exonuclease DIS3; nucleus, hydrolase, RNA-binding,
exonucle binding, mitochondrion, rRNA processing; 3.00A
{Saccharomyces cerevisiae}
Length = 977
Score = 27.4 bits (61), Expect = 1.8
Identities = 4/47 (8%), Positives = 19/47 (40%)
Query: 94 KEHDVTNEVLDLNFAVTEEIFGQAKERELKPGGRNIAVTEKNKKTYV 140
+ T + ++ + ++++P + + + ++ + YV
Sbjct: 334 SSSNTTVISDKQRRLLAKDAMIAQRSKKIQPTAKVVYIQRRSWRQYV 380
>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 = 27.3 bits (61), Expect = 1.8
Identities = 4/47 (8%), Positives = 19/47 (40%)
Query: 94 KEHDVTNEVLDLNFAVTEEIFGQAKERELKPGGRNIAVTEKNKKTYV 140
+ T + ++ + ++++P + + + ++ + YV
Sbjct: 117 SSSNTTVISDKQRRLLAKDAMIAQRSKKIQPTAKVVYIQRRSWRQYV 163
>3h6g_A Glutamate receptor, ionotropic kainate 2; membrane protein
glycoprotein, cell junction, cell membrane,
glycoprotein, ION transport; HET: NAG TLA; 2.70A {Rattus
norvegicus} PDB: 3h6h_A* 3qlv_C 3qlu_C* 3qlt_A* 3olz_A*
Length = 395
Score = 26.2 bits (57), Expect = 4.5
Identities = 9/70 (12%), Positives = 25/70 (35%)
Query: 53 NDTYTVQISPMSAFVDNYHEPVALSDLESLDNEFHQSLLWIKEHDVTNEVLDLNFAVTEE 112
+ T +++ + Y+ + + L + + L +K + + D + +
Sbjct: 147 DSTGLIRLQELIKAPSRYNLRLKIRQLPADTKDAKPLLKEMKRGKEFHVIFDCSHEMAAG 206
Query: 113 IFGQAKEREL 122
I QA +
Sbjct: 207 ILKQALAMGM 216
>2fge_A Atprep2;, zinc metalloprotease (insulinase family); peptidasome,
protease-peptide complex, hydrolase, plant protein;
2.10A {Arabidopsis thaliana} SCOP: d.185.1.1 d.185.1.1
d.185.1.1 d.185.1.1
Length = 995
Score = 25.6 bits (55), Expect = 6.9
Identities = 21/92 (22%), Positives = 32/92 (34%), Gaps = 4/92 (4%)
Query: 28 PSREFFFLLSRQLFNPYYGLFEYSANDTYTVQISPMSAF---VDNYHEPVALSDLESLDN 84
P +E F L + + + F Y Y V + F VD Y + V +
Sbjct: 91 PVKEPFVELLKGSLHTFLNAFTYPDRTCYPVASTNTKDFYNLVDVYLDAVFFPKCVDDAH 150
Query: 85 EFHQSLLWIKEHDVTNEVLDLNFAVTEEIFGQ 116
F Q W E + +E + V E+ G
Sbjct: 151 TFQQE-GWHYELNDPSEDISYKGVVFNEMKGV 181
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
0.317 0.135 0.392
Gapped
Lambda K H
0.267 0.0659 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,070,674
Number of extensions: 111339
Number of successful extensions: 209
Number of sequences better than 10.0: 1
Number of HSP's gapped: 203
Number of HSP's successfully gapped: 24
Length of query: 140
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 56
Effective length of database: 4,356,429
Effective search space: 243960024
Effective search space used: 243960024
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.0 bits)