RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14176
(262 letters)
>3olm_A E3 ubiquitin-protein ligase RSP5; ligase; 2.50A {Saccharomyces
cerevisiae}
Length = 429
Score = 173 bits (440), Expect = 9e-52
Identities = 54/123 (43%), Positives = 74/123 (60%), Gaps = 14/123 (11%)
Query: 140 LQLYVNWRFMRGIEQQFLALQKGFTEIVPLHLLRPFDERELELVIGGLTSIDIHDWKQHT 199
++LY WR + +++QF A GF E++P L+ FDERELEL+IGG+ IDI DWK+HT
Sbjct: 264 VELYTQWRIVDRVQEQFKAFMDGFNELIPEDLVTVFDERELELLIGGIAEIDIEDWKKHT 323
Query: 200 RLKQFSNIWHLFFLLSQHCTSDTPVVKWFWQIVESYSEEMRARLLQFVTGSSRVPLQGFK 259
+ V++WFW+ V + E RARLLQF TG+SR+P+ GFK
Sbjct: 324 DYR--------------GYQESDEVIQWFWKCVSEWDNEQRARLLQFTTGTSRIPVNGFK 369
Query: 260 ALQ 262
LQ
Sbjct: 370 DLQ 372
>1zvd_A SMAD ubiquitination regulatory factor 2; ubiquitin ligasecatalytic
mechanism,X-RAY ligase; 2.10A {Homo sapiens}
Length = 380
Score = 171 bits (435), Expect = 2e-51
Identities = 80/123 (65%), Positives = 95/123 (77%), Gaps = 14/123 (11%)
Query: 140 LQLYVNWRFMRGIEQQFLALQKGFTEIVPLHLLRPFDERELELVIGGLTSIDIHDWKQHT 199
++LYVNWRF+RGIE QFLALQKGF E++P HLL+ FDE+ELEL+I GL ID++DWK +T
Sbjct: 214 VRLYVNWRFLRGIEAQFLALQKGFNEVIPQHLLKTFDEKELELIICGLGKIDVNDWKVNT 273
Query: 200 RLKQFSNIWHLFFLLSQHCTSDTPVVKWFWQIVESYSEEMRARLLQFVTGSSRVPLQGFK 259
RLK HCT D+ +VKWFW+ VE + EE RARLLQFVTGSSRVPLQGFK
Sbjct: 274 RLK--------------HCTPDSNIVKWFWKAVEFFDEERRARLLQFVTGSSRVPLQGFK 319
Query: 260 ALQ 262
ALQ
Sbjct: 320 ALQ 322
>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 = 171 bits (435), Expect = 3e-51
Identities = 48/123 (39%), Positives = 69/123 (56%), Gaps = 14/123 (11%)
Query: 140 LQLYVNWRFMRGIEQQFLALQKGFTEIVPLHLLRPFDERELELVIGGLTSIDIHDWKQHT 199
+ L R I +Q A +GF EI+P L+ F E+ELEL+I GL +IDI D K +T
Sbjct: 238 VHLVCQMRMTGAIRKQLAAFLEGFYEIIPKRLISIFTEQELELLISGLPTIDIDDLKSNT 297
Query: 200 RLKQFSNIWHLFFLLSQHCTSDTPVVKWFWQIVESYSEEMRARLLQFVTGSSRVPLQGFK 259
S++ ++WFW+ + S+ + RA+ LQFVTG+S+VPLQGF
Sbjct: 298 EYH--------------KYQSNSIQIQWFWRALRSFDQADRAKFLQFVTGTSKVPLQGFA 343
Query: 260 ALQ 262
AL+
Sbjct: 344 ALE 346
>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 = 168 bits (427), Expect = 2e-50
Identities = 49/123 (39%), Positives = 73/123 (59%), Gaps = 14/123 (11%)
Query: 140 LQLYVNWRFMRGIEQQFLALQKGFTEIVPLHLLRPFDERELELVIGGLTSIDIHDWKQHT 199
+ L WRF RG+++Q A GF E+VPL L+ FDE+ELE+++ G+ +D+ DW+++T
Sbjct: 214 IGLMTEWRFSRGVQEQTKAFLDGFNEVVPLQWLQYFDEKELEVMLCGMQEVDLADWQRNT 273
Query: 200 RLKQFSNIWHLFFLLSQHCTSDTPVVKWFWQIVESYSEEMRARLLQFVTGSSRVPLQGFK 259
+ H T ++ + WFWQ V+ E+R RLLQFVTG+ R+PL GF
Sbjct: 274 VYR--------------HYTRNSKQIIWFWQFVKETDNEVRMRLLQFVTGTCRLPLGGFA 319
Query: 260 ALQ 262
L
Sbjct: 320 ELM 322
>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 = 167 bits (425), Expect = 7e-50
Identities = 50/123 (40%), Positives = 77/123 (62%), Gaps = 13/123 (10%)
Query: 140 LQLYVNWRFMRGIEQQFLALQKGFTEIVPLHLLRPFDERELELVIGGLTSIDIHDWKQHT 199
+ L + WRF+ +++Q A +GFTE++P+ L++ FDE ELEL++ GL +D++DW+QH+
Sbjct: 233 IDLVIQWRFVNRVQKQMNAFLEGFTELLPIDLIKIFDENELELLMCGLGDVDVNDWRQHS 292
Query: 200 RLKQFSNIWHLFFLLSQHCTSDTPVVKWFWQIVESYSEEMRARLLQFVTGSSRVPLQGFK 259
K + + + PV++WFW+ V E R RLLQFVTG+SRVP+ GF
Sbjct: 293 IYK------NGY-------CPNHPVIQWFWKAVLLMDAEKRIRLLQFVTGTSRVPMNGFA 339
Query: 260 ALQ 262
L
Sbjct: 340 ELY 342
>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 = 160 bits (406), Expect = 2e-47
Identities = 34/123 (27%), Positives = 61/123 (49%), Gaps = 14/123 (11%)
Query: 141 QLYVNWRFMRGIEQQFLALQKGFTEIVPLHLLRP-FDERELELVIGGLTSIDIHDWKQHT 199
LY ++ + +E+QF A ++GF + L+ F E+EL+I G ++D ++ T
Sbjct: 198 NLYSDYILNKSVEKQFKAFRRGFHMVTNESPLKYLFRPEEIELLICGSRNLDFQALEETT 257
Query: 200 RLKQFSNIWHLFFLLSQHCTSDTPVVKWFWQIVESYSEEMRARLLQFVTGSSRVPLQGFK 259
T D+ +++ FW+IV S+++E + LQF TG+ R P+ G
Sbjct: 258 EYDG-------------GYTRDSVLIREFWEIVHSFTDEQKRLFLQFTTGTDRAPVGGLG 304
Query: 260 ALQ 262
L+
Sbjct: 305 KLK 307
>3pt3_A E3 ubiquitin-protein ligase UBR5; EDD, HHYD, mixed alpha-beta fold,
ubiquitin ligase; 1.97A {Homo sapiens}
Length = 118
Score = 90.8 bits (226), Expect = 2e-23
Identities = 17/75 (22%), Positives = 24/75 (32%), Gaps = 11/75 (14%)
Query: 190 IDIHDWKQHTRLKQFSNIWHLFFLLSQHCTSDTPVVKWFWQIVESYSEEMRARLLQFVTG 249
+ T S +WFW IVE S R L+ F T
Sbjct: 4 GSVQMLISFTSFNDESGENA---------EKLLQFKRWFWSIVEKMSMTERQDLVYFWTS 54
Query: 250 SSRVPL--QGFKALQ 262
S +P +GF+ +
Sbjct: 55 SPSLPASEEGFQPMP 69
>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 = 37.0 bits (85), Expect = 0.007
Identities = 37/201 (18%), Positives = 66/201 (32%), Gaps = 69/201 (34%)
Query: 95 TYNHG---HRLYV---NWRFMRGIEQQFLA--LQKGFTHWIL----GLLRYWENPTMLQL 142
T +HG H L V ++ F+A LQ+ F + G E T +L
Sbjct: 10 TLSHGSLEHVLLVPTASF---------FIASQLQEQFNKILPEPTEGFAADDEPTTPAEL 60
Query: 143 YVNWRFMRGIEQQFLALQKGFTEIVPLHLLRPFDERELELVIGGLTSIDIHDWKQHTRLK 202
+F+ + + G + V L F E L DIH
Sbjct: 61 VG--KFLGYVSSLVEPSKVGQFDQVLNLCLTEF-ENCY------LEGNDIHA-------- 103
Query: 203 QFSNIWHLFFLLSQHCTSDTPVVKWFWQIVESY-----------SEEMRARLLQFV-TGS 250
+DT +VK +++++Y ++ + L + V G+
Sbjct: 104 ---------LAAKLLQENDTTLVKTK-ELIKNYITARIMAKRPFDKKSNSALFRAVGEGN 153
Query: 251 SRVPL----QG-----FKALQ 262
+++ QG F+ L+
Sbjct: 154 AQLVAIFGGQGNTDDYFEELR 174
Score = 31.9 bits (72), Expect = 0.25
Identities = 41/277 (14%), Positives = 81/277 (29%), Gaps = 96/277 (34%)
Query: 25 VAFVLCGEDHISLDKFCQIFQAKGMILGLSDQMILALSDDLSVHG--------------- 69
++ L I + + + +LG + + + + H
Sbjct: 236 ISCPL-----IGVIQLAH-YVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSW 289
Query: 70 ---FKN--KM--WKFSLGQHCHQ-----NKSKSTCYDTYNHGHR-----LYVNWRFMRGI 112
F + K F +G C++ + S D+ + L + +
Sbjct: 290 ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI-----SNL 344
Query: 113 EQQFL-------------------ALQKGFTHWIL-GLLRYWENPTMLQ-LYVNWRFMR- 150
Q+ + +L G + ++ G P L L + R +
Sbjct: 345 TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG------PPQSLYGLNLTLRKAKA 398
Query: 151 --GIEQQ---F----LALQKGFTEI-VPLH--LLRPFDERELELVIGGLTSIDIHDWK-- 196
G++Q F L F + P H LL P + + ++ S + D +
Sbjct: 399 PSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIP 458
Query: 197 -QHTR----LKQFS-NIWHLFFLLSQHCTSDTPVVKW 227
T L+ S +I ++ P VKW
Sbjct: 459 VYDTFDGSDLRVLSGSI--SERIVDCIIRL--P-VKW 490
Score = 30.8 bits (69), Expect = 0.48
Identities = 27/139 (19%), Positives = 48/139 (34%), Gaps = 30/139 (21%)
Query: 45 QAKGMILGL---SD--QMILALSDDLSVHGFKNKMWKFSLGQHCHQNKSKSTCYDTYNHG 99
Q +GM + L S Q + +D+ H FK+ FS+ N T + G
Sbjct: 1627 QEQGMGMDLYKTSKAAQDVWNRADN---H-FKDTY-GFSILDIVINNPVNLTIHFGGEKG 1681
Query: 100 HRLYVNWRFM---------RGIEQQFLALQKGFTHWIL----GLLRYWEN--PTMLQL-Y 143
R+ N+ M E+ F + + T + GLL + P + +
Sbjct: 1682 KRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEK 1741
Query: 144 VNWRFMR--GIEQQ--FLA 158
+ ++ G+ A
Sbjct: 1742 AAFEDLKSKGLIPADATFA 1760
Score = 28.5 bits (63), Expect = 2.6
Identities = 34/203 (16%), Positives = 61/203 (30%), Gaps = 68/203 (33%)
Query: 93 YDTYNHGHRLYVNWRFMRGIEQQFLAL-------QKGFTHWILGL-LRYW-ENPT----- 138
Y TY+ V ++ + L +K FT GL + W ENP+
Sbjct: 177 YQTYHV----LVG-DLIKFSAETLSELIRTTLDAEKVFTQ---GLNILEWLENPSNTPDK 228
Query: 139 --MLQLYVNWRFMRGIEQ--QFLALQK--GFTEIVPLHLLRPFDERELELVIGGLTSI-- 190
+L + ++ + G+ Q ++ K GFT P EL + G T
Sbjct: 229 DYLLSIPISCPLI-GVIQLAHYVVTAKLLGFT---P---------GELRSYLKGATGHSQ 275
Query: 191 DI---------HDWKQHTRLKQFSNIWHLFFLLSQHCTSDTPVVKWFWQIVESYSEE--- 238
+ W+ + F + C P + S E
Sbjct: 276 GLVTAVAIAETDSWESF--FVSVRKAITVLFFIGVRCYEAYPNTS-LPPSILEDSLENNE 332
Query: 239 -----MRARLLQFVTGSSRVPLQ 256
M + ++ ++ +Q
Sbjct: 333 GVPSPMLS-----ISNLTQEQVQ 350
>4fca_A Conserved domain protein; structural genomics, the center for
structural genomics of I diseases, csgid, niaid; 2.06A
{Bacillus anthracis}
Length = 525
Score = 34.1 bits (77), Expect = 0.043
Identities = 15/95 (15%), Positives = 23/95 (24%), Gaps = 4/95 (4%)
Query: 68 HGFKNKMWKFSLGQHCHQNKSKSTCYDTYNHGHRLYVNWRFMRGIEQQFLALQKGFTHWI 127
H + W + N T+ H RL R+ L K
Sbjct: 256 HQHQQDTWLWDGLGEVTVNIYSLAVQTTFGHKTRLEQEGRYEAAFAY----LGKPDAQEK 311
Query: 128 LGLLRYWENPTMLQLYVNWRFMRGIEQQFLALQKG 162
+ L L +F + Q + L
Sbjct: 312 MNEFEKLVMFWQLHLAYGDQFYPNLHQMYRLLHDT 346
>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 = 34.1 bits (77), Expect = 0.043
Identities = 23/155 (14%), Positives = 61/155 (39%), Gaps = 31/155 (20%)
Query: 50 ILGLSDQMILALSDDLSVHGFKNKMWKFSLGQHCHQNKSKSTCYDTY--NH-GH------ 100
I + ++ + L ++ ++H ++ + +++ + + D Y +H GH
Sbjct: 428 IPSIYLELKVKLENEYALH--RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE 485
Query: 101 ---------RLYVNWRFMRG-IEQQFLALQ-KGFTHWILGLLRYWE-----NPTMLQLYV 144
+++++RF+ I A G L L++++ N + V
Sbjct: 486 HPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLV 545
Query: 145 N--WRFMRGIEQQFLALQKGFTEIVPLHLLRPFDE 177
N F+ IE+ + +T+++ + L+ +
Sbjct: 546 NAILDFLPKIEENL--ICSKYTDLLRIALMAEDEA 578
>2hjn_A MPS1 binder 1, maintenance of ploidy protein MOB1; homodimer, cell
cycle; 2.00A {Saccharomyces cerevisiae}
Length = 236
Score = 27.9 bits (61), Expect = 2.9
Identities = 6/33 (18%), Positives = 16/33 (48%)
Query: 190 IDIHDWKQHTRLKQFSNIWHLFFLLSQHCTSDT 222
D ++W + ++ I L+ +++ C+ T
Sbjct: 73 EDENEWLAVHCVDFYNQINMLYGSITEFCSPQT 105
>3kq4_B Cubilin; protein-protein complex, cobalt, cobalt transport, disease
M disulfide bond, glycoprotein, secreted, transport,
choleste metabolism; HET: NAG BMA MAN B12; 3.30A {Homo
sapiens}
Length = 457
Score = 27.2 bits (60), Expect = 5.7
Identities = 7/48 (14%), Positives = 17/48 (35%), Gaps = 9/48 (18%)
Query: 213 LLSQHCTSDTPVVKWFWQIVESYSEEMRARLLQFVTGSSRVPLQGFKA 260
+ ++C D P + S ++ + +T +GF+
Sbjct: 415 QMGRYCGVDLP------PPGSTTSSKL---QVLLLTDGVGRREKGFQM 453
>1q80_A SCP, sarcoplasmic calcium-binding protein; all-alpha, metal binding
protein; NMR {Neanthes diversicolor} SCOP: a.39.1.5 PDB:
2scp_A
Length = 174
Score = 26.6 bits (59), Expect = 5.8
Identities = 11/65 (16%), Positives = 26/65 (40%), Gaps = 3/65 (4%)
Query: 3 IATGASMVRDEKQIDLAEQLESVAFVLCGED---HISLDKFCQIFQAKGMILGLSDQMIL 59
I + MV++ + + E + F + +IS D++ F G+ ++
Sbjct: 76 INSMKEMVKNPEAKSVVEGPLPLFFRAVDTNEDNNISRDEYGIFFGMLGLDKTMAPASFD 135
Query: 60 ALSDD 64
A+ +
Sbjct: 136 AIDTN 140
>1pi1_A MOB1A; mitotic EXIT network, mitosis, DBF2, cell cycle; 2.00A {Homo
sapiens} SCOP: a.29.7.1 PDB: 1r3b_A
Length = 185
Score = 26.6 bits (58), Expect = 6.3
Identities = 7/33 (21%), Positives = 17/33 (51%)
Query: 190 IDIHDWKQHTRLKQFSNIWHLFFLLSQHCTSDT 222
D+++W + F+ I L+ +++ CT +
Sbjct: 20 EDLNEWIAVNTVDFFNQINMLYGTITEFCTEAS 52
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 26.8 bits (59), Expect = 8.6
Identities = 6/21 (28%), Positives = 9/21 (42%)
Query: 126 WILGLLRYWENPTMLQLYVNW 146
WI+G + Y + Y W
Sbjct: 856 WIMGFISYHNGNLKGRPYTGW 876
>3fgv_A Uncharacterized protein with ferredoxin-like fold; phosphoserine
aminotransferase SERC, structural genomics; HET: MSE;
1.30A {Silicibacter pomeroyi dss-3}
Length = 106
Score = 25.7 bits (56), Expect = 8.7
Identities = 9/37 (24%), Positives = 16/37 (43%)
Query: 130 LLRYWENPTMLQLYVNWRFMRGIEQQFLALQKGFTEI 166
++ WE P L+ Y+ WR RG + + +
Sbjct: 64 VMHIWETPDALEAYLTWRADRGDFLEINEYLEVEQDF 100
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
0.327 0.139 0.447
Gapped
Lambda K H
0.267 0.0463 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,167,898
Number of extensions: 239428
Number of successful extensions: 592
Number of sequences better than 10.0: 1
Number of HSP's gapped: 579
Number of HSP's successfully gapped: 32
Length of query: 262
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 170
Effective length of database: 4,133,061
Effective search space: 702620370
Effective search space used: 702620370
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (26.0 bits)