RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14609
(171 letters)
>3olm_A E3 ubiquitin-protein ligase RSP5; ligase; 2.50A {Saccharomyces
cerevisiae}
Length = 429
Score = 278 bits (713), Expect = 4e-94
Identities = 86/166 (51%), Positives = 114/166 (68%), Gaps = 1/166 (0%)
Query: 6 KRIVRWRLERGVADQTESLVRGFYEVVDPRLVSVFDARELELVIAGTAEIDLGDWASNTE 65
+ +WR+ V +Q ++ + GF E++ LV+VFD RELEL+I G AEID+ DW +T+
Sbjct: 265 ELYTQWRIVDRVQEQFKAFMDGFNELIPEDLVTVFDERELELLIGGIAEIDIEDWKKHTD 324
Query: 66 YRSGYHDGHPVIQWFWQAIERFTNEQRLRLLQFVTGTSSVPYEGFSALRGSTGPRKFCIE 125
YR GY + VIQWFW+ + + NEQR RLLQF TGTS +P GF L+GS GPR+F IE
Sbjct: 325 YR-GYQESDEVIQWFWKCVSEWDNEQRARLLQFTTGTSRIPVNGFKDLQGSDGPRRFTIE 383
Query: 126 KWGKPNSLPRAHTCFNRLDLPPYPTPEVLYEKLLLAVEETNTFGIE 171
K G+ LP++HTCFNR+DLP Y + + +KL LAVEET FG E
Sbjct: 384 KAGEVQQLPKSHTCFNRVDLPQYVDYDSMKQKLTLAVEETIGFGQE 429
>1zvd_A SMAD ubiquitination regulatory factor 2; ubiquitin ligasecatalytic
mechanism,X-RAY ligase; 2.10A {Homo sapiens}
Length = 380
Score = 269 bits (689), Expect = 5e-91
Identities = 82/167 (49%), Positives = 111/167 (66%), Gaps = 2/167 (1%)
Query: 6 KRIVRWRLERGVADQTESLVRGFYEVVDPRLVSVFDARELELVIAGTAEIDLGDWASNTE 65
+ V WR RG+ Q +L +GF EV+ L+ FD +ELEL+I G +ID+ DW NT
Sbjct: 215 RLYVNWRFLRGIEAQFLALQKGFNEVIPQHLLKTFDEKELELIICGLGKIDVNDWKVNTR 274
Query: 66 YRSGYHDGHPVIQWFWQAIERFTNEQRLRLLQFVTGTSSVPYEGFSALRGSTGPRKFCIE 125
+ +++WFW+A+E F E+R RLLQFVTG+S VP +GF AL+G+ GPR F I
Sbjct: 275 LK-HCTPDSNIVKWFWKAVEFFDEERRARLLQFVTGSSRVPLQGFKALQGAAGPRLFTIH 333
Query: 126 KWGK-PNSLPRAHTCFNRLDLPPYPTPEVLYEKLLLAVEETNTFGIE 171
+ N+LP+AHTCFNR+D+PPY + E LYEKLL A+EET F +E
Sbjct: 334 QIDACTNNLPKAHTCFNRIDIPPYESYEKLYEKLLTAIEETCGFAVE 380
>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 = 269 bits (690), Expect = 5e-91
Identities = 83/158 (52%), Positives = 109/158 (68%)
Query: 6 KRIVRWRLERGVADQTESLVRGFYEVVDPRLVSVFDARELELVIAGTAEIDLGDWASNTE 65
+++WR V Q + + GF E++ L+ +FD ELEL++ G ++D+ DW ++
Sbjct: 234 DLVIQWRFVNRVQKQMNAFLEGFTELLPIDLIKIFDENELELLMCGLGDVDVNDWRQHSI 293
Query: 66 YRSGYHDGHPVIQWFWQAIERFTNEQRLRLLQFVTGTSSVPYEGFSALRGSTGPRKFCIE 125
Y++GY HPVIQWFW+A+ E+R+RLLQFVTGTS VP GF+ L GS GP+ F IE
Sbjct: 294 YKNGYCPNHPVIQWFWKAVLLMDAEKRIRLLQFVTGTSRVPMNGFAELYGSNGPQLFTIE 353
Query: 126 KWGKPNSLPRAHTCFNRLDLPPYPTPEVLYEKLLLAVE 163
+WG P LPRAHTCFNRLDLPPY T E L EKLL+AVE
Sbjct: 354 QWGSPEKLPRAHTCFNRLDLPPYETFEDLREKLLMAVE 391
>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 = 268 bits (687), Expect = 8e-91
Identities = 86/160 (53%), Positives = 107/160 (66%), Gaps = 1/160 (0%)
Query: 6 KRIVRWRLERGVADQTESLVRGFYEVVDPRLVSVFDARELELVIAGTAEIDLGDWASNTE 65
+ WR RGV +QT++ + GF EVV + + FD +ELE+++ G E+DL DW NT
Sbjct: 215 GLMTEWRFSRGVQEQTKAFLDGFNEVVPLQWLQYFDEKELEVMLCGMQEVDLADWQRNTV 274
Query: 66 YRSGYHDGHPVIQWFWQAIERFTNEQRLRLLQFVTGTSSVPYEGFSALRGSTGPRKFCIE 125
YR Y I WFWQ ++ NE R+RLLQFVTGT +P GF+ L GS GP+KFCIE
Sbjct: 275 YR-HYTRNSKQIIWFWQFVKETDNEVRMRLLQFVTGTCRLPLGGFAELMGSNGPQKFCIE 333
Query: 126 KWGKPNSLPRAHTCFNRLDLPPYPTPEVLYEKLLLAVEET 165
K GK LPR+HTCFNRLDLPPY + E L EKLL A+EET
Sbjct: 334 KVGKDTWLPRSHTCFNRLDLPPYKSYEQLKEKLLFAIEET 373
>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 = 265 bits (679), Expect = 3e-89
Identities = 74/167 (44%), Positives = 103/167 (61%), Gaps = 3/167 (1%)
Query: 6 KRIVRWRLERGVADQTESLVRGFYEVVDPRLVSVFDARELELVIAGTAEIDLGDWASNTE 65
+ + R+ + Q + + GFYE++ RL+S+F +ELEL+I+G ID+ D SNTE
Sbjct: 239 HLVCQMRMTGAIRKQLAAFLEGFYEIIPKRLISIFTEQELELLISGLPTIDIDDLKSNTE 298
Query: 66 YRSGYHDGHPVIQWFWQAIERFTNEQRLRLLQFVTGTSSVPYEGFSALRGSTGPRKFCIE 125
Y Y IQWFW+A+ F R + LQFVTGTS VP +GF+AL G G +KF I
Sbjct: 299 YH-KYQSNSIQIQWFWRALRSFDQADRAKFLQFVTGTSKVPLQGFAALEGMNGIQKFQIH 357
Query: 126 KWGK-PNSLPRAHTCFNRLDLPPYPTPEVLYEKLLLAVEETNT-FGI 170
+ + + LP AHTCFN+LDLP Y + E L LLLA++E + FG+
Sbjct: 358 RDDRSTDRLPSAHTCFNQLDLPAYESFEKLRHMLLLAIQEASEGFGL 404
>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 = 246 bits (631), Expect = 1e-82
Identities = 59/167 (35%), Positives = 81/167 (48%), Gaps = 9/167 (5%)
Query: 6 KRIVRWRLERGVADQTESLVRGFYEVVDPR-LVSVFDARELELVIAGTAEIDLGDWASNT 64
+ L + V Q ++ RGF+ V + L +F E+EL+I G+ +D T
Sbjct: 198 NLYSDYILNKSVEKQFKAFRRGFHMVTNESPLKYLFRPEEIELLICGSRNLDFQALEETT 257
Query: 65 EYRSGYHDGHPVIQWFWQAIERFTNEQRLRLLQFVTGTSSVPYEGFSALRGSTGPRKFCI 124
EY GY +I+ FW+ + FT+EQ+ LQF TGT P G L K I
Sbjct: 258 EYDGGYTRDSVLIREFWEIVHSFTDEQKRLFLQFTTGTDRAPVGGLGKL-------KMII 310
Query: 125 EKWGK-PNSLPRAHTCFNRLDLPPYPTPEVLYEKLLLAVEETNTFGI 170
K G LP +HTCFN L LP Y + E L E+LL A+ FG+
Sbjct: 311 AKNGPDTERLPTSHTCFNVLLLPEYSSKEKLKERLLKAITYAKGFGM 357
>3pt3_A E3 ubiquitin-protein ligase UBR5; EDD, HHYD, mixed alpha-beta fold,
ubiquitin ligase; 1.97A {Homo sapiens}
Length = 118
Score = 163 bits (415), Expect = 5e-53
Identities = 33/122 (27%), Positives = 55/122 (45%), Gaps = 14/122 (11%)
Query: 54 EIDLGDWASNTEYRSGYHDGH----PVIQWFWQAIERFTNEQRLRLLQFVTGTSSVP--Y 107
+ S T + + +WFW +E+ + +R L+ F T + S+P
Sbjct: 3 LGSVQMLISFTSFNDESGENAEKLLQFKRWFWSIVEKMSMTERQDLVYFWTSSPSLPASE 62
Query: 108 EGFSALRGSTGPRKFCIEKWGKPNSLPRAHTCFNRLDLPPYPTPEVLYEKLLLAVEETNT 167
EGF + + LP A+TC +RL +P Y + ++L +KLLLA++ N
Sbjct: 63 EGFQPM-------PSITIRPPDDQHLPTANTCISRLYVPLYSSKQILKQKLLLAIKTKN- 114
Query: 168 FG 169
FG
Sbjct: 115 FG 116
>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 = 39.3 bits (91), Expect = 3e-04
Identities = 33/208 (15%), Positives = 59/208 (28%), Gaps = 89/208 (42%)
Query: 26 RGFYEVVDPRLVSVFD--ARELELVIAGTAE--------IDLGDWASNTEYR--SGYHDG 73
R Y+ + + A L +I T + +++ +W N Y
Sbjct: 174 RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS 233
Query: 74 HPV----IQWFWQAIERFTNEQRLRLLQF--------VTGTSSVPYEGFSALRGSTGPRK 121
P+ I ++Q + G + P E S L+G+TG +
Sbjct: 234 IPISCPLIG----------------VIQLAHYVVTAKLLGFT--PGELRSYLKGATGHSQ 275
Query: 122 -----FCIEK---W-----------------GKPNSLPRAHTCFNRLDLPP--------- 147
I + W G R + + LPP
Sbjct: 276 GLVTAVAIAETDSWESFFVSVRKAITVLFFIGV-----RCYEAYPNTSLPPSILEDSLEN 330
Query: 148 ---YPTP-----EVLYEKLLLAVEETNT 167
P+P + E++ V +TN+
Sbjct: 331 NEGVPSPMLSISNLTQEQVQDYVNKTNS 358
>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 = 0.021
Identities = 22/154 (14%), Positives = 44/154 (28%), Gaps = 36/154 (23%)
Query: 30 EVVDPRLVSVFDARELELVIAGTAEIDLGDWASNTEYRSGYHDGHPVIQWFWQAIERFTN 89
V + + + F+ L+ T T++ S H + T
Sbjct: 252 NVQNAKAWNAFNLSCKILLT--TRF------KQVTDFLSAATTTHISLD---HHSMTLTP 300
Query: 90 EQRLRLLQFVTGTS--SVPYEGFSALRGSTGPRKFCI------------EKWGKPNSLPR 135
++ LL +P E L + PR+ I + W N
Sbjct: 301 DEVKSLLLKYLDCRPQDLPRE---VLTTN--PRRLSIIAESIRDGLATWDNWKHVNCDKL 355
Query: 136 AHT---CFNRLDLPPYPTPEVLYEKLLLAVEETN 166
N L+ P + ++++L + +
Sbjct: 356 TTIIESSLNVLE--PAEYRK-MFDRLSVFPPSAH 386
Score = 29.8 bits (66), Expect = 0.48
Identities = 15/158 (9%), Positives = 44/158 (27%), Gaps = 48/158 (30%)
Query: 5 RKRIVRW-RLERGVADQTESLVRGFYEVVDPRLVSVFDAREL--ELVIAGTAEIDLGDWA 61
R + W + D+ +++ V++P + R++ L +
Sbjct: 338 RDGLATWDNWKHVNCDKLTTIIESSLNVLEPA-----EYRKMFDRLSV------------ 380
Query: 62 SNTEYRSGYHDGHPVIQWFWQAIERFTNEQRLRLLQFVTGTSSVPYEGFSALRGSTGPRK 121
+ H ++ W + + + L +
Sbjct: 381 ----FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLH----------------------KY 414
Query: 122 FCIEKWGKPNSLPRAHTCFNRLDLPPYPTPEVLYEKLL 159
+EK K +++ + + L + L+ ++
Sbjct: 415 SLVEKQPKESTI-SIPSIYLELKVKLENEYA-LHRSIV 450
>3uim_A Brassinosteroid insensitive 1-associated receptor; kinase, protein
kinase, transferase; HET: SEP TPO ANP; 2.20A
{Arabidopsis thaliana} PDB: 3tl8_A*
Length = 326
Score = 29.5 bits (67), Expect = 0.51
Identities = 6/25 (24%), Positives = 11/25 (44%)
Query: 26 RGFYEVVDPRLVSVFDARELELVIA 50
+ +VD L + E+E +I
Sbjct: 259 KKLEALVDVDLQGNYKDEEVEQLIQ 283
>2r7r_A RNA-dependent RNA polymerase; viral protein, RNA-dependent RNA
polymerase, single subunit polymerase fold, fingers,
PALM, thumb; 2.60A {Simian rotavirus} PDB: 2r7q_A 2r7s_A
2r7t_A 2r7u_A 2r7v_A 2r7w_A* 2r7x_A* 2r7o_A
Length = 1095
Score = 27.9 bits (61), Expect = 2.1
Identities = 13/56 (23%), Positives = 22/56 (39%)
Query: 79 WFWQAIERFTNEQRLRLLQFVTGTSSVPYEGFSALRGSTGPRKFCIEKWGKPNSLP 134
+F I NE+R + Q+ + LRG R+F + K + S+
Sbjct: 688 FFRAGINLLNNEKRGQSTQWDQAAILYSNYIVNRLRGFETDREFILTKIMQMTSVA 743
>2qkw_B Protein kinase; three-helix bundle motif, AVRPTO-PTO duplex,
layered beta- sheets, transferas; HET: SEP TPO; 3.20A
{Solanum pimpinellifolium} PDB: 3hgk_A*
Length = 321
Score = 26.0 bits (58), Expect = 6.3
Identities = 5/25 (20%), Positives = 7/25 (28%)
Query: 26 RGFYEVVDPRLVSVFDARELELVIA 50
++VDP L L
Sbjct: 263 GQLEQIVDPNLADKIRPESLRKFGD 287
>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+
protein; 2.10A {Human papillomavirus type 18} SCOP:
c.37.1.20
Length = 212
Score = 25.5 bits (56), Expect = 8.2
Identities = 13/52 (25%), Positives = 24/52 (46%), Gaps = 9/52 (17%)
Query: 81 WQAIERFTNEQRLRLLQFVTGTSSVPYEGFSALRGSTGPRKFCIEKWGKPNS 132
W+ I +F Q++ + F+ S L+G+ P+K C+ G N+
Sbjct: 27 WRPIVQFLRYQQIEFITFLGALKSF-------LKGT--PKKNCLVFCGPANT 69
>2jen_A Xyloglucanase, endo-beta-1,4-glucanase; plant cell WALL,
glycosidase, hydrolase, family 12; HET: GLC BGC DIO;
1.4A {Bacillus licheniformis} PDB: 2jem_A
Length = 261
Score = 25.5 bits (55), Expect = 9.9
Identities = 4/57 (7%), Positives = 17/57 (29%), Gaps = 4/57 (7%)
Query: 60 WASNTEYRSGYHDGHPVIQWFWQAIERFTNEQRLRLLQF----VTGTSSVPYEGFSA 112
+ +S + + + + + + + ++F GT + +
Sbjct: 202 FIRTANTQSANLNIRDFTNYLADSKQWLSKTKYVSSVEFGTEVFGGTGQINISNWDV 258
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 0.437
Gapped
Lambda K H
0.267 0.0786 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,864,484
Number of extensions: 165250
Number of successful extensions: 333
Number of sequences better than 10.0: 1
Number of HSP's gapped: 322
Number of HSP's successfully gapped: 21
Length of query: 171
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 84
Effective length of database: 4,272,666
Effective search space: 358903944
Effective search space used: 358903944
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: 54 (24.5 bits)