RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4370
(191 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 = 55.3 bits (134), Expect = 1e-09
Identities = 14/58 (24%), Positives = 27/58 (46%)
Query: 109 GGSSWDMKTLMECCRIDHGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVG 166
G D+ + +GY N I++ + + + ++ LQFVTG+ R+P+
Sbjct: 279 GLGDVDVNDWRQHSIYKNGYCPNHPVIQWFWKAVLLMDAEKRIRLLQFVTGTSRVPMN 336
>3pt3_A E3 ubiquitin-protein ligase UBR5; EDD, HHYD, mixed alpha-beta fold,
ubiquitin ligase; 1.97A {Homo sapiens}
Length = 118
Score = 52.7 bits (127), Expect = 1e-09
Identities = 11/59 (18%), Positives = 26/59 (44%), Gaps = 4/59 (6%)
Query: 114 DMKTLMECCRIDHGYNHNS----KAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVGAK 168
++ L+ + N+ + ++ + ++ S E++D + F T SP LP +
Sbjct: 5 SVQMLISFTSFNDESGENAEKLLQFKRWFWSIVEKMSMTERQDLVYFWTSSPSLPASEE 63
>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 = 54.5 bits (132), Expect = 2e-09
Identities = 20/58 (34%), Positives = 32/58 (55%)
Query: 109 GGSSWDMKTLMECCRIDHGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVG 166
G + D + L E D GY +S I+ + ++ ++ ++R FLQF TG+ R PVG
Sbjct: 244 GSRNLDFQALEETTEYDGGYTRDSVLIREFWEIVHSFTDEQKRLFLQFTTGTDRAPVG 301
>1zvd_A SMAD ubiquitination regulatory factor 2; ubiquitin ligasecatalytic
mechanism,X-RAY ligase; 2.10A {Homo sapiens}
Length = 380
Score = 52.6 bits (127), Expect = 1e-08
Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 1/58 (1%)
Query: 109 GGSSWDMKTLMECCRIDHGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVG 166
G D+ R+ +S +K+ + + + + LQFVTGS R+P+
Sbjct: 260 GLGKIDVNDWKVNTRL-KHCTPDSNIVKWFWKAVEFFDEERRARLLQFVTGSSRVPLQ 316
>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 = 52.2 bits (126), Expect = 2e-08
Identities = 15/41 (36%), Positives = 22/41 (53%)
Query: 126 HGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVG 166
Y NSK I + + + + + LQFVTG+ RLP+G
Sbjct: 276 RHYTRNSKQIIWFWQFVKETDNEVRMRLLQFVTGTCRLPLG 316
>3olm_A E3 ubiquitin-protein ligase RSP5; ligase; 2.50A {Saccharomyces
cerevisiae}
Length = 429
Score = 51.1 bits (123), Expect = 4e-08
Identities = 12/41 (29%), Positives = 24/41 (58%)
Query: 126 HGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVG 166
GY + + I++ + +S + + ++ LQF TG+ R+PV
Sbjct: 326 RGYQESDEVIQWFWKCVSEWDNEQRARLLQFTTGTSRIPVN 366
>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 = 51.1 bits (123), Expect = 4e-08
Identities = 14/41 (34%), Positives = 24/41 (58%)
Query: 126 HGYNHNSKAIKYLFHVLSCYSSPEQRDFLQFVTGSPRLPVG 166
H Y NS I++ + L + ++ FLQFVTG+ ++P+
Sbjct: 300 HKYQSNSIQIQWFWRALRSFDQADRAKFLQFVTGTSKVPLQ 340
>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 = 40.0 bits (93), Expect = 3e-04
Identities = 40/241 (16%), Positives = 83/241 (34%), Gaps = 82/241 (34%)
Query: 12 PFSRKHMS---------KQRVMSPFKPG-----------LSLLWACYRG------HNQGK 45
PF +K S ++++ F G L L+ Y +
Sbjct: 136 PFDKKSNSALFRAVGEGNAQLVAIF--GGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAE 193
Query: 46 SVSGKSSSKRKADEIWSDGLVPLS------RSPLDPYLSDTLPPSVTITDACLPVLTLLR 99
++S + A+++++ GL L +P YL S+ I+ P++ +++
Sbjct: 194 TLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLL-----SIPIS---CPLIGVIQ 245
Query: 100 VLN--AVNRNWGGSSWDMKTLMECCRIDHG------------------YNHNSKAIKYLF 139
+ + + G + ++++ ++ H + KAI LF
Sbjct: 246 LAHYVVTAKLLGFTPGELRSYLKGA-TGHSQGLVTAVAIAETDSWESFFVSVRKAITVLF 304
Query: 140 HV-LSCY-------SSPEQ-RDFLQFVTG--SPRLPVGAKTKCQPKAITLGLIERLTK-N 187
+ + CY P D L+ G SP L + T+ Q + + + K N
Sbjct: 305 FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQ-------VQDYVNKTN 357
Query: 188 A 188
+
Sbjct: 358 S 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 = 27.5 bits (60), Expect = 3.6
Identities = 24/160 (15%), Positives = 44/160 (27%), Gaps = 35/160 (21%)
Query: 25 SPFKPGLSLLWACYRGH----NQGKSVSGKSSSKRKADEIWSDGLVPLSRSPLDPYLSD- 79
+P + LS++ R + K V+ K I L L +
Sbjct: 326 NPRR--LSIIAESIRDGLATWDNWKHVNCD-----KLTTIIESSLNVLEPAEYRKMFDRL 378
Query: 80 -TLPPSVTITDACLPVL-------------TLLRVLNAVNRNWGGSSW---DMKTLMECC 122
PPS I L ++ L + V + S+ + L
Sbjct: 379 SVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI-YLELKV 437
Query: 123 RIDHGYNHNSKAI-KYLFHVLSCYS--SPEQRD--FLQFV 157
++++ Y + + Y P D F +
Sbjct: 438 KLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHI 477
>3ec9_A Uncharacterized NTF2-like protein; structural genomics, joint
center for STR genomics, JCSG, protein structure
initiative, PSI-2; HET: MSE; 1.60A {Burkholderia
thailandensis E264} SCOP: d.17.4.10
Length = 140
Score = 26.1 bits (57), Expect = 4.7
Identities = 7/47 (14%), Positives = 14/47 (29%)
Query: 3 LTWEVYEEWPFSRKHMSKQRVMSPFKPGLSLLWACYRGHNQGKSVSG 49
+ W +P + + S ++ L W Y +G
Sbjct: 41 IEWTEMAGFPCAGTYRSADEIVRNVFRRLGEEWDGYTFKLDALHDAG 87
>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 = 26.1 bits (56), Expect = 7.0
Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 14/38 (36%)
Query: 50 KSSSKRKADEIWSDGLVPLSRSPLDPYLSDTLPPSVTI 87
K + K+ L S L Y D+ P++ I
Sbjct: 19 KQALKK------------LQAS-LKLYADDS-APALAI 42
>2cu2_A Putative mannose-1-phosphate guanylyl transferase;
mannose-1-phosphate geranyltransferase, thermus
thermophilus structural genomics; 2.20A {Thermus
thermophilus} SCOP: b.81.4.1 c.68.1.20
Length = 337
Score = 25.9 bits (58), Expect = 8.7
Identities = 5/11 (45%), Positives = 6/11 (54%)
Query: 11 WPFSRKHMSKQ 21
WP SR+ K
Sbjct: 17 WPLSREDRPKP 27
>2qh5_A PMI, ALGA, mannose-6-phosphate isomerase; structural genomics,
PSI, protein structure initi nysgrc; 2.30A
{Helicobacter pylori}
Length = 308
Score = 26.0 bits (58), Expect = 9.2
Identities = 6/11 (54%), Positives = 6/11 (54%)
Query: 11 WPFSRKHMSKQ 21
WP SR KQ
Sbjct: 19 WPLSRSLYPKQ 29
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
0.319 0.134 0.433
Gapped
Lambda K H
0.267 0.0746 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,937,396
Number of extensions: 155266
Number of successful extensions: 217
Number of sequences better than 10.0: 1
Number of HSP's gapped: 217
Number of HSP's successfully gapped: 14
Length of query: 191
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 103
Effective length of database: 4,244,745
Effective search space: 437208735
Effective search space used: 437208735
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)