RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15037
(149 letters)
>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo
sapiens}
Length = 80
Score = 43.1 bits (101), Expect = 1e-06
Identities = 11/36 (30%), Positives = 17/36 (47%), Gaps = 5/36 (13%)
Query: 5 EDGCKRIGCTE-----CGFVFCKDCLQGAHIGPCDP 35
E +++ C CGF FC++C + H G C
Sbjct: 40 EPDQRKVTCEGGNGLGCGFAFCRECKEAYHEGECSA 75
>2vrw_B P95VAV, VAV1, proto-oncogene VAV; lipoprotein, GTP-binding,
metal-binding, phosphoprotein, exchange factor, RAC,
GTPase, membrane domain; 1.85A {Mus musculus} PDB:
3bji_A 1f5x_A
Length = 406
Score = 35.2 bits (81), Expect = 0.005
Identities = 11/32 (34%), Positives = 13/32 (40%), Gaps = 4/32 (12%)
Query: 13 CTECGFVFCKDCLQGAHIGPCDPGRTSMDQGG 44
C C K+CL + PC GR D G
Sbjct: 377 CYRCRAPAHKECL--GRVPPC--GRHGQDFAG 404
>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase;
NMR {Homo sapiens} SCOP: g.44.1.1
Length = 60
Score = 28.9 bits (65), Expect = 0.15
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 107 IKVSTKPCPSCRTATERAG 125
I +TK CP C E+ G
Sbjct: 2 IAANTKECPKCHVTIEKDG 20
>3ky9_A Proto-oncogene VAV; calponin homology domain, DBL homology domain,
pleckst homology domain, C1 domain, guanine-nucleotide
releasing FA metal-binding; 2.73A {Homo sapiens} PDB:
2d86_A
Length = 587
Score = 30.4 bits (68), Expect = 0.20
Identities = 11/32 (34%), Positives = 13/32 (40%), Gaps = 4/32 (12%)
Query: 13 CTECGFVFCKDCLQGAHIGPCDPGRTSMDQGG 44
C C K+CL + PC GR D G
Sbjct: 549 CHRCRASAHKECL--GRVPPC--GRHGQDFPG 576
>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding;
HET: SUC; 1.50A {Homo sapiens}
Length = 64
Score = 28.2 bits (63), Expect = 0.26
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 1 MNEGEDGCKRIGCTECGFVFCKDCLQ 26
+E + I TECG VFC CL+
Sbjct: 13 YSEIVQNGRLIVSTECGHVFCSQCLR 38
>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex,
chimera; 2.21A {Rattus norvegicus}
Length = 133
Score = 29.0 bits (64), Expect = 0.41
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 1 MNEGEDGCKRIGCTECGFVFCKDCLQ 26
+E + I TECG VFC CL+
Sbjct: 17 YSEIVQNGRLIVSTECGHVFCSQCLR 42
Score = 26.7 bits (58), Expect = 2.6
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 1 MNEGEDGCKRIGCTECGFVFCKDCLQ 26
+E + I TECG VFC CL+
Sbjct: 82 YSEIVQNGRLIVSTECGHVFCSQCLR 107
>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase,
ubiquitylation, sumoylation, zinc-FI metal binding
protein; 1.80A {Rattus norvegicus}
Length = 71
Score = 27.5 bits (61), Expect = 0.60
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 1 MNEGEDGCKRIGCTECGFVFCKDCLQ 26
+E + I TECG VFC CL+
Sbjct: 20 YSEIVQNGRLIVSTECGHVFCSQCLR 45
>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: g.44.1.4
Length = 86
Score = 27.3 bits (60), Expect = 0.86
Identities = 6/21 (28%), Positives = 7/21 (33%)
Query: 4 GEDGCKRIGCTECGFVFCKDC 24
E C +C FC C
Sbjct: 37 YEREQLEATCPQCHQTFCVRC 57
>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 = 27.6 bits (60), Expect = 1.2
Identities = 9/27 (33%), Positives = 14/27 (51%), Gaps = 2/27 (7%)
Query: 73 ERTSMDQGGASTSDYAVD--PTRASQA 97
E+ ++ + AS YA D P A +A
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKA 44
>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 69
Score = 26.0 bits (57), Expect = 1.6
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 1 MNEGEDGCKRIGCTECGFVFCKDCLQ 26
+E + I TECG VFC CL+
Sbjct: 25 YSEIVQNGRLIVSTECGHVFCSQCLR 50
>3mpx_A FYVE, rhogef and PH domain-containing protein 5; structural
genomics consortium, DH domain, SGC, L binding protein;
2.80A {Homo sapiens}
Length = 434
Score = 27.3 bits (60), Expect = 2.4
Identities = 5/12 (41%), Positives = 8/12 (66%)
Query: 13 CTECGFVFCKDC 24
C CG + C++C
Sbjct: 394 CHACGKIVCRNC 405
>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin
ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB:
2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A
2ldr_A*
Length = 389
Score = 26.6 bits (58), Expect = 3.4
Identities = 5/14 (35%), Positives = 6/14 (42%)
Query: 13 CTECGFVFCKDCLQ 26
CG + C CL
Sbjct: 347 IEPCGHLMCTSCLT 360
>1z6u_A NP95-like ring finger protein isoform B; structural genomics
consortium, ligase, ubiquitin-protein ligase, cell cycle
regulation, SGC; 2.10A {Homo sapiens}
Length = 150
Score = 26.1 bits (57), Expect = 3.4
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 14 TECGFVFCKDCLQGA 28
TEC CKDCLQ +
Sbjct: 94 TECFHNVCKDCLQRS 108
>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA
repair, ring finger domain, metal binding, DNA
replication; 1.75A {Homo sapiens}
Length = 124
Score = 25.7 bits (56), Expect = 4.1
Identities = 7/15 (46%), Positives = 8/15 (53%)
Query: 14 TECGFVFCKDCLQGA 28
T C CKDCL +
Sbjct: 68 TVCQHNVCKDCLDRS 82
>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 71
Score = 24.8 bits (54), Expect = 5.1
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 13 CTECGFVFCKDCLQGA 28
C VFC C++GA
Sbjct: 30 SLPCKHVFCYLCVKGA 45
>1zbd_B Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis,
RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus}
SCOP: g.50.1.1
Length = 134
Score = 25.7 bits (55), Expect = 5.1
Identities = 6/21 (28%), Positives = 8/21 (38%)
Query: 4 GEDGCKRIGCTECGFVFCKDC 24
G G + C +C C C
Sbjct: 66 GMLGSASVVCEDCKKNVCTKC 86
>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin
ligase, protein binding complex; 4.80A {Homo sapiens}
Length = 149
Score = 25.8 bits (56), Expect = 5.2
Identities = 4/13 (30%), Positives = 5/13 (38%)
Query: 14 TECGFVFCKDCLQ 26
C FC C+
Sbjct: 80 LNCAHSFCSYCIN 92
>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; HET: MSE; 2.29A {Homo
sapiens}
Length = 100
Score = 25.2 bits (55), Expect = 5.7
Identities = 4/14 (28%), Positives = 7/14 (50%)
Query: 13 CTECGFVFCKDCLQ 26
C C + C C++
Sbjct: 38 CPHCSKLCCFSCIR 51
>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb,
E3-ligase, nuclear protein, chromosomal protein,
transcription regulation; 2.0A {Mus musculus} PDB:
3rpg_B 2h0d_A
Length = 108
Score = 24.8 bits (54), Expect = 8.6
Identities = 6/14 (42%), Positives = 7/14 (50%)
Query: 13 CTECGFVFCKDCLQ 26
EC FCK C+
Sbjct: 31 IIECLHSFCKTCIV 44
>1llf_A Lipase 3; candida cylindracea cholesterol esterase, sterol ester
acylh hydrolase; HET: NAG F23; 1.40A {Candida
cylindracea} SCOP: c.69.1.17 PDB: 1cle_A* 1lpm_A*
1lpn_A* 1lpo_A* 1lpp_A* 1lps_A* 1crl_A* 1trh_A* 3rar_A*
1gz7_A*
Length = 534
Score = 25.5 bits (56), Expect = 9.1
Identities = 8/43 (18%), Positives = 12/43 (27%)
Query: 20 FCKDCLQGAHIGPCDPGRTSMDQGGASTSDYAVDPTRASQDCL 62
+ C+Q G + S S+DCL
Sbjct: 56 YGPSCMQQNPEGTFEENLGKTALDLVMQSKVFQAVLPQSEDCL 98
>2ecy_A TNF receptor-associated factor 3; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 66
Score = 24.0 bits (52), Expect = 9.2
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 14 TECGFVFCKDCLQ 26
TECG FC+ C+
Sbjct: 31 TECGHRFCESCMA 43
>1z60_A TFIIH basal transcription factor complex P44 subunit; basic
transcription factor, zinc binding protein, ring
finger; NMR {Homo sapiens} SCOP: g.49.1.2
Length = 59
Score = 23.7 bits (51), Expect = 9.3
Identities = 7/12 (58%), Positives = 7/12 (58%)
Query: 13 CTECGFVFCKDC 24
C C VFC DC
Sbjct: 33 CAVCQNVFCVDC 44
>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics,
ring-finger, riken structural genomics/proteomics
initiative, RSGI; NMR {Arabidopsis thaliana} SCOP:
g.44.1.1
Length = 93
Score = 24.3 bits (52), Expect = 9.6
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 4 GEDGCKRIGCTECGFVFCKDCLQ 26
+G + C ECGF C+ C +
Sbjct: 29 TVEGDLFVACNECGFPACRPCYE 51
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 0.134 0.428
Gapped
Lambda K H
0.267 0.0544 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,199,836
Number of extensions: 113374
Number of successful extensions: 372
Number of sequences better than 10.0: 1
Number of HSP's gapped: 369
Number of HSP's successfully gapped: 70
Length of query: 149
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 64
Effective length of database: 4,328,508
Effective search space: 277024512
Effective search space used: 277024512
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: 53 (24.6 bits)