RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13098
(81 letters)
>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation;
HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP:
b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB:
1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A*
1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T*
2zit_A* 1u2r_A* 3b78_A* 3b8h_A*
Length = 842
Score = 44.2 bits (104), Expect = 5e-07
Identities = 10/37 (27%), Positives = 17/37 (45%), Gaps = 8/37 (21%)
Query: 39 GDKADTENRARKYMDSVRKRKGLPVQ--------DKL 67
D D ++A + + + RKR G+ + DKL
Sbjct: 806 SDPLDPTSKAGEIVLAARKRHGMKEEVPGWQEYYDKL 842
>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 = 0.50
Identities = 19/82 (23%), Positives = 34/82 (41%), Gaps = 9/82 (10%)
Query: 2 NLCCRGSVDG----LRYFFWFQVINIDPYWEPRTEEEYLHFGDKADTENRARKYMDSVRK 57
GS+ L+++ + + + DP +E R L F K + KY D +
Sbjct: 513 AWNASGSILNTLQQLKFYKPY-ICDNDPKYE-RLVNAILDFLPKIEENLICSKYTDLL-- 568
Query: 58 RKGLPVQDKLVAHAEKQRTVKR 79
R L +D+ + E + V+R
Sbjct: 569 RIALMAEDEAI-FEEAHKQVQR 589
>3gsn_A RA14 TCR alpha chain (TRAV24, TRAJ49); HLA, human
cytomegalovirus, PP65, T cell receptor (TCR), immune
response, public response; 2.80A {Homo sapiens}
Length = 199
Score = 27.2 bits (60), Expect = 0.54
Identities = 3/18 (16%), Positives = 5/18 (27%)
Query: 2 NLCCRGSVDGLRYFFWFQ 19
N C W++
Sbjct: 19 NFTCSFPSSNFYALHWYR 36
>2nw2_A ELS4 TCR alpha chain; T cell receptor, immune system; 1.40A {Homo
sapiens} PDB: 2nx5_D 4dzb_A
Length = 200
Score = 27.2 bits (60), Expect = 0.54
Identities = 5/15 (33%), Positives = 6/15 (40%)
Query: 5 CRGSVDGLRYFFWFQ 19
C G FW+Q
Sbjct: 21 CTYQTSGFNGLFWYQ 35
>1nfd_E H57 FAB; complex (immunoreceptor-immunoglobulin), complex
(immunorece immunoglobulin) complex; HET: NAG NDG;
2.80A {Mus musculus} SCOP: b.1.1.1 b.1.1.2
Length = 212
Score = 26.5 bits (59), Expect = 0.75
Identities = 5/15 (33%), Positives = 7/15 (46%)
Query: 5 CRGSVDGLRYFFWFQ 19
C G + +WFQ
Sbjct: 21 CSGDQLPKNFAYWFQ 35
>1u3h_A T-cell receptor alpha-chain; complex, immune system; 2.42A {Mus
musculus} SCOP: b.1.1.1 PDB: 1b88_A 1kj2_A* 1kb5_A
1d9k_A*
Length = 110
Score = 26.1 bits (58), Expect = 0.80
Identities = 5/15 (33%), Positives = 6/15 (40%)
Query: 5 CRGSVDGLRYFFWFQ 19
C YF W+Q
Sbjct: 21 CSYENSAFDYFPWYQ 35
>3mj8_L Stimulatory hamster antibody HL4E10 FAB light CHA; hamster IGG,
immune system; 2.94A {Cricetulus migratorius} PDB:
3mj9_L*
Length = 213
Score = 26.2 bits (58), Expect = 1.1
Identities = 5/15 (33%), Positives = 6/15 (40%)
Query: 5 CRGSVDGLRYFFWFQ 19
C G Y W+Q
Sbjct: 22 CSGDKLSDVYVHWYQ 36
>3r06_A Anti-mouse CD3epsilon antibody 2C11 FAB light CHA;
anti-CD3epsilon, T-cell receptor, signalling, IMMU;
2.50A {Cricetulus migratorius} PDB: 3r08_L 3ld8_B
3ldb_B*
Length = 213
Score = 25.6 bits (57), Expect = 1.5
Identities = 6/15 (40%), Positives = 8/15 (53%)
Query: 5 CRGSVDGLRYFFWFQ 19
C+ S D Y W+Q
Sbjct: 23 CQASQDISNYLNWYQ 37
>3bqu_C 3H6 FAB light chain; beta sheet, immune system; 3.00A {Mus
musculus}
Length = 233
Score = 25.7 bits (57), Expect = 1.5
Identities = 5/15 (33%), Positives = 6/15 (40%)
Query: 5 CRGSVDGLRYFFWFQ 19
C S D W+Q
Sbjct: 45 CITSTDIDDDMNWYQ 59
>2z35_A T-cell receptor alpha-chain; immune receptor, immune system;
2.20A {Mus musculus} PDB: 2pxy_A 2z31_A 1ac6_A
Length = 112
Score = 25.3 bits (56), Expect = 1.7
Identities = 5/15 (33%), Positives = 6/15 (40%)
Query: 5 CRGSVDGLRYFFWFQ 19
C S G FW+
Sbjct: 22 CNYSASGYPALFWYV 36
>3md7_A Beta-lactamase-like; ssgcid, hydrolase, structural genomics,
structural genomics center for infectious disease; HET:
5GP TLA; 1.27A {Brucella melitensis biovar abortus} PDB:
3qh8_A* 3py6_A* 3py5_A*
Length = 293
Score = 25.8 bits (57), Expect = 1.7
Identities = 6/25 (24%), Positives = 8/25 (32%)
Query: 10 DGLRYFFWFQVINIDPYWEPRTEEE 34
D LR + +D Y T
Sbjct: 117 DDLRTYVVDNGRLMDVYANRLTRNR 141
>2bnu_A TCR alpha chain, T-cell receptor alpha chain C region;
superagonist peptide T-cell vaccines, transmembrane,
immunoglobulin domain; 1.40A {Homo sapiens} PDB: 2bnq_D
2bnr_D 2f54_D 2pyf_A* 2pye_D* 2f53_D 2p5e_D* 2p5w_D*
3mv7_D 3mv8_D 3mv9_D 3utt_D 2cdg_A
Length = 203
Score = 25.7 bits (56), Expect = 1.9
Identities = 3/15 (20%), Positives = 6/15 (40%)
Query: 5 CRGSVDGLRYFFWFQ 19
C + + WF+
Sbjct: 22 CSFTDSAIYNLQWFR 36
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 25.5 bits (55), Expect = 2.1
Identities = 8/41 (19%), Positives = 15/41 (36%), Gaps = 8/41 (19%)
Query: 8 SVDGLRYFFWFQVINIDPYWEPRTEEEYLHFGDKADTENRA 48
VD L +W+ ++ Y+ F K + +A
Sbjct: 197 GVDELNKKCT--------FWDAISKLYYVQFFFKQAEQEQA 229
>3d9a_L Light chain of hyhel10 antibody fragment (FAB); lysozyme,
antigen, allergen, antimic bacteriolytic enzyme,
glycosidase, hydrolase; 1.20A {Mus musculus} PDB:
3hfm_L 1xgp_A 1xgq_A 1xgr_A 1xgt_A 1dqq_A 1dqm_L 1dqj_A
1nby_A 1nbz_A 1ndg_A 1ndm_A 1xgu_A 1fh5_L 1bm3_L 1opg_L
1mlb_A 1mlc_A 1rih_L 1p2c_A ...
Length = 213
Score = 25.2 bits (56), Expect = 2.2
Identities = 5/15 (33%), Positives = 6/15 (40%)
Query: 5 CRGSVDGLRYFFWFQ 19
CR S W+Q
Sbjct: 23 CRASQSIGNNLHWYQ 37
>3c6l_A TCR 2W20 alpha chain; TCR-PMHC complex; 3.40A {Mus musculus}
SCOP: b.1.1.1 b.1.1.2
Length = 185
Score = 25.2 bits (55), Expect = 2.6
Identities = 4/15 (26%), Positives = 5/15 (33%)
Query: 5 CRGSVDGLRYFFWFQ 19
C YF W+
Sbjct: 22 CSYEDSTFDYFPWYH 36
>1lk3_L 9D7 light chain; antigen-antibody complex, immune system; 1.91A
{Rattus norvegicus} SCOP: b.1.1.1 b.1.1.2 PDB: 1fn4_A
1c5d_L 1bfo_A 3b9k_L*
Length = 210
Score = 24.9 bits (55), Expect = 3.2
Identities = 4/15 (26%), Positives = 6/15 (40%)
Query: 5 CRGSVDGLRYFFWFQ 19
C+ S W+Q
Sbjct: 22 CKASESVTSRMHWYQ 36
>3nl4_L Antigen binding fragment, immunoglobulin IGG - LI; FAB, rabbit,
conformation-specific, amyloid, immune system; 1.54A
{Oryctolagus cuniculus}
Length = 213
Score = 24.9 bits (55), Expect = 3.4
Identities = 5/15 (33%), Positives = 7/15 (46%)
Query: 5 CRGSVDGLRYFFWFQ 19
C+ S Y W+Q
Sbjct: 23 CQASQSISSYLAWYQ 37
>3rgv_A YAE62 TCR A chain; TCR, MHC, MHC class I, immune system; 2.90A
{Mus musculus} PDB: 3c60_A
Length = 200
Score = 24.6 bits (53), Expect = 3.6
Identities = 5/15 (33%), Positives = 6/15 (40%)
Query: 5 CRGSVDGLRYFFWFQ 19
C S G FW+
Sbjct: 22 CTYSTTGYPTLFWYV 36
>2q86_A Valpha14 TCR; INKT cells, TCR, glycolipid recognition, innate
immunity, IM system; HET: NAG BMA MAN FUC; 1.85A {Mus
musculus} PDB: 3quy_C* 3o9w_C* 3qux_C* 3o8x_C* 3quz_C*
3rtq_C* 3rzc_C* 3ta3_C* 3tvm_C* 3qi9_C* 3ard_C* 3are_C*
3arf_C* 3arg_C* 3he6_C* 3he7_C* 3arb_C* 3scm_C* 3sda_C*
3sdc_C* ...
Length = 229
Score = 24.7 bits (53), Expect = 3.7
Identities = 4/15 (26%), Positives = 7/15 (46%)
Query: 5 CRGSVDGLRYFFWFQ 19
C SV + W++
Sbjct: 23 CNYSVTPDNHLRWYK 37
>2p1y_A Bispecific alpha/beta TCR; autoimmunity, immunoglobulin fold,
diabody, immune system; 2.42A {Mus musculus} PDB: 1bwm_A
Length = 238
Score = 24.3 bits (53), Expect = 4.4
Identities = 5/15 (33%), Positives = 6/15 (40%)
Query: 5 CRGSVDGLRYFFWFQ 19
C YF W+Q
Sbjct: 149 CSYENSAFDYFPWYQ 163
>3qlb_A FETA, enantio-pyochelin receptor; membrane protein, transport,
ferri-enantiopyochelin, outer M metal transport; HET:
CIT EFE; 3.26A {Pseudomonas fluorescens}
Length = 748
Score = 23.8 bits (52), Expect = 7.2
Identities = 4/18 (22%), Positives = 7/18 (38%)
Query: 9 VDGLRYFFWFQVINIDPY 26
DGL+ ++ Y
Sbjct: 158 RDGLKGNTAQAWPKVEAY 175
>3crj_A Transcription regulator; APC88200, TETR, structura genomics,
PSI-2, protein structure initiative; HET: MSE; 2.60A
{Haloarcula marismortui atcc 43049}
Length = 199
Score = 23.8 bits (52), Expect = 8.2
Identities = 5/43 (11%), Positives = 17/43 (39%), Gaps = 5/43 (11%)
Query: 35 YLHFGDKAD-----TENRARKYMDSVRKRKGLPVQDKLVAHAE 72
+ ++ K D + +++DS+ + + +L +
Sbjct: 52 HYYYDTKDDLLAAFLDYLLERFVDSIHDVETTDPEARLNLLLD 94
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
0.322 0.138 0.439
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,250,735
Number of extensions: 59767
Number of successful extensions: 273
Number of sequences better than 10.0: 1
Number of HSP's gapped: 273
Number of HSP's successfully gapped: 28
Length of query: 81
Length of database: 6,701,793
Length adjustment: 50
Effective length of query: 31
Effective length of database: 5,305,743
Effective search space: 164478033
Effective search space used: 164478033
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 (21.9 bits)
S2: 51 (23.9 bits)