RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6917
(132 letters)
>1v0a_A Endoglucanase H; carbohydrate binding module, cellulosome,
cellulose degradation, hydrolase, glycosidase; 1.98A
{Clostridium thermocellum} SCOP: b.18.1.30
Length = 178
Score = 32.1 bits (72), Expect = 0.028
Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 56 IPFSKFFLQSKGR--IQDIQNPLDTDRISSIGLSLVDQNNGPFQL 98
IPFS F + + QD+ LD D I SI + +G F +
Sbjct: 118 IPFSSFRRRLDYQPPGQDMSGTLDLDNIDSIHFMYANNKSGKFVV 162
>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 = 32.7 bits (74), Expect = 0.029
Identities = 14/68 (20%), Positives = 30/68 (44%), Gaps = 8/68 (11%)
Query: 29 FNESTLDDWIVTTDSDHNEGLSKASLAIP-FSKFFLQSKGRIQDIQNPLDTDRISSIGLS 87
+ ++L I+ ++NEG+ L+I ++ +Q + + L + + +S
Sbjct: 314 YPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQD--YVNKTNSHLPAGK--QVEIS 369
Query: 88 LVDQNNGP 95
LV NG
Sbjct: 370 LV---NGA 374
Score = 30.4 bits (68), Expect = 0.16
Identities = 15/67 (22%), Positives = 23/67 (34%), Gaps = 15/67 (22%)
Query: 29 FNESTLD---DWIVTTDSDHNEGLSKASLAIP-FSKFFLQSKGRIQDIQNPLDTDRISSI 84
F+ L D I +N + + IP + F G D++ L SI
Sbjct: 427 FHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTF----DGS--DLRV-LSG----SI 475
Query: 85 GLSLVDQ 91
+VD
Sbjct: 476 SERIVDC 482
>2w59_A IGY FCU3-4; immunoglobulin, avian, immune system; HET: NAG MAN;
1.75A {Gallus gallus}
Length = 231
Score = 28.5 bits (63), Expect = 0.53
Identities = 9/52 (17%), Positives = 17/52 (32%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGLSKASLAIPFSKFFLQSK 66
V P + ++ W + + T + E + FF+ SK
Sbjct: 142 VRGFRPRDIEIRWLRDHRAVPATEFVTTAVLPEERTANGAGGDGDTFFVYSK 193
>3mj8_L Stimulatory hamster antibody HL4E10 FAB light CHA; hamster IGG,
immune system; 2.94A {Cricetulus migratorius} PDB:
3mj9_L*
Length = 213
Score = 28.1 bits (63), Expect = 0.71
Identities = 7/39 (17%), Positives = 17/39 (43%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGLSKAS 53
+ YP + V W+ + + + + TT ++ A+
Sbjct: 138 INGFYPADVAVTWEADGTPITQGVKTTQPSKSDSKYMAT 176
>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 = 27.6 bits (62), Expect = 1.2
Identities = 9/40 (22%), Positives = 20/40 (50%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGLSKASL 54
+ + YP + V WK + S + ++ + +D + S S+
Sbjct: 136 LNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSM 175
>3eya_A Pyruvate dehydrogenase [cytochrome]; pyruvate oxidase,
membrane-associated flavoprotein dehydrogenase,
interactions with lipids cell membrane; HET: TDP FAD;
2.50A {Escherichia coli} PDB: 3ey9_A*
Length = 549
Score = 27.5 bits (62), Expect = 1.3
Identities = 8/42 (19%), Positives = 15/42 (35%), Gaps = 3/42 (7%)
Query: 2 WKDEVQDKLYMDPVGDVYPNETKVIWKFNESTLDDWIVTTDS 43
+ + D L ++P + + + DD I T D
Sbjct: 342 AR-KGLDDLAKPSEKAIHPQY--LAQQISHFAADDAIFTCDV 380
>1v5e_A Pyruvate oxidase; oxidoreductase, flavoprotein; HET: FAD; 1.60A
{Aerococcus viridans} SCOP: c.31.1.3 c.36.1.5 c.36.1.9
PDB: 2dji_A* 1v5f_A* 1v5g_A*
Length = 590
Score = 27.5 bits (62), Expect = 1.5
Identities = 9/41 (21%), Positives = 17/41 (41%), Gaps = 3/41 (7%)
Query: 2 WKDEVQDKLYMDPVGDVYPNETKVIWKFNESTLDDWIVTTD 42
W++ + + L GD+ + V N +D I + D
Sbjct: 349 WREYI-NMLETKEEGDLQFYQ--VYNAINNHADEDAIYSID 386
>2xzc_L FAB A.17 light chain; immune system; HET: XOP; 1.36A {Homo sapiens}
PDB: 2xza_L* 3kdm_L* 3nps_C 1dn0_A 1qlr_A* 2v7n_A 3eo0_A
3eo1_A 2agj_L* 2fx7_L 1tzg_L 2fx8_L 2fx9_L* 1u6a_L
3hi1_L* 3kym_A 3kyk_L 3qwo_L* 3ixt_L* 3qeg_L ...
Length = 216
Score = 26.8 bits (60), Expect = 1.7
Identities = 10/40 (25%), Positives = 18/40 (45%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGLSKASL 54
+ + YP E KV WK + + + ++ + S SL
Sbjct: 138 LNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSL 177
>3bqu_C 3H6 FAB light chain; beta sheet, immune system; 3.00A {Mus
musculus}
Length = 233
Score = 26.8 bits (60), Expect = 2.2
Identities = 9/40 (22%), Positives = 20/40 (50%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGLSKASL 54
+ + YP + V WK + S + ++ + +D + S S+
Sbjct: 158 LNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSM 197
>1bec_A 14.3.D T cell antigen receptor; T cell receptor; 1.70A {Mus
musculus} SCOP: b.1.1.1 b.1.1.2 PDB: 1jck_A 1l0x_A
1sbb_A 1l0y_A 3c6l_B 1mwa_B* 1g6r_B* 1tcr_B* 2ckb_B
2q86_B* 1lp9_F 2j8u_F 2jcc_F 2uwe_F 3mbe_D* 1d9k_B*
2aq3_A 3mc0_A 3byt_A 3bzd_A ...
Length = 238
Score = 26.8 bits (59), Expect = 2.3
Identities = 6/40 (15%), Positives = 13/40 (32%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGLSKASL 54
+P+ ++ W N + + T + E L
Sbjct: 145 ARGFFPDHVELSWWVNGKEVHSGVSTDPQAYKESNYSYCL 184
>3sob_L Antibody light chain; beta propeller, protein binding-immune system
complex; 1.90A {Homo sapiens} PDB: 1pkq_A 3u1s_L*
Length = 237
Score = 26.4 bits (59), Expect = 2.4
Identities = 10/40 (25%), Positives = 18/40 (45%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGLSKASL 54
+ + YP E KV WK + + + ++ + S SL
Sbjct: 159 LNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSL 198
>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 = 2.7
Identities = 13/39 (33%), Positives = 17/39 (43%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGLSKAS 53
V D YP V WK N +T++D + TT S
Sbjct: 137 VNDFYPGSATVTWKANGATINDGVKTTKPSKQGQNYMTS 175
>4feg_A Pyruvate oxidase; carbanion, structure activity relationship,
oxidation-reduct umpolung, thiamine diphosphate,
reaction intermediate; HET: TDM FAD GOL; 1.09A
{Lactobacillus plantarum} PDB: 4fee_A* 1y9d_A* 2ez9_A*
2ez4_A* 2ez8_A* 2ezt_A* 2ezu_A* 1pow_A* 1pox_A*
Length = 603
Score = 26.0 bits (58), Expect = 4.4
Identities = 8/41 (19%), Positives = 14/41 (34%), Gaps = 3/41 (7%)
Query: 2 WKDEVQDKLYMDPVGDVYPNETKVIWKFNESTLDDWIVTTD 42
W+ L G + + V+ N+ D I + D
Sbjct: 356 WR-AYLASLEDKQEGPLQAYQ--VLRAVNKIAEPDAIYSID 393
>1oga_E TRBC1, T-cell receptor beta chain C region; immune system/receptor,
immune system/receptor/complex, TCR, MHC,
immunodominance, FLU, complex; 1.40A {Homo sapiens}
SCOP: b.1.1.1 b.1.1.2 PDB: 2vlm_E 2vlk_E 2vlj_E 2vlr_E
2xna_B 2xn9_B 2axh_A 2axj_A 3scm_D* 3sda_D* 3sdc_D*
3sdd_D* 3qi9_D* 3mff_B* 2ak4_E 3he7_D* 2eyr_B 3pqy_E
3kxf_E 2cde_B ...
Length = 252
Score = 25.7 bits (56), Expect = 4.5
Identities = 6/37 (16%), Positives = 12/37 (32%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGLSK 51
YP+ ++ W N + + T E +
Sbjct: 147 ATGFYPDHVELSWWVNGKEVHSGVSTDPQPLKEQPAL 183
>1i1c_A IGG2A, IG gamma-2A chain C region; FC, immune system; HET: NAG FUL
BMA MAN FUC; 2.70A {Rattus norvegicus} SCOP: b.1.1.2
b.1.1.2 PDB: 1i1a_D*
Length = 239
Score = 25.7 bits (56), Expect = 4.7
Identities = 8/35 (22%), Positives = 14/35 (40%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGL 49
V YP + WK N +++ T + +G
Sbjct: 147 VKGFYPPDIYTEWKMNGQPQENYKNTPPTMDTDGS 181
>2wng_A Tyrosine-protein phosphatase non-receptor type substrate 1; signal
regulatory protein alpha, immunoglobulin superfamily,
phosphoprotein; HET: NAG; 2.49A {Homo sapiens}
Length = 327
Score = 26.1 bits (57), Expect = 4.8
Identities = 7/35 (20%), Positives = 15/35 (42%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGL 49
V YP ++ W N + +T +++ +G
Sbjct: 244 VRKFYPQRLQLTWLENGNVSRTETASTVTENKDGT 278
Score = 25.3 bits (55), Expect = 7.2
Identities = 6/35 (17%), Positives = 10/35 (28%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGL 49
P + + W N + L D+ D
Sbjct: 141 SHGFSPRDITLKWFKNGNELSDFQTNVDPVGESVS 175
>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 = 25.6 bits (57), Expect = 5.0
Identities = 9/40 (22%), Positives = 20/40 (50%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGLSKASL 54
+ + YP + V WK + + D ++ + +D + S S+
Sbjct: 135 MNNFYPRDISVKWKIDGTERRDGVLDSVTDQDSKDSTYSM 174
>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 = 5.5
Identities = 12/41 (29%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIV--TTDSDHNEGLSKAS 53
V + YP + V WK + S D ++ TD D + S
Sbjct: 136 VNNFYPKDINVKWKVDGSEKRDGVLQSVTDQDSKDSTYSLS 176
>2c1o_A IGK-C protein; FAB fragment, enantioselective, finrozole, immune
system, antibody, ENA11His antibody, immunoglobulin
domain; 2.75A {Mus musculus}
Length = 254
Score = 25.5 bits (56), Expect = 6.7
Identities = 9/40 (22%), Positives = 20/40 (50%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGLSKASL 54
+ + YP + V WK + S + ++ + +D + S S+
Sbjct: 178 LNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSM 217
>2vol_A Murine IGG FC; FC, zinc, B30.2, nucleus, pryspry, cytoplasm, mouse
IGG, zinc-finger, DNA-binding, RNA-binding, tripartite
motif (TRIM) protein; HET: NAG MAN GAL FUC; 1.95A {Mus
musculus} PDB: 3hkf_A 1i1a_C* 1cqk_A
Length = 207
Score = 25.2 bits (55), Expect = 7.4
Identities = 7/35 (20%), Positives = 15/35 (42%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGL 49
+ D +P + V W+ N +++ T +G
Sbjct: 133 ITDFFPEDITVEWESNGQPAENYKNTQPIMDTDGS 167
>2pgn_A Cyclohexane-1,2-dione hydrolase (CDH); three alpha/beta domains;
HET: P6G FAD TPP; 1.20A {Azoarcus SP} PDB: 2pgo_A*
Length = 589
Score = 25.2 bits (56), Expect = 7.9
Identities = 6/42 (14%), Positives = 15/42 (35%), Gaps = 1/42 (2%)
Query: 2 WKDEVQDKLYMDPVGDVYPNET-KVIWKFNESTLDDWIVTTD 42
++ + GD P + + + + + I+ TD
Sbjct: 356 FRAAWDGWVREQESGDGMPASMFRAMAEVRKVQRPEDIIVTD 397
>3q5y_A TCR N15 beta; IG, T cell receptor, antigen peptide/MHC, membrane,
immune S; HET: EPE; 1.90A {Mus musculus} PDB: 1nfd_B*
3q5t_A
Length = 240
Score = 24.9 bits (54), Expect = 8.6
Identities = 7/40 (17%), Positives = 14/40 (35%)
Query: 15 VGDVYPNETKVIWKFNESTLDDWIVTTDSDHNEGLSKASL 54
+P+ ++ W N + + T + E SL
Sbjct: 146 ARGFFPDHVELSWWVNGKEVHSGVSTDPQAYKESNYSYSL 185
>1zzo_A RV1677; thioredoxin fold, structural genomics, PSI, protein
structure initiative, TB structural genomics consortium,
TBSGC; 1.60A {Mycobacterium tuberculosis} SCOP:
c.47.1.10 PDB: 3ios_A
Length = 136
Score = 24.6 bits (54), Expect = 9.8
Identities = 11/78 (14%), Positives = 30/78 (38%), Gaps = 2/78 (2%)
Query: 15 VGDVYPNETKVIWKF-NESTLDDWIVTTDSDHNEGLSKASLAIPFSKFFLQSKGRIQDIQ 73
VG ++ + +F N+ + + D+D + + P F+ G + ++
Sbjct: 60 VGVAGLDQVPAMQEFVNKYPVKTFTQLADTDGSVWANFGVTQQPAY-AFVDPHGNVDVVR 118
Query: 74 NPLDTDRISSIGLSLVDQ 91
+ D ++ +L +
Sbjct: 119 GRMSQDELTRRVTALTSR 136
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
0.316 0.137 0.418
Gapped
Lambda K H
0.267 0.0799 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,985,666
Number of extensions: 101675
Number of successful extensions: 278
Number of sequences better than 10.0: 1
Number of HSP's gapped: 277
Number of HSP's successfully gapped: 37
Length of query: 132
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 49
Effective length of database: 4,384,350
Effective search space: 214833150
Effective search space used: 214833150
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: 52 (23.7 bits)