RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy489
(99 letters)
>2nps_C Vesicle transport through interaction with T- snares homolog 1A;
vesicle fusion, snare complex, early endosomal snare
complex, VTI1A, VAMP4, transport protein; 2.50A {Rattus
norvegicus}
Length = 81
Score = 55.6 bits (134), Expect = 4e-12
Identities = 25/55 (45%), Positives = 37/55 (67%)
Query: 42 QSQRLLDTSEEIERTGKHLETGYRIAIETEKIATDVLKDLESQRETLQRTRTRLH 96
LLD +E +ER+ + LE GY+IA+ETE+I ++L++L RE +QR R RL
Sbjct: 3 MRAHLLDNTERLERSSRRLEAGYQIAVETEQIGQEMLENLSHDRERIQRARERLR 57
>1gl2_C VTI1B, vesicle transport V-snare protein VTI1-like 1; membrane
protein, membrane fusion protein complex, coiled coil,
transmembrane; 1.9A {Mus musculus} SCOP: h.1.15.1
Length = 65
Score = 51.7 bits (124), Expect = 1e-10
Identities = 17/44 (38%), Positives = 32/44 (72%)
Query: 53 IERTGKHLETGYRIAIETEKIATDVLKDLESQRETLQRTRTRLH 96
+ R + +E +RIA ET++I T+++++L QR+ L+RT++RL
Sbjct: 4 MNRATQSIERSHRIATETDQIGTEIIEELGEQRDQLERTKSRLV 47
>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 = 29.6 bits (66), Expect = 0.14
Identities = 12/60 (20%), Positives = 22/60 (36%), Gaps = 15/60 (25%)
Query: 29 EYFSENSTNINEEQSQRLLDTSEE-----IERTGKHLETGYRIAIETEKIATDVLKDLES 83
+YF E + L T I+ + + L R ++ EK+ T L ++
Sbjct: 168 DYFEE---------LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL-NILE 217
Score = 27.3 bits (60), Expect = 0.87
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 6/33 (18%)
Query: 36 TNINEEQSQRLLDTSEEIERTGKHLETGYRIAI 68
+N+ +EQ Q + +T HL G ++ I
Sbjct: 342 SNLTQEQVQDY------VNKTNSHLPAGKQVEI 368
Score = 26.9 bits (59), Expect = 1.3
Identities = 16/121 (13%), Positives = 32/121 (26%), Gaps = 39/121 (32%)
Query: 2 LEK---RPKKDQNKI-------------NVVTCKTESGVEYHVEYFSENSTNINEEQSQR 45
L K DQ++I V +H S IN++
Sbjct: 393 LRKAKAPSGLDQSRIPFSERKLKFSNRFLPVA------SPFHSHLLVPASDLINKD---- 442
Query: 46 LLDTSEEIERTGKHL-------ETGYRIAIETEKIATDVLKDLESQR---ETLQRTRTRL 95
+ K + G + + + I+ ++ + ET + +
Sbjct: 443 --LVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKA-T 499
Query: 96 H 96
H
Sbjct: 500 H 500
>3n5w_A Nitric oxide synthase; heme enzyme, substrate inhibitor, Zn
oxidoreductase, oxidoreductase-oxidoreductase inhibitor
COM; HET: HEM XFJ; 1.73A {Rattus norvegicus} PDB:
2hx3_A* 2hx4_A* 3b3m_A* 3b3n_A* 3b3o_A* 3b3p_A* 3hsn_A*
3hso_A* 3hsp_A* 3jt3_A* 3jt4_A* 3jt5_A* 3jt6_A* 3jt7_A*
3jt8_A* 3jt9_A* 3jta_A* 3n2r_A* 3n5v_A* 1om4_A* ...
Length = 422
Score = 26.8 bits (59), Expect = 1.2
Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 6/45 (13%)
Query: 29 EYFSENSTNINEEQSQRLLDTSEEIERTG------KHLETGYRIA 67
+Y+S ++ RL + ++EIE T L G + A
Sbjct: 68 QYYSSIKRFGSKAHMDRLEEVNKEIESTSTYQLKDTELIYGAKHA 112
>3gwa_A 3-oxoacyl-(acyl-carrier-protein) synthase III; structural
genomics, synthetase; 1.60A {Burkholderia pseudomallei}
PDB: 3gwe_A
Length = 365
Score = 26.8 bits (60), Expect = 1.2
Identities = 6/21 (28%), Positives = 10/21 (47%), Gaps = 2/21 (9%)
Query: 39 NEEQSQRLLDTSEE--IERTG 57
N+ +Q D E + +TG
Sbjct: 47 NDVLAQLYPDWPAEKILAKTG 67
>2dwc_A PH0318, 433AA long hypothetical phosphoribosylglycinamide
transferase; purine ribonucleotide biosynthesis; HET:
ADP; 1.70A {Pyrococcus horikoshii} PDB: 2czg_A*
Length = 433
Score = 26.5 bits (59), Expect = 1.3
Identities = 7/19 (36%), Positives = 8/19 (42%)
Query: 66 IAIETEKIATDVLKDLESQ 84
I E E I D L + E
Sbjct: 86 IIPEIEAINLDALFEFEKD 104
>3e7m_A Nitric oxide synthase, inducible; NOS, heme, tetrahydrobiopterin,
oxido calmodulin-binding, FAD, FMN, iron, metal-binding,
NADP, oxidoreductase; HET: HEM H4B AT2; 2.00A {Mus
musculus} SCOP: d.174.1.1 PDB: 2y37_A* 1r35_A* 3e67_A*
3e68_A* 3e6l_A* 3e6n_A* 3e6o_A* 3e6t_A* 3e7i_A* 3e65_A*
3e7t_A* 3eai_A* 3ebd_A* 3ebf_A* 3nqs_A* 1m8d_A* 1m8e_A*
1m8h_A* 1m8i_A* 1m9t_A* ...
Length = 433
Score = 26.4 bits (58), Expect = 1.7
Identities = 12/45 (26%), Positives = 18/45 (40%), Gaps = 6/45 (13%)
Query: 29 EYFSENSTNINEEQSQRLLDTSEEIERTG------KHLETGYRIA 67
+Y+ EE RL ++EIE TG L ++A
Sbjct: 78 QYYGSFKEAKIEEHLARLEAVTKEIETTGTYQLTLDELIFATKMA 122
>2ort_A Nitric oxide synthase, inducible; L-arginine monooxygenase, heme,
dimerization, inhibitor, NOS, oxidoreductase; HET: HEM
342; 1.87A {Mus musculus} PDB: 1dd7_A* 2oro_A* 2orq_A*
2orr_A* 2ors_A* 2orp_A* 1nos_A* 1noc_A* 2nos_A* 1df1_A*
1nod_A* 2nod_A* 3nod_A* 3nw2_A* 2bhj_A* 1dwv_A* 1dww_A*
1dwx_A* 1n2n_A* 1qw4_A* ...
Length = 389
Score = 26.4 bits (58), Expect = 1.9
Identities = 12/45 (26%), Positives = 18/45 (40%), Gaps = 6/45 (13%)
Query: 29 EYFSENSTNINEEQSQRLLDTSEEIERTG------KHLETGYRIA 67
+Y+ EE RL ++EIE TG L ++A
Sbjct: 30 QYYGSFKEAKIEEHLARLEAVTKEIETTGTYQLTLDELIFATKMA 74
>1d0c_A Bovine endothelial nitric oxide synthase heme DOM; alpha-beta fold,
oxidoreductase; HET: HEM INE; 1.65A {Bos taurus} SCOP:
d.174.1.1 PDB: 1d0o_A* 1d1v_A* 1d1w_A* 1d1x_A* 1d1y_A*
1dm6_A* 1dm7_A* 1dm8_A* 1dmi_A* 1dmj_A* 1dmk_A* 1ed4_A*
1ed5_A* 1ed6_A* 1foi_A* 1foj_A* 1fol_A* 1foo_A* 1fop_A*
1nse_A* ...
Length = 444
Score = 26.1 bits (57), Expect = 2.1
Identities = 10/45 (22%), Positives = 19/45 (42%), Gaps = 6/45 (13%)
Query: 29 EYFSENSTNINEEQSQRLLDTSEEIERTG------KHLETGYRIA 67
+Y+S + ++ +RL + E+ TG L G + A
Sbjct: 97 QYYSSIKRSGSQAHEERLQEVEAEVASTGTYHLRESELVFGAKQA 141
>3led_A 3-oxoacyl-acyl carrier protein synthase III; structural genomics,
PSI-2, protein structure initiative; HET: MSE; 1.45A
{Rhodopseudomonas palustris}
Length = 392
Score = 25.7 bits (57), Expect = 2.7
Identities = 8/39 (20%), Positives = 16/39 (41%), Gaps = 2/39 (5%)
Query: 21 ESGVEYHVEYFSENSTNINEEQSQRLLDTSEE--IERTG 57
E+ Y + + N I + + L +S E + +G
Sbjct: 46 EAFNTYVANFNAANKARIEAGEIEPLQPSSSEFIEKASG 84
>1vgp_A 373AA long hypothetical citrate synthase; open form, transferase;
2.70A {Sulfolobus tokodaii}
Length = 373
Score = 25.5 bits (57), Expect = 3.0
Identities = 9/34 (26%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 48 DTSEEI-ERTGKHLETGYRIAIETEKIATDVLKD 80
++ + E+ G + T Y+IA + E+I L
Sbjct: 269 QYAKLLAEKEGGEIYTLYQIAEKVEEIGIKYLGP 302
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 25.5 bits (55), Expect = 3.3
Identities = 13/58 (22%), Positives = 27/58 (46%), Gaps = 10/58 (17%)
Query: 40 EEQSQRL--LDTSEE------IERTGKHLETGYRIAIETEKIATDVLKDLESQRETLQ 89
EEQ +RL LD + + E+ K LE + ++E++ + + + + + Q
Sbjct: 92 EEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQ--RQSEQVEKNKINNRIADKAFYQ 147
>2xkx_A Disks large homolog 4; structural protein, scaffold protein,
membrane associated GU kinase; 22.9A {Rattus norvegicus}
Length = 721
Score = 25.6 bits (55), Expect = 3.5
Identities = 8/33 (24%), Positives = 17/33 (51%)
Query: 28 VEYFSENSTNINEEQSQRLLDTSEEIERTGKHL 60
+E E + I EEQ+++ D + ++E+
Sbjct: 652 LENVLEINKRITEEQARKAFDRATKLEQEFTEC 684
>3p9d_G T-complex protein 1 subunit ETA; HSP60, eukaryotic chaperonin,
actin/tubulin binding, hexadec chaperone; HET: ADP;
3.80A {Saccharomyces cerevisiae} PDB: 3p9e_g*
Length = 550
Score = 25.6 bits (57), Expect = 3.6
Identities = 11/33 (33%), Positives = 17/33 (51%), Gaps = 5/33 (15%)
Query: 63 GYRIAIET-----EKIATDVLKDLESQRETLQR 90
GYR A+ ++A D+ + S RE L+R
Sbjct: 128 GYRKAVSLAVEKINELAVDITSEKSSGRELLER 160
>1kjq_A GART 2, phosphoribosylglycinamide formyltransferase 2, 5'-;
ATP-grAsp, purine biosynthesis, nucleotide; HET: ADP
MPO; 1.05A {Escherichia coli} SCOP: b.84.2.1 c.30.1.1
d.142.1.2 PDB: 1kj9_A* 1kji_A* 1kjj_A* 1kj8_A* 1eyz_A*
1ez1_A*
Length = 391
Score = 25.2 bits (56), Expect = 3.7
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 69 ETEKIATDVLKDLESQ 84
E E IATD+L LE +
Sbjct: 81 EIEAIATDMLIQLEEE 96
>3kfv_A Tight junction protein ZO-3; structural genomics consortium, SGC,
cell junction, cell membrane, membrane, SH3 domain;
2.80A {Homo sapiens}
Length = 308
Score = 25.2 bits (54), Expect = 4.1
Identities = 4/34 (11%), Positives = 15/34 (44%)
Query: 27 HVEYFSENSTNINEEQSQRLLDTSEEIERTGKHL 60
++ + + ++RL ++++ + HL
Sbjct: 232 ALKALRQWLAPASRRSTRRLYAQAQKLRKHSSHL 265
>3p9d_B T-complex protein 1 subunit beta; HSP60, eukaryotic chaperonin,
actin/tubulin binding, hexadec chaperone; HET: ADP;
3.80A {Saccharomyces cerevisiae} PDB: 3p9e_b*
Length = 527
Score = 25.2 bits (56), Expect = 4.5
Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 9/55 (16%)
Query: 46 LLDTSEE-IERTGKH---LETGYRIAIET-----EKIATDVLKDLESQRETLQRT 91
LL +E+ I+++ H + GYR+A K A D D RE L
Sbjct: 102 LLREAEKLIDQSKIHPQTIIEGYRLASAAALDALTKAAVDNSHDKTMFREDLIHI 156
>1m7v_A Nitric oxide synthase; pterin oxygenase, bacteria, heme,
oxidoreductase; HET: ARG HEM THG; 1.95A {Bacillus
subtilis} SCOP: d.174.1.1 PDB: 2fbz_X* 2fc1_A* 1m7z_A*
2fc2_A* 2an0_A* 2amo_A* 2an2_A*
Length = 363
Score = 24.8 bits (54), Expect = 5.2
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 8/45 (17%)
Query: 29 EYFSENSTNINEEQSQRLLDTSEEIERTG------KHLETGYRIA 67
E + E EE RL EI+RTG + LE G ++A
Sbjct: 17 ECYQE--LGKEEEVKDRLDSIKSEIDRTGSYVHTKEELEHGAKMA 59
>3iyg_B T-complex protein 1 subunit beta; TRIC/CCT, asymmetric, cryo-EM,
subunit arrangement, acetylation, ATP-binding,
chaperone, cytoplasm, isopeptide bond; 4.00A {Bos
taurus} PDB: 3ktt_B 4a0o_A 4a0v_A 4a0w_A 4a13_A
Length = 513
Score = 24.8 bits (55), Expect = 6.0
Identities = 8/34 (23%), Positives = 11/34 (32%), Gaps = 5/34 (14%)
Query: 63 GYRIAIET-----EKIATDVLKDLESQRETLQRT 91
G+R A + A D D R+ L
Sbjct: 116 GWREATKAARQALLNSAVDHGSDEVKFRQDLMNI 149
>2flq_A Nitric oxide synthase; thermostable enzyme, oxidoreductase; HET:
ARG HEM; 3.20A {Geobacillus stearothermophilus}
Length = 375
Score = 24.5 bits (53), Expect = 8.0
Identities = 10/45 (22%), Positives = 21/45 (46%), Gaps = 7/45 (15%)
Query: 29 EYFSENSTNINEEQSQRLLDTSEEIERTG------KHLETGYRIA 67
+ E + +E +R+ + E+E+TG + L G ++A
Sbjct: 26 ASYRELGKS-EQEIKRRVNEIRWEVEQTGTYRHTYEELSYGAKMA 69
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
0.310 0.126 0.336
Gapped
Lambda K H
0.267 0.0600 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,356,998
Number of extensions: 67915
Number of successful extensions: 169
Number of sequences better than 10.0: 1
Number of HSP's gapped: 167
Number of HSP's successfully gapped: 45
Length of query: 99
Length of database: 6,701,793
Length adjustment: 65
Effective length of query: 34
Effective length of database: 4,886,928
Effective search space: 166155552
Effective search space used: 166155552
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 51 (23.7 bits)