RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7549
(104 letters)
>2nps_D Syntaxin-6; vesicle fusion, snare complex, early endosomal snare
complex, VTI1A, VAMP4, transport protein; 2.50A {Homo
sapiens}
Length = 82
Score = 44.8 bits (106), Expect = 7e-08
Identities = 13/75 (17%), Positives = 33/75 (44%), Gaps = 5/75 (6%)
Query: 7 GNYYEPVPNQFDGGDAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDD 66
G++ + + + + ++ + I LK+++ IG E++ Q +L +
Sbjct: 1 GSHMASMTGG----NNMGRMQDEQLELVSGSIGVLKNMSQRIGGELEEQAV-MLEDFSHE 55
Query: 67 FDRTGGFLNNSMARV 81
+ T L+N M ++
Sbjct: 56 LESTQSRLDNVMKKL 70
>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 = 40.4 bits (94), Expect = 3e-05
Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 25/101 (24%)
Query: 12 PVPNQFDGGDAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTG 71
PV + FDG D + + ++ + + + L + T +++ H+L DF G
Sbjct: 458 PVYDTFDGSD-LRVLSGSISERI---VDCIIRLPVKWETTTQFKATHIL-----DFGPGG 508
Query: 72 ----GFLNNSM-----ARVVL--DIEKIKNPNIDRGLQTYK 101
G L + RV++ ++ NP+ D G +K
Sbjct: 509 ASGLGVLTHRNKDGTGVRVIVAGTLD--INPDDDYG---FK 544
Score = 26.2 bits (57), Expect = 2.4
Identities = 16/74 (21%), Positives = 28/74 (37%), Gaps = 15/74 (20%)
Query: 40 ALKSLTID-IGTEVKYQNEHL---------LRGMDDDFDRTGGFLNNSMARVVLDIEKIK 89
++ +LT + + V N HL L + +G S+ + L + K K
Sbjct: 340 SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG--PPQSLYGLNLTLRKAK 397
Query: 90 NPNIDRGLQTYKTP 103
P+ GL + P
Sbjct: 398 APS---GLDQSRIP 408
>1n7s_D SNAP-25A; neuronal snare protein complex, four helix bundle,
transport protein; 1.45A {Rattus norvegicus} SCOP:
h.1.15.1 PDB: 3rk2_D 3rk3_D 3rl0_D 1kil_D 3hd7_D*
3hd9_D 3ipd_D 1urq_D 1xtg_B
Length = 66
Score = 37.4 bits (87), Expect = 4e-05
Identities = 13/62 (20%), Positives = 27/62 (43%), Gaps = 1/62 (1%)
Query: 20 GDAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMA 79
G A E ++ + I L+ + +D+G E+ QN + R + + D ++ +
Sbjct: 1 GSARENEMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDR-IMEKADSNKTRIDEANQ 59
Query: 80 RV 81
R
Sbjct: 60 RA 61
>1sfc_D Protein (SNAP-25B), protein (synaptobrevin 2); membrane fusion
protein complex, transport protein; 2.40A {Rattus
norvegicus} SCOP: h.1.15.1
Length = 87
Score = 37.5 bits (87), Expect = 6e-05
Identities = 12/62 (19%), Positives = 26/62 (41%), Gaps = 1/62 (1%)
Query: 20 GDAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMA 79
DA E ++ + I L+ + +D+G E+ QN + + + D ++ +
Sbjct: 20 NDARENEMDENLEQVSGIIGNLRHMALDMGNEIDTQNR-QIDRIMEKADSNKTRIDEANQ 78
Query: 80 RV 81
R
Sbjct: 79 RA 80
>1gl2_D Syntaxin 8, vesicle transport V-snare protein VTI1-like 1;
membrane protein, membrane fusion protein complex,
coiled coil, transmembrane; 1.9A {Rattus norvegicus}
SCOP: h.1.15.1
Length = 65
Score = 35.1 bits (81), Expect = 3e-04
Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 2/62 (3%)
Query: 20 GDAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMA 79
G + +++ L L + I K + +IG E+ QNE ++ + + + T L
Sbjct: 1 GSHMQEQDAGL-DALSSIISRQKQMGQEIGNELDEQNE-IIDDLANLVENTDEKLRTEAR 58
Query: 80 RV 81
RV
Sbjct: 59 RV 60
>1l4a_D S-SNAP25 fusion protein; snare, snare complex, membrane fusion,
neurotransmission, endocytosis/exocytosis complex;
2.95A {Loligo pealei} SCOP: h.1.15.1
Length = 87
Score = 31.1 bits (70), Expect = 0.015
Identities = 12/62 (19%), Positives = 28/62 (45%), Gaps = 1/62 (1%)
Query: 20 GDAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMA 79
DA + E ++ + I L+++ ID+G E+ QN + R + + ++ +
Sbjct: 21 NDAREDDMENNMKEVSSMIGNLRNMAIDMGNEIGSQNRQVDR-IQQKAESNESRIDEANK 79
Query: 80 RV 81
+
Sbjct: 80 KA 81
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 27.8 bits (62), Expect = 0.71
Identities = 13/46 (28%), Positives = 17/46 (36%), Gaps = 9/46 (19%)
Query: 20 GDAIHQENEQLTSDLRN-KIQALKSLTIDIGTEVKYQNEHLLRGMD 64
E E+ D + KI L IG + Y L RG+D
Sbjct: 279 VGETWSEFEKNFEDFKVGKINIL------IGVQAYYGK--LTRGVD 316
>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 = 25.7 bits (55), Expect = 2.4
Identities = 9/30 (30%), Positives = 13/30 (43%), Gaps = 5/30 (16%)
Query: 25 QENEQLTSDLRNKIQALKS---LTIDIGTE 51
Q ++L + L K+ A S L I E
Sbjct: 20 QALKKLQASL--KLYADDSAPALAIKATME 47
>1ub2_A Catalase-peroxidase; KATG, cyanobacteria, oxidoreductase; HET:
HEM; 2.40A {Synechococcus elongatus} SCOP: a.93.1.3
a.93.1.3
Length = 720
Score = 25.0 bits (55), Expect = 6.7
Identities = 7/38 (18%), Positives = 16/38 (42%), Gaps = 1/38 (2%)
Query: 1 MRRQHAGNYYEPVPNQFDGGDAIHQENEQLTSDLRNKI 38
+ QH P+ F+ + + + + L DL+ +
Sbjct: 34 ILSQHD-RKTNPMGPDFNYQEEVQKLDAALKQDLQALM 70
>2lfc_A Fumarate reductase, flavoprotein subunit; structural genomics,
northeast structural genomics consortiu PSI-biology; NMR
{Lactobacillus plantarum}
Length = 160
Score = 24.2 bits (53), Expect = 8.5
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 56 NEHLLRGMDDDFDRTGGFLN 75
++ G D DF R +L+
Sbjct: 120 QGYVQDGHDHDFGRDPKYLH 139
>1ney_A TIM, triosephosphate isomerase; yeast, DHAP, dihydroxyacetone
phosphate, michaelis complex; HET: FTR 13P; 1.20A
{Saccharomyces cerevisiae} SCOP: c.1.1.1 PDB: 1nf0_A*
1i45_A* 1ypi_A 2ypi_A 7tim_A* 3ypi_A*
Length = 247
Score = 24.5 bits (54), Expect = 8.5
Identities = 8/45 (17%), Positives = 17/45 (37%)
Query: 10 YEPVPNQFDGGDAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKY 54
YEPV G A ++ + + + +R + + + Y
Sbjct: 163 YEPVXAIGTGLAATPEDAQDIHASIRKFLASKLGDKAASELRILY 207
>3dpi_A NAD+ synthetase; ssgcid, decode, structural genomics, PSI, protein
structure initiative; 2.20A {Burkholderia pseudomallei}
Length = 285
Score = 24.3 bits (53), Expect = 8.9
Identities = 12/59 (20%), Positives = 19/59 (32%), Gaps = 2/59 (3%)
Query: 25 QENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLN--NSMARV 81
Q +E ++A ++LT+D+ L G D N AR
Sbjct: 92 QHDEADARRALAFVRADETLTVDVKPAADAMLAALAAGGLAYLDHAQQDFVLGNIKARE 150
>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 = 24.4 bits (52), Expect = 9.2
Identities = 16/89 (17%), Positives = 23/89 (25%), Gaps = 27/89 (30%)
Query: 21 DAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQ----------NEHLLR--------- 61
I E Q + R I+ L D KY + LL
Sbjct: 96 SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI 155
Query: 62 -GMDDDFDRTGGFLNNSMARVVLDIEKIK 89
G+ G +A V K++
Sbjct: 156 DGV-------LGSGKTWVALDVCLSYKVQ 177
>1v08_A Beta-glucosidase; glycoside hydrolase, dimboa-glucoside, inhibitor,
PEST defense, family GH1, hydrolase, chloroplast,
transit peptide, 3D-structure; HET: NTZ; 1.9A {Zea mays}
SCOP: c.1.8.4 PDB: 1e4l_A* 1e4n_A* 1e56_A* 1e55_A*
1e1e_A 1e1f_A* 1h49_A* 1hxj_A
Length = 512
Score = 24.5 bits (54), Expect = 9.3
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 68 DRTGGFLNNSMARVVLD 84
++ GGFL+ S +V D
Sbjct: 151 EKYGGFLDKSHKSIVED 167
>3rza_A Tripeptidase; phosphorylase/hydrolase-like, structural genomics,
joint CEN structural genomics, JCSG, protein structure
initiative; HET: CIT PG4 PGE; 2.10A {Staphylococcus
aureus subsp}
Length = 396
Score = 24.2 bits (53), Expect = 9.4
Identities = 6/20 (30%), Positives = 9/20 (45%)
Query: 12 PVPNQFDGGDAIHQENEQLT 31
P G + IH NE++
Sbjct: 354 PSVILGVGYEKIHTTNERMP 373
>4at0_A 3-ketosteroid-delta4-5alpha-dehydrogenase; oxidoreductase,
dehydogenase, steroid catabolism; HET: FAD; 1.60A
{Rhodococcus jostii} PDB: 4at2_A*
Length = 510
Score = 24.2 bits (53), Expect = 9.6
Identities = 4/19 (21%), Positives = 8/19 (42%)
Query: 56 NEHLLRGMDDDFDRTGGFL 74
N+H G D + ++
Sbjct: 410 NKHAAEGSDPLLHKKSEWV 428
>4f4h_A Glutamine dependent NAD+ synthetase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, ligase; 1.75A {Burkholderia thailandensis}
Length = 565
Score = 24.4 bits (53), Expect = 9.7
Identities = 9/79 (11%), Positives = 26/79 (32%), Gaps = 5/79 (6%)
Query: 21 DAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMA- 79
A + ++ ++L +++ L + +G ++ + + N+ +
Sbjct: 62 PAFYAASDAALAELAAQLKPFAGLAVLVGHPLRAPSADGNANRAIERGVPPVDTYNAASL 121
Query: 80 ----RVVLDIEKIKNPNID 94
V K PN +
Sbjct: 122 IVGGEVAGTYRKQDLPNTE 140
>3b5n_D Protein transport protein SEC9; snare complex, syntaxin,
synaptobrevin, SNAP-25, SSO1P, SNC1P, SEC9P, SSO1,
SNC1, coiled coil; 1.60A {Saccharomyces cerevisiae}
Length = 64
Score = 23.2 bits (50), Expect = 10.0
Identities = 6/25 (24%), Positives = 11/25 (44%)
Query: 41 LKSLTIDIGTEVKYQNEHLLRGMDD 65
LK + + G E+ Q + L +
Sbjct: 22 LKKMALTTGKELDSQQKRLNNIEES 46
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
0.315 0.136 0.388
Gapped
Lambda K H
0.267 0.0648 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,634,931
Number of extensions: 86762
Number of successful extensions: 147
Number of sequences better than 10.0: 1
Number of HSP's gapped: 144
Number of HSP's successfully gapped: 29
Length of query: 104
Length of database: 6,701,793
Length adjustment: 69
Effective length of query: 35
Effective length of database: 4,775,244
Effective search space: 167133540
Effective search space used: 167133540
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: 42 (22.0 bits)
S2: 51 (23.6 bits)