RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7328
(159 letters)
>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 = 61.3 bits (149), Expect = 9e-14
Identities = 24/62 (38%), Positives = 41/62 (66%)
Query: 72 MMIAAQDQGLEALSKVISRQKNIALTISNEVDVQNDLVDDITERMDHTNVSIQRETNQVT 131
+ QD GL+ALS +ISRQK + I NE+D QN+++DD+ +++T+ ++ E +VT
Sbjct: 2 SHMQEQDAGLDALSSIISRQKQMGQEIGNELDEQNEIIDDLANLVENTDEKLRTEARRVT 61
Query: 132 SI 133
+
Sbjct: 62 LV 63
>2nps_D Syntaxin-6; vesicle fusion, snare complex, early endosomal snare
complex, VTI1A, VAMP4, transport protein; 2.50A {Homo
sapiens}
Length = 82
Score = 60.6 bits (147), Expect = 3e-13
Identities = 14/68 (20%), Positives = 30/68 (44%)
Query: 67 REQQQMMIAAQDQGLEALSKVISRQKNIALTISNEVDVQNDLVDDITERMDHTNVSIQRE 126
M QD+ LE +S I KN++ I E++ Q +++D + ++ T +
Sbjct: 7 MTGGNNMGRMQDEQLELVSGSIGVLKNMSQRIGGELEEQAVMLEDFSHELESTQSRLDNV 66
Query: 127 TNQVTSIL 134
++ +
Sbjct: 67 MKKLAKVS 74
>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 = 55.2 bits (133), Expect = 4e-11
Identities = 20/68 (29%), Positives = 32/68 (47%)
Query: 67 REQQQMMIAAQDQGLEALSKVISRQKNIALTISNEVDVQNDLVDDITERMDHTNVSIQRE 126
R D+ LE +S +I +++AL + NE+D QN +D I E+ D I
Sbjct: 17 RVTNDARENEMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRIDEA 76
Query: 127 TNQVTSIL 134
+ T +L
Sbjct: 77 NQRATKML 84
>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 = 53.6 bits (129), Expect = 1e-10
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 6/70 (8%)
Query: 65 DVREQQQMMIAAQDQGLEALSKVISRQKNIALTISNEVDVQNDLVDDITERMDHTNVSIQ 124
RE + D+ LE +S +I +++AL + NE+D QN +D I E+ D I
Sbjct: 2 SARENEM------DENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRID 55
Query: 125 RETNQVTSIL 134
+ T +L
Sbjct: 56 EANQRATKML 65
>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 = 44.2 bits (104), Expect = 6e-07
Identities = 14/58 (24%), Positives = 29/58 (50%)
Query: 77 QDQGLEALSKVISRQKNIALTISNEVDVQNDLVDDITERMDHTNVSIQRETNQVTSIL 134
+ ++ +S +I +N+A+ + NE+ QN VD I ++ + I + T +L
Sbjct: 28 MENNMKEVSSMIGNLRNMAIDMGNEIGSQNRQVDRIQQKAESNESRIDEANKKATKLL 85
>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 = 43.3 bits (102), Expect = 8e-07
Identities = 17/56 (30%), Positives = 33/56 (58%)
Query: 78 DQGLEALSKVISRQKNIALTISNEVDVQNDLVDDITERMDHTNVSIQRETNQVTSI 133
D+ L+ + +V +R K +ALT E+D Q +++I E D ++++ TN++ I
Sbjct: 9 DRNLDQIQQVSNRLKKMALTTGKELDSQQKRLNNIEESTDDLDINLHMNTNRLAGI 64
>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 = 35.2 bits (80), Expect = 0.006
Identities = 20/150 (13%), Positives = 46/150 (30%), Gaps = 30/150 (20%)
Query: 1 MSSFERRQRLLEQLQSSSVKITNMYNNRPSYSAQRNELFADVGTTGWGDDASDEESPLLG 60
+ + + +LE LQ +I + +R +S+ E LL
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI---------HSIQAELRRLLK 239
Query: 61 AN--------IADVREQQQMMIAAQDQGLEALSKVISRQKNIALTISNE-------VDVQ 105
+ + +V+ + A + + L + +R K + +S
Sbjct: 240 SKPYENCLLVLLNVQNAK--AWNAFNLSCKIL--LTTRFKQVTDFLSAATTTHISLDHHS 295
Query: 106 NDLVDDITERM--DHTNVSIQRETNQVTSI 133
L D + + + + Q +V +
Sbjct: 296 MTLTPDEVKSLLLKYLDCRPQDLPREVLTT 325
>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 = 34.3 bits (78), Expect = 0.014
Identities = 12/54 (22%), Positives = 26/54 (48%), Gaps = 12/54 (22%)
Query: 62 NIADVREQQQMMIAAQDQGLEALSKVISRQK--NIAL-----TISNEVDVQNDL 108
N+ + QQ + A + L+ ++ V++ K I + ++S E +V+ L
Sbjct: 1847 NVEN----QQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLE-EVEGHL 1895
Score = 28.1 bits (62), Expect = 1.5
Identities = 12/85 (14%), Positives = 26/85 (30%), Gaps = 21/85 (24%)
Query: 31 YSAQRNEL--------FADV-------GTTGWGDDASDEESPLLGANIADVREQQQMMIA 75
Y+A L + G T DE IA + + + +
Sbjct: 1767 YAA----LASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIA-INPGR-VAAS 1820
Query: 76 AQDQGLEALSKVISRQKNIALTISN 100
+ L+ + + + ++ + I N
Sbjct: 1821 FSQEALQYVVERVGKRTGWLVEIVN 1845
Score = 27.7 bits (61), Expect = 1.9
Identities = 18/98 (18%), Positives = 35/98 (35%), Gaps = 22/98 (22%)
Query: 73 MIAAQDQGLEALSK--VISRQKNIALTI---SNEVDVQN-------DLVDDIT-ERMDHT 119
++ A D + L K V K+I + + + D++ +VD I +
Sbjct: 432 LVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWE 491
Query: 120 NVSIQRETNQVT---------SILTQDATCGYWVVIIV 148
+ + T+ + +LT G V +IV
Sbjct: 492 TTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIV 529
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 30.2 bits (68), Expect = 0.26
Identities = 15/117 (12%), Positives = 28/117 (23%), Gaps = 16/117 (13%)
Query: 39 FADVGTTGWGDDASDEESPLLGANIADVREQQQMMIAAQDQGLEALSKVISRQ-----KN 93
+ V D P G I ++ + + K RQ
Sbjct: 1202 YGIVAMAATATDKIGRSVPAPGKGIL--TTAREHHSSVKYASPNLNMKYRKRQLVTREAQ 1259
Query: 94 IALTISNEVDV---------QNDLVDDITERMDHTNVSIQRETNQVTSILTQDATCG 141
I + NE++ D + + ER + + + D
Sbjct: 1260 IKDWVENELEALKLEAEEIPSEDQNEFLLERTREIHNEAESQLRAAQQQWGNDFYKR 1316
>1j5y_A Transcriptional regulator, biotin repressor famil; structural
genomics, TM1602, BIOT repressor family, JCSG,
conserved hypothetical protein; 2.30A {Thermotoga
maritima} SCOP: a.4.5.1 d.94.2.1
Length = 187
Score = 25.6 bits (56), Expect = 6.2
Identities = 4/22 (18%), Positives = 10/22 (45%)
Query: 1 MSSFERRQRLLEQLQSSSVKIT 22
ER + ++ L+ S ++
Sbjct: 17 TVRQERLKSIVRILERSKEPVS 38
>2qgy_A Enolase from the environmental genome shotgun sequencing of the
sargasso SEA; structural genomics, unknown function,
PSI-2; 1.80A {Environmental sample}
Length = 391
Score = 25.7 bits (57), Expect = 8.6
Identities = 7/43 (16%), Positives = 16/43 (37%), Gaps = 11/43 (25%)
Query: 17 SSVKITNM-------YNNRPSYSAQRNELF----ADVGTTGWG 48
S K++ + + + +S + + + G GWG
Sbjct: 9 SIGKLSRLKIWITDNHLSDDQWSNTKKFIIIKITTEDGIEGWG 51
>3ugj_A Phosphoribosylformylglycinamidine synthase; amidotransferase,
glutaminase, thioester intermediate, ligas; HET: ADP;
1.78A {Salmonella enterica subsp} PDB: 1t3t_A* 3ujn_A*
3umm_A*
Length = 1303
Score = 25.8 bits (56), Expect = 9.1
Identities = 8/24 (33%), Positives = 18/24 (75%), Gaps = 1/24 (4%)
Query: 2 SSFERRQRLLEQLQSSSVKITNMY 25
S+F R +LL + Q++++++ N+Y
Sbjct: 20 SAF-RINKLLARFQAANLQVHNIY 42
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 25.1 bits (54), Expect = 9.8
Identities = 12/82 (14%), Positives = 25/82 (30%), Gaps = 22/82 (26%)
Query: 50 DASDEESPLLGANIADVREQQQMMIAAQDQGLEALSKVISRQKNIALTISNEVDVQNDLV 109
D +E +I RE+Q+ + D A + + A
Sbjct: 78 DRLTQEP----ESIRKWREEQRKRLQELD---AASKVMEQEWREKA-------------K 117
Query: 110 DDITERMDHTNVSIQR--ETNQ 129
D+ E + +++ N+
Sbjct: 118 KDLEEWNQRQSEQVEKNKINNR 139
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 0.128 0.346
Gapped
Lambda K H
0.267 0.0509 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,212,667
Number of extensions: 119768
Number of successful extensions: 350
Number of sequences better than 10.0: 1
Number of HSP's gapped: 347
Number of HSP's successfully gapped: 20
Length of query: 159
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 73
Effective length of database: 4,300,587
Effective search space: 313942851
Effective search space used: 313942851
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 (24.7 bits)