RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16694
(164 letters)
>2j3t_D Trafficking protein particle complex subunit 4; trapp, palmitate,
transport, lipoprotein, ER-golgi transport apparatus,
protein transport; HET: PLM; 2.4A {Homo sapiens} PDB:
2zmv_A 2jsn_A
Length = 219
Score = 180 bits (457), Expect = 3e-58
Identities = 93/154 (60%), Positives = 120/154 (77%)
Query: 1 GHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTRPRMTTNEKIFLASMFYPLF 60
GH + A+N + DG +VLE+L P ++PV + F RPR+T+NEK+ LASMF+ LF
Sbjct: 60 GHAVLAINGMDVNGRYTADGKEVLEYLGNPANYPVSIRFGRPRLTSNEKLMLASMFHSLF 119
Query: 61 AIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQSGLDLILKKIYELYAD 120
AI SQLSPE SSGIE+LE DTFKLHCYQTLTG+KF+++ D Q+G+D +L+KIYE+Y+D
Sbjct: 120 AIGSQLSPEQGSSGIEMLETDTFKLHCYQTLTGIKFVVLADPRQAGIDSLLRKIYEIYSD 179
Query: 121 YALKNPFYSLEMPIRCELFDTHLQNLLQQHEKTG 154
+ALKNPFYSLEMPIRCELFD +L+ L+ EK G
Sbjct: 180 FALKNPFYSLEMPIRCELFDQNLKLALEVAEKAG 213
>2j3t_C Trafficking protein particle complex subunit 1, trafficking protein
particle complex subunit 3; trapp, palmitate, transport,
lipoprotein, ER-golgi transport apparatus, protein
transport; HET: PLM; 2.4A {Mus musculus}
Length = 145
Score = 139 bits (351), Expect = 4e-43
Identities = 28/113 (24%), Positives = 51/113 (45%), Gaps = 1/113 (0%)
Query: 38 TFTRPRMTTNEKIFLASMFYPLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFM 97
E + M + + + S++SP G + +KLH Y+T TG+K +
Sbjct: 24 KKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDGFLSFQTSRYKLHYYETPTGIKVV 83
Query: 98 IVGDTNQSGLDLILKKIYE-LYADYALKNPFYSLEMPIRCELFDTHLQNLLQQ 149
+ D + +L IY LY ++ +KNP L ++ ELF + L + ++
Sbjct: 84 MNTDLGVGPIRDVLHHIYSALYVEFVVKNPLCPLGQTVQSELFRSRLDSYVRS 136
>3cue_A Transport protein particle 23 kDa subunit; membrane traffic, GEF,
tethering complex, RAB activation, GU nucleotide
exchange factor; HET: PLM; 3.70A {Saccharomyces
cerevisiae}
Length = 219
Score = 137 bits (346), Expect = 1e-41
Identities = 38/175 (21%), Positives = 66/175 (37%), Gaps = 26/175 (14%)
Query: 1 GHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTRPRMTTNEKIFLASMFYPLF 60
LT + + +++ + ++ + L S F
Sbjct: 47 ASQLTPKALQLTQQTNIENTIPYIPYVGMSSNRSDTRNGGGNNNKHTNNEKLGSFKGDDF 106
Query: 61 AIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQ---------------- 104
+ SG+ L D F + YQTLTG+KF+ + +
Sbjct: 107 F--KEPFTNWNKSGLRQLCTDQFTMFIYQTLTGLKFVAISSSVMPQRQPTIATTDKPDRP 164
Query: 105 --------SGLDLILKKIYELYADYALKNPFYSLEMPIRCELFDTHLQNLLQQHE 151
D L+K+Y LY+DY +K+P YS+EMPIR LFD ++ +++ +
Sbjct: 165 KSTSNLAIQIADNFLRKVYCLYSDYVMKDPSYSMEMPIRSNLFDEKVKKMVENLQ 219
Score = 36.2 bits (82), Expect = 0.002
Identities = 20/87 (22%), Positives = 36/87 (41%)
Query: 41 RPRMTTNEKIFLASMFYPLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVG 100
++ +NE + LAS + +FAIASQL+P+ + +T Y ++ +
Sbjct: 25 EQKLNSNEYLILASTLHGVFAIASQLTPKALQLTQQTNIENTIPYIPYVGMSSNRSDTRN 84
Query: 101 DTNQSGLDLILKKIYELYADYALKNPF 127
+ +K+ D K PF
Sbjct: 85 GGGNNNKHTNNEKLGSFKGDDFFKEPF 111
>3cue_C Transport protein particle 18 kDa subunit; membrane traffic, GEF,
tethering complex, RAB activation, GU nucleotide
exchange factor; HET: PLM; 3.70A {Saccharomyces
cerevisiae}
Length = 159
Score = 128 bits (323), Expect = 9e-39
Identities = 24/123 (19%), Positives = 46/123 (37%), Gaps = 14/123 (11%)
Query: 40 TRPRMTTNEKIFLASMFYPLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIV 99
+ + L M + L +I +LS + I + +++H Y T +G+ F+++
Sbjct: 32 INSKQNEEDAKLLYGMIFSLRSITQKLSKGSVKNDIRSISTGKYRVHTYCTASGLWFVLL 91
Query: 100 GDTNQSGLDLILKKIY-ELYADYALKNPFYSLEMP-------------IRCELFDTHLQN 145
D Q +L+ IY +Y Y N + I F + L++
Sbjct: 92 SDFKQQSYTQVLQYIYSHIYVKYVSNNLLSPYDFAENENEMRGQGTRKITNRNFISVLES 151
Query: 146 LLQ 148
L
Sbjct: 152 FLA 154
>2j3w_A Sedlin, trafficking protein particle complex protein 2;
multisubunit tethering factor, trapp, palmitate,
transport, lipoprotein; HET: PLM; 2.1A {Mus musculus}
SCOP: d.110.4.3 PDB: 1h3q_A
Length = 142
Score = 82.3 bits (203), Expect = 6e-21
Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 81 DTFKLHCYQTLTGVKFMIVGDTNQ-SGLDLILKKIYELYADYALKNPFYSLEMPIRCELF 139
+ + + + T ++F+++ D Q G+ +Y+LY +A+ NPFY PIR F
Sbjct: 70 NEWFVSAFVTAGHMRFIMLHDVRQEDGIKNFFTDVYDLYIKFAM-NPFYEPNSPIRSSAF 128
Query: 140 DTHLQNLLQQH 150
D +Q L ++H
Sbjct: 129 DRKVQFLGKKH 139
>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 = 40.6 bits (94), Expect = 1e-04
Identities = 20/133 (15%), Positives = 41/133 (30%), Gaps = 24/133 (18%)
Query: 30 PESFPVKLTFTRPRMTTNEKIFLASMFYPLFAIASQLSPEP-------KSSGIEVLEADT 82
+ F K +R + + L +L P SG + D
Sbjct: 123 NQVFA-KYNVSRLQPYLKLRQAL-----------LELRPAKNVLIDGVLGSGKTWVALDV 170
Query: 83 ---FKLHCYQTLTGVKFMIVGDTNQSGLDL-ILKKIYELYADYALKNPFYSLEMPIRCEL 138
+K+ C + ++ + + N L +L+K+ +S + +R
Sbjct: 171 CLSYKVQCKMDF-KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229
Query: 139 FDTHLQNLLQQHE 151
L+ LL+
Sbjct: 230 IQAELRRLLKSKP 242
>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 = 35.8 bits (82), Expect = 0.004
Identities = 23/166 (13%), Positives = 42/166 (25%), Gaps = 39/166 (23%)
Query: 1 GHVLTAVNDAVIKNGQLDDGTDVLE---------FLSKPE--SFPVKLTFTRPRMTTNEK 49
G+V + V + K GQ D VL +L + + KL K
Sbjct: 66 GYVSSLVEPS--KVGQFDQ---VLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTK 120
Query: 50 IFLASMFYPLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVG--DTNQSGL 107
+ + + S+ + +L I G
Sbjct: 121 ELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL----------VAIFGGQGNTDDYF 170
Query: 108 DLILKKIYELYADYALKNPFYSLEMPIRCELFDTHLQNLLQQHEKT 153
+ L+ +Y+ Y L + L L++
Sbjct: 171 EE-LRDLYQTYH--VLVGDL--------IKFSAETLSELIRTTLDA 205
Score = 34.3 bits (78), Expect = 0.015
Identities = 26/130 (20%), Positives = 44/130 (33%), Gaps = 42/130 (32%)
Query: 19 DGTDVLEFLSKPESFPVKLTFTRPRMTTNEKIFLASMFY--PLFAIASQLS---PEPKSS 73
G ++LE+L P + P +K +L S+ PL + QL+ K
Sbjct: 211 QGLNILEWLENPSNTP-------------DKDYLLSIPISCPLIGVI-QLAHYVVTAKLL 256
Query: 74 GIEVLEADTFKLHCYQTLTGVKFMIV-------GDTNQSGLDLILKKIYELYADYALKNP 126
G E + TG +V D+ +S + K A+
Sbjct: 257 GFTPGEL----RSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRK---------AITVL 303
Query: 127 FYSLEMPIRC 136
F+ + +RC
Sbjct: 304 FF---IGVRC 310
Score = 28.1 bits (62), Expect = 1.6
Identities = 20/95 (21%), Positives = 35/95 (36%), Gaps = 31/95 (32%)
Query: 9 DAVIKNGQLDDGTDVLEFLSK-----PESFPVKLT-FTRPRMTTNEK-IF---------- 51
D +K ++ + E + + + T FT+P +T EK F
Sbjct: 1698 DGKLKTEKIFKEIN--EHSTSYTFRSEKGL-LSATQFTQPALTLMEKAAFEDLKSKGLIP 1754
Query: 52 LASMF-------YP-LFAIASQLSPEPKSSGIEVL 78
+ F Y L ++A +S E S +EV+
Sbjct: 1755 ADATFAGHSLGEYAALASLADVMSIE---SLVEVV 1786
Score = 28.1 bits (62), Expect = 1.7
Identities = 13/65 (20%), Positives = 24/65 (36%), Gaps = 20/65 (30%)
Query: 1 GHVLTAVNDAVIKN--GQ----------LDDGTDVLEFLS--KPESFPVKLTFTRPRMTT 46
G ++ VN N Q LD T+VL F+ K + ++ + + +
Sbjct: 1838 GWLVEIVNY----NVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEV-- 1891
Query: 47 NEKIF 51
+F
Sbjct: 1892 EGHLF 1896
Score = 26.9 bits (59), Expect = 4.0
Identities = 30/137 (21%), Positives = 53/137 (38%), Gaps = 36/137 (26%)
Query: 2 HVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFT----RPRMTTN--EKIFLASM 55
H+L +D + K D + + F +K PV TF R ++ + E+I +
Sbjct: 430 HLLVPASDLINK----DLVKNNVSFNAKDIQIPVYDTFDGSDLR-VLSGSISERIVDCII 484
Query: 56 FYPL-FAIASQLSPE------P-KSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQSGL 107
P+ + +Q P +SG+ VL T + + TGV+ ++ G + +
Sbjct: 485 RLPVKWETTTQFKATHILDFGPGGASGLGVL---THRN---KDGTGVRVIVAGTLDINPD 538
Query: 108 DLILKKIYELYADYALK 124
D DY K
Sbjct: 539 D-----------DYGFK 544
>2vfk_A AKAP18 delta; APO, hydrolase; HET: AMP; 1.50A {Homo sapiens} PDB:
2vfl_A* 2vfy_A
Length = 205
Score = 29.6 bits (66), Expect = 0.40
Identities = 16/64 (25%), Positives = 24/64 (37%), Gaps = 4/64 (6%)
Query: 58 PLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQSGLDLILKKIYEL 117
L IA + GI E+ TFK H T + + G+ I +YE
Sbjct: 109 ALLEIAETAKRTFQEKGILAGESRTFKPHL--TFMKLSK--APMLWKKGVRKIEPGLYEQ 164
Query: 118 YADY 121
+ D+
Sbjct: 165 FIDH 168
>1yhu_D Hemoglobin B2 chain; globin fold, oxygen storage-transport complex;
HET: HEM; 3.15A {Riftia pachyptila}
Length = 149
Score = 25.0 bits (54), Expect = 9.4
Identities = 14/98 (14%), Positives = 36/98 (36%), Gaps = 3/98 (3%)
Query: 27 LSKPESFPVKLTFT---RPRMTTNEKIFLASMFYPLFAIASQLSPEPKSSGIEVLEADTF 83
+ + ++L + + T ++F LFA + + + ++ F
Sbjct: 4 CTTEDRREMQLMWGNVWSAQFTGRRIAIAQAVFKDLFANVPDAVGLFGAVKGDEVNSNEF 63
Query: 84 KLHCYQTLTGVKFMIVGDTNQSGLDLILKKIYELYADY 121
K HC + + G+ I ++ + L+ L + +
Sbjct: 64 KAHCIRVVNGLDSSIGLLSDPATLNEQLSHLATQHKAR 101
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
0.320 0.136 0.395
Gapped
Lambda K H
0.267 0.0451 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,411,481
Number of extensions: 133463
Number of successful extensions: 301
Number of sequences better than 10.0: 1
Number of HSP's gapped: 294
Number of HSP's successfully gapped: 16
Length of query: 164
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 78
Effective length of database: 4,300,587
Effective search space: 335445786
Effective search space used: 335445786
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 (21.8 bits)
S2: 53 (24.9 bits)