RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2728
(139 letters)
>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 = 92.7 bits (230), Expect = 4e-25
Identities = 31/73 (42%), Positives = 43/73 (58%)
Query: 67 EGKLMYGMLFSLKSFVSKISPLDSKTGFLSYKTTKYALHLYETPTGLKFVLNTDVQAQDV 126
+ KL+YGM+FSL+S K+S K S T KY +H Y T +GL FVL +D + Q
Sbjct: 40 DAKLLYGMIFSLRSITQKLSKGSVKNDIRSISTGKYRVHTYCTASGLWFVLLSDFKQQSY 99
Query: 127 RKFLASVYSKVYV 139
+ L +YS +YV
Sbjct: 100 TQVLQYIYSHIYV 112
>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 = 84.9 bits (210), Expect = 3e-22
Identities = 46/92 (50%), Positives = 62/92 (67%)
Query: 48 LILGQSVDHGSQSALMLMIEGKLMYGMLFSLKSFVSKISPLDSKTGFLSYKTTKYALHLY 107
+ Q+ + E KLMYGMLFS++SFVSK+SPLD K GFLS++T++Y LH Y
Sbjct: 15 CLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDGFLSFQTSRYKLHYY 74
Query: 108 ETPTGLKFVLNTDVQAQDVRKFLASVYSKVYV 139
ETPTG+K V+NTD+ +R L +YS +YV
Sbjct: 75 ETPTGIKVVMNTDLGVGPIRDVLHHIYSALYV 106
>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 = 69.4 bits (169), Expect = 1e-15
Identities = 22/73 (30%), Positives = 37/73 (50%), Gaps = 1/73 (1%)
Query: 67 EGKLMYGMLFSLKSFVSKISPLDSKTGFLSYKTTKYALHLYETPTGLKFVLNTDVQAQDV 126
E ++ M SL + S++SP +G +T + LH Y+T TG+KFV+ D + +
Sbjct: 107 EKLMLASMFHSLFAIGSQLSPEQGSSGIEMLETDTFKLHCYQTLTGIKFVVLADPRQAGI 166
Query: 127 RKFLASVYSKVYV 139
L +Y +Y
Sbjct: 167 DSLLRKIYE-IYS 178
>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 = 42.4 bits (98), Expect = 1e-05
Identities = 14/69 (20%), Positives = 26/69 (37%)
Query: 70 LMYGMLFSLKSFVSKISPLDSKTGFLSYKTTKYALHLYETPTGLKFVLNTDVQAQDVRKF 129
F F + +K+G T ++ + +Y+T TGLKFV + +
Sbjct: 95 NEKLGSFKGDDFFKEPFTNWNKSGLRQLCTDQFTMFIYQTLTGLKFVAISSSVMPQRQPT 154
Query: 130 LASVYSKVY 138
+A+
Sbjct: 155 IATTDKPDR 163
>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 = 31.5 bits (71), Expect = 0.047
Identities = 9/40 (22%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 96 SYKTTKYALHLYETPTGLKFVLNTDVQAQD-VRKFLASVY 134
K ++ + + T ++F++ DV+ +D ++ F VY
Sbjct: 66 VDKFNEWFVSAFVTAGHMRFIMLHDVRQEDGIKNFFTDVY 105
>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 = 29.4 bits (65), Expect = 0.42
Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 7/49 (14%)
Query: 88 LDSKTGFLSYKTTKYALHLYETPTGLKFVLNTDVQAQDVRKFLASVYSK 136
+D +TG Y+ + FV N D + DV+ S+ SK
Sbjct: 7 MDFETGEHQYQYKDILSVFED-----AFVDNFDCK--DVQDMPKSILSK 48
Score = 25.6 bits (55), Expect = 8.2
Identities = 26/158 (16%), Positives = 49/158 (31%), Gaps = 51/158 (32%)
Query: 9 HRPHPQEYHHPKQEYHPKQEYPKPL-------IGY--------DRSATPADVY------- 46
HR Y+ PK + P L IG+ +R V+
Sbjct: 446 HRSIVDHYNIPKT-FDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLE 504
Query: 47 -RLILGQSVDHGSQSALMLMIEGKLMYGMLFSLKSFVSKISP-----LDSKTGFLSYKTT 100
++ + + S S L + + K Y K ++ P +++ FL
Sbjct: 505 QKIRHDSTAWNASGSILNTLQQLKF-Y------KPYICDNDPKYERLVNAILDFLP---- 553
Query: 101 KYALHLYETPTGLKFVLNTDVQAQDVRKFLASVYSKVY 138
K +L + TD+ +R L + ++
Sbjct: 554 KIEENLICSK-------YTDL----LRIALMAEDEAIF 580
>3lvq_E ARF-GAP with SH3 domain, ANK repeat and PH domain containing
protein 3, ADP-ribosylation...; GDP, ASAP3, UPLC1,
linkers, alternat splicing; HET: GDP; 3.38A {Homo
sapiens} PDB: 3lvr_E*
Length = 497
Score = 28.3 bits (63), Expect = 0.82
Identities = 14/51 (27%), Positives = 23/51 (45%)
Query: 4 SLAPEHRPHPQEYHHPKQEYHPKQEYPKPLIGYDRSATPADVYRLILGQSV 54
SL+ + + P E +E ++G D + +Y+L LGQSV
Sbjct: 298 SLSSPSALNSTASNSPGIEGLSNKEMRILMLGLDAAGKTTILYKLKLGQSV 348
>3cf4_A Acetyl-COA decarboxylase/synthase alpha subunit; methanomicrobia,
iron-nikel-sulfur, 4Fe-NI-4S, oxidoreductas; 2.00A
{Methanosarcina barkeri}
Length = 807
Score = 28.2 bits (62), Expect = 0.98
Identities = 10/38 (26%), Positives = 19/38 (50%)
Query: 14 QEYHHPKQEYHPKQEYPKPLIGYDRSATPADVYRLILG 51
++ H + ++ K+ P I +D SA P ++ RL
Sbjct: 769 EKEHGWEIDWKRKKIISGPKIKFDVSAQPTNLKRLCKE 806
>2j5l_A Apical membrane antigen 1; malaria vaccine candidate, apical
membrane antigen 1, hypothetical protein,
immunoglobulin domain; 2.9A {Plasmodium falciparum}
SCOP: g.61.1.1 PDB: 1hn6_A
Length = 581
Score = 27.6 bits (60), Expect = 1.5
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 8 EHRPHPQEYHHPKQEYHPKQE 28
EHR HP+EY +P + H Q+
Sbjct: 11 EHREHPKEYEYPLHQEHTYQQ 31
>3na5_A Phosphoglucomutase; isomerase, metal binding; HET: BTB; 1.70A
{Salmonella enterica subsp} PDB: 3olp_A 2fuv_A*
Length = 570
Score = 26.5 bits (59), Expect = 3.1
Identities = 5/16 (31%), Positives = 6/16 (37%)
Query: 101 KYALHLYETPTGLKFV 116
L E P G K+
Sbjct: 385 DLGRKLVEVPVGFKWF 400
>2z0f_A Putative phosphoglucomutase; isomerase, magnesium, metal-binding,
structural genomics; 2.52A {Thermus thermophilus}
Length = 524
Score = 26.1 bits (58), Expect = 4.1
Identities = 6/16 (37%), Positives = 7/16 (43%)
Query: 101 KYALHLYETPTGLKFV 116
+YETP G K
Sbjct: 341 ALGREVYETPVGFKHF 356
>3ug3_A Alpha-L-arabinofuranosidase; TIM barrel, hydrolase; 1.80A
{Thermotoga maritima} PDB: 3ug4_A* 3ug5_A* 3s2c_A
4atw_A
Length = 504
Score = 26.0 bits (56), Expect = 5.8
Identities = 14/69 (20%), Positives = 24/69 (34%), Gaps = 10/69 (14%)
Query: 16 YHHPKQEYHPKQEYPKPLIGYDRSATPADVYRLILGQSVDHGSQSALMLMIEGKLMYGML 75
+HH P+ + I D + R I G +H G+ +YG +
Sbjct: 7 HHHHSSGLVPRGSHMSYGIVVDPKEVVKPISRHIYGHFTEH----------LGRCIYGGI 56
Query: 76 FSLKSFVSK 84
+ S +S
Sbjct: 57 YEEGSPLSD 65
>3pmg_A Alpha-D-glucose-1,6-bisphosphate; phosphoglucomutase,
phosphotransferase; HET: SEP; 2.40A {Oryctolagus
cuniculus} SCOP: c.84.1.1 c.84.1.1 c.84.1.1 d.129.2.1
PDB: 1c4g_A* 1jdy_A* 1lxt_A 1vkl_A* 1c47_A*
Length = 561
Score = 25.9 bits (57), Expect = 6.6
Identities = 10/20 (50%), Positives = 11/20 (55%)
Query: 99 TTKYALHLYETPTGLKFVLN 118
+ LYETPTG KF N
Sbjct: 344 ANATKIALYETPTGWKFFGN 363
>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 = 25.3 bits (54), Expect = 6.7
Identities = 6/17 (35%), Positives = 11/17 (64%), Gaps = 2/17 (11%)
Query: 122 QAQDVRKFLASVYSKVY 138
+ Q ++K AS+ K+Y
Sbjct: 18 EKQALKKLQASL--KLY 32
>3uws_A Hypothetical protein; clostripain family protein, peptidase_C11,
structural genomi center for structural genomics, JCSG;
HET: MSE; 1.70A {Parabacteroides merdae}
Length = 126
Score = 24.9 bits (54), Expect = 7.1
Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 3/26 (11%)
Query: 33 LIGYDRSATPADVYRLILGQSVDHGS 58
+IG S PAD Y L+L HG+
Sbjct: 92 VIGEVVSQYPADSYGLVLW---SHGT 114
>1kfi_A Phosphoglucomutase 1; parafusin, phosphoprotein PP63, exocytosis,
isomerase; 2.40A {Paramecium tetraurelia} SCOP: c.84.1.1
c.84.1.1 c.84.1.1 d.129.2.1 PDB: 1kfq_A
Length = 572
Score = 25.1 bits (55), Expect = 9.3
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 99 TTKYALHLYETPTGLKFVLN 118
K + L+ETPTG KF N
Sbjct: 361 AAKNGIKLFETPTGWKFFGN 380
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
0.318 0.134 0.389
Gapped
Lambda K H
0.267 0.0590 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,971,256
Number of extensions: 99235
Number of successful extensions: 206
Number of sequences better than 10.0: 1
Number of HSP's gapped: 206
Number of HSP's successfully gapped: 18
Length of query: 139
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 55
Effective length of database: 4,356,429
Effective search space: 239603595
Effective search space used: 239603595
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 (21.7 bits)
S2: 52 (24.1 bits)