RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2725
(143 letters)
>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 = 152 bits (386), Expect = 8e-49
Identities = 77/139 (55%), Positives = 106/139 (76%)
Query: 1 MTVYNFYLFDSFGTLLYYAEWNRLKHSGMPREEEGKLMYGMLFSLKSFVSKISPLDSKTG 60
MTV+N YLFD G L+Y+EW+R K +G+P+EEE KLMYGMLFS++SFVSK+SPLD K G
Sbjct: 1 MTVHNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDG 60
Query: 61 FLSYKTTKYALHLYETPTGLKFVLNTDVQAQDVRKFLASVYSKVYVEYVVKNPLINPREP 120
FLS++T++Y LH YETPTG+K V+NTD+ +R L +YS +YVE+VVKNPL +
Sbjct: 61 FLSFQTSRYKLHYYETPTGIKVVMNTDLGVGPIRDVLHHIYSALYVEFVVKNPLCPLGQT 120
Query: 121 IKSDLFQNALDALVKESSI 139
++S+LF++ LD+ V+
Sbjct: 121 VQSELFRSRLDSYVRSLPF 139
>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 = 144 bits (365), Expect = 2e-45
Identities = 48/154 (31%), Positives = 73/154 (47%), Gaps = 19/154 (12%)
Query: 1 MTVYNFYLFDSFGTLLYYAEWNRLKHSG------MPREEEGKLMYGMLFSLKSFVSKISP 54
M +Y+F++FD ++ EW +S EE+ KL+YGM+FSL+S K+S
Sbjct: 1 MGIYSFWIFDRHCNCIFDREWTLASNSASGTINSKQNEEDAKLLYGMIFSLRSITQKLSK 60
Query: 55 LDSKTGFLSYKTTKYALHLYETPTGLKFVLNTDVQAQDVRKFLASVYSKVYVEYVVKNPL 114
K S T KY +H Y T +GL FVL +D + Q + L +YS +YV+YV N L
Sbjct: 61 GSVKNDIRSISTGKYRVHTYCTASGLWFVLLSDFKQQSYTQVLQYIYSHIYVKYVSNNLL 120
Query: 115 -------------INPREPIKSDLFQNALDALVK 135
I + F + L++ +
Sbjct: 121 SPYDFAENENEMRGQGTRKITNRNFISVLESFLA 154
>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 = 108 bits (270), Expect = 2e-30
Identities = 33/128 (25%), Positives = 59/128 (46%), Gaps = 2/128 (1%)
Query: 8 LFDSFGTLLYYAEWNRLKHSGMPREEEGKLMYGMLFSLKSFVSKISPLDSKTGFLSYKTT 67
+ + G Y R + E ++ M SL + S++SP +G +T
Sbjct: 82 VLEYLGNPANYPVSIRFGRPRLT-SNEKLMLASMFHSLFAIGSQLSPEQGSSGIEMLETD 140
Query: 68 KYALHLYETPTGLKFVLNTDVQAQDVRKFLASVYSKVYVEYVVKNPLINPREPIKSDLFQ 127
+ LH Y+T TG+KFV+ D + + L +Y +Y ++ +KNP + PI+ +LF
Sbjct: 141 TFKLHCYQTLTGIKFVVLADPRQAGIDSLLRKIYE-IYSDFALKNPFYSLEMPIRCELFD 199
Query: 128 NALDALVK 135
L ++
Sbjct: 200 QNLKLALE 207
Score = 27.4 bits (60), Expect = 1.5
Identities = 5/25 (20%), Positives = 13/25 (52%)
Query: 1 MTVYNFYLFDSFGTLLYYAEWNRLK 25
M +++ Y+ + G L+Y + +
Sbjct: 1 MAIFSVYVVNKAGGLIYQLDSYAPR 25
>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 = 71.2 bits (173), Expect = 3e-16
Identities = 30/136 (22%), Positives = 53/136 (38%), Gaps = 25/136 (18%)
Query: 25 KHSGMPREEEGKLMYGMLFSLKSFVSKISPLDSKTGFLSYKTTKYALHLYETPTGLKFVL 84
++ G + F F + +K+G T ++ + +Y+T TGLKFV
Sbjct: 83 RNGGGNNNKHTNNEKLGSFKGDDFFKEPFTNWNKSGLRQLCTDQFTMFIYQTLTGLKFVA 142
Query: 85 NTD------------------------VQAQDVRKFLASVYSKVYVEYVVKNPLINPREP 120
+ + Q FL VY +Y +YV+K+P + P
Sbjct: 143 ISSSVMPQRQPTIATTDKPDRPKSTSNLAIQIADNFLRKVYC-LYSDYVMKDPSYSMEMP 201
Query: 121 IKSDLFQNALDALVKE 136
I+S+LF + +V+
Sbjct: 202 IRSNLFDEKVKKMVEN 217
Score = 36.2 bits (82), Expect = 0.002
Identities = 10/123 (8%), Positives = 35/123 (28%), Gaps = 2/123 (1%)
Query: 1 MTVYNFYLFDSFGTLLYYAEWNRLKHSGMPREEEGKLMYGMLFSLKSFVSKISPLDSKTG 60
M + + + G L+Y + + E ++ L + + S+++P +
Sbjct: 1 MAIETILVINKSGGLIYQRNFTNDEQK--LNSNEYLILASTLHGVFAIASQLTPKALQLT 58
Query: 61 FLSYKTTKYALHLYETPTGLKFVLNTDVQAQDVRKFLASVYSKVYVEYVVKNPLINPREP 120
+ Y + + + + S ++ + +
Sbjct: 59 QQTNIENTIPYIPYVGMSSNRSDTRNGGGNNNKHTNNEKLGSFKGDDFFKEPFTNWNKSG 118
Query: 121 IKS 123
++
Sbjct: 119 LRQ 121
>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 = 51.5 bits (123), Expect = 2e-09
Identities = 19/75 (25%), Positives = 39/75 (52%), Gaps = 3/75 (4%)
Query: 63 SYKTTKYALHLYETPTGLKFVLNTDVQAQD-VRKFLASVYSKVYVEYVVKNPLINPREPI 121
K ++ + + T ++F++ DV+ +D ++ F VY +Y+++ + NP P PI
Sbjct: 66 VDKFNEWFVSAFVTAGHMRFIMLHDVRQEDGIKNFFTDVY-DLYIKFAM-NPFYEPNSPI 123
Query: 122 KSDLFQNALDALVKE 136
+S F + L K+
Sbjct: 124 RSSAFDRKVQFLGKK 138
>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 = 36.0 bits (82), Expect = 0.002
Identities = 13/59 (22%), Positives = 26/59 (44%), Gaps = 7/59 (11%)
Query: 55 LDSKTGFLSYKTTKYALHLYETPTGLKFVLNTDVQAQDVRKFLASVYSKVYVEYVVKNP 113
+D +TG Y+ + FV N D + DV+ S+ SK +++++ +
Sbjct: 7 MDFETGEHQYQYKDILSVFED-----AFVDNFDCK--DVQDMPKSILSKEEIDHIIMSK 58
>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 = 32.3 bits (73), Expect = 0.052
Identities = 17/69 (24%), Positives = 30/69 (43%), Gaps = 22/69 (31%)
Query: 9 FDSFGTLLYYAEWNR--LKHSGMPREEEGKLMYGML----------FS---LKSFVSKIS 53
+S +++Y R +PR+E G+ YGM+ FS L+ V ++
Sbjct: 1779 IESLVEVVFY----RGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVG 1834
Query: 54 PLDSKTGFL 62
+TG+L
Sbjct: 1835 ---KRTGWL 1840
>3pr6_A Trapp-associated protein TCA17; longin fold, vesicle tethering
regulation, trapp complex, TR network, transport
protein; 1.80A {Saccharomyces cerevisiae}
Length = 162
Score = 28.8 bits (64), Expect = 0.40
Identities = 15/107 (14%), Positives = 33/107 (30%), Gaps = 9/107 (8%)
Query: 43 FSLKSFVSKISPLDSKTGFLSYKTTKYALHLYE-TPTGLKFVLNTDVQAQDVR----KFL 97
F + ++ ++ TGLK V+ + ++ + +
Sbjct: 52 FESALVEWHSLDSKPLLKSI-FQLEGVSVFAMLIKQTGLKIVIGFEQKSLSGADDEFEAI 110
Query: 98 ASVYSKVYVEY--VVKNPLINPREPIK-SDLFQNALDALVKESSISL 141
++ V Y V NPL+ + + D L + + L
Sbjct: 111 NQIFETVRKIYIRVKCNPLLVSGDEKSIIKSLERKFDELFISTEVEL 157
>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 = 27.2 bits (59), Expect = 1.3
Identities = 9/37 (24%), Positives = 16/37 (43%), Gaps = 8/37 (21%)
Query: 89 QAQDVRKFLASVYSKVYVEYVVKNPLINPREPIKSDL 125
+ Q ++K AS+ K+Y P IK+ +
Sbjct: 18 EKQALKKLQASL--KLYA------DDSAPALAIKATM 46
>3na5_A Phosphoglucomutase; isomerase, metal binding; HET: BTB; 1.70A
{Salmonella enterica subsp} PDB: 3olp_A 2fuv_A*
Length = 570
Score = 26.9 bits (60), Expect = 2.4
Identities = 5/16 (31%), Positives = 6/16 (37%)
Query: 68 KYALHLYETPTGLKFV 83
L E P G K+
Sbjct: 385 DLGRKLVEVPVGFKWF 400
>2qae_A Lipoamide, dihydrolipoyl dehydrogenase; FAD-cystine-oxidoreductase,
homodimer; HET: FAD; 1.90A {Trypanosoma cruzi}
Length = 468
Score = 26.7 bits (60), Expect = 3.5
Identities = 10/46 (21%), Positives = 16/46 (34%), Gaps = 9/46 (19%)
Query: 79 GLKFVLNTDVQAQDVRKFLASVYSKVYVEYVVKNPLINPREPIKSD 124
+KF+ +T V V +E KN RE + +
Sbjct: 230 KMKFMTSTKVVGGTNNG------DSVSLEVEGKN---GKRETVTCE 266
>2z0f_A Putative phosphoglucomutase; isomerase, magnesium, metal-binding,
structural genomics; 2.52A {Thermus thermophilus}
Length = 524
Score = 26.5 bits (59), Expect = 3.7
Identities = 6/16 (37%), Positives = 7/16 (43%)
Query: 68 KYALHLYETPTGLKFV 83
+YETP G K
Sbjct: 341 ALGREVYETPVGFKHF 356
>1g2o_A Purine nucleoside phosphorylase; trimer, transition-state complex,
transferase; HET: IMH; 1.75A {Mycobacterium
tuberculosis} SCOP: c.56.2.1 PDB: 1i80_A* 1n3i_A*
3iom_A*
Length = 268
Score = 26.4 bits (59), Expect = 3.8
Identities = 7/31 (22%), Positives = 13/31 (41%)
Query: 112 NPLINPREPIKSDLFQNALDALVKESSISLK 142
+PL+ +D + L L ++S L
Sbjct: 146 SPLVGGEFVDLTDAYSPRLRELARQSDPQLA 176
>1v59_A Dihydrolipoamide dehydrogenase; 2-oxoacid dehydroganese complex,
pyruvate dehydrogenase complex; HET: FAD NAD; 2.20A
{Saccharomyces cerevisiae} SCOP: c.3.1.5 c.3.1.5
d.87.1.1 PDB: 1jeh_A*
Length = 478
Score = 26.3 bits (59), Expect = 4.0
Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 6/46 (13%)
Query: 79 GLKFVLNTDVQAQDVRKFLASVYSKVYVEYVVKNPLINPREPIKSD 124
GL F L+T V + K VE VV++ N +E ++++
Sbjct: 238 GLDFKLSTKVISAKRND------DKNVVEIVVEDTKTNKQENLEAE 277
>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 = 6.3
Identities = 10/20 (50%), Positives = 11/20 (55%)
Query: 66 TTKYALHLYETPTGLKFVLN 85
+ LYETPTG KF N
Sbjct: 344 ANATKIALYETPTGWKFFGN 363
>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 = 25.5 bits (56), Expect = 8.5
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 66 TTKYALHLYETPTGLKFVLN 85
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
0.319 0.136 0.387
Gapped
Lambda K H
0.267 0.0614 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,011,286
Number of extensions: 102777
Number of successful extensions: 167
Number of sequences better than 10.0: 1
Number of HSP's gapped: 162
Number of HSP's successfully gapped: 20
Length of query: 143
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 59
Effective length of database: 4,356,429
Effective search space: 257029311
Effective search space used: 257029311
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: 52 (24.1 bits)