RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15590
(217 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 = 249 bits (637), Expect = 8e-85
Identities = 120/213 (56%), Positives = 162/213 (76%)
Query: 1 MVIYGVYIVSKSGGLIFNYDHNVPKIENAVTFQFPLNIKLTPENKKIVVSFGQRDGILVG 60
M I+ VY+V+K+GGLI+ D P+ E TF +PL++ L +++++V+FGQRDGI VG
Sbjct: 1 MAIFSVYVVNKAGGLIYQLDSYAPRAEAEKTFSYPLDLLLKLHDERVLVAFGQRDGIRVG 60
Query: 61 HVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTRPRMTTNEKIFLASMFYPLFA 120
H + A+N + DG +VLE+L P ++PV + F RPR+T+NEK+ LASMF+ LFA
Sbjct: 61 HAVLAINGMDVNGRYTADGKEVLEYLGNPANYPVSIRFGRPRLTSNEKLMLASMFHSLFA 120
Query: 121 IASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQSGLDLILKKIYELYADY 180
I SQLSPE SSGIE+LE DTFKLHCYQTLTG+KF+++ D Q+G+D +L+KIYE+Y+D+
Sbjct: 121 IGSQLSPEQGSSGIEMLETDTFKLHCYQTLTGIKFVVLADPRQAGIDSLLRKIYEIYSDF 180
Query: 181 ALKNPFYSLEMPIRCELFDTHLQNLLQQHEKTG 213
ALKNPFYSLEMPIRCELFD +L+ L+ EK G
Sbjct: 181 ALKNPFYSLEMPIRCELFDQNLKLALEVAEKAG 213
>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 = 184 bits (468), Expect = 3e-59
Identities = 47/234 (20%), Positives = 89/234 (38%), Gaps = 39/234 (16%)
Query: 1 MVIYGVYIVSKSGGLIFNYDHNVPKIENAVTFQFPLNIKLTPENKKIVVSFGQRDGILVG 60
M I + +++KSGGLI+ + + + N+ ++++ +
Sbjct: 1 MAIETILVINKSGGLIYQRNFTNDEQK-------------LNSNEYLILASTLHGVFAIA 47
Query: 61 HVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTRPRMTTNEKIFLASMFYPLFA 120
LT + + +++ + ++ + L S F
Sbjct: 48 SQLTPKALQLTQQTNIENTIPYIPYVGMSSNRSDTRNGGGNNNKHTNNEKLGSFKGDDFF 107
Query: 121 IASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQ----------------- 163
+ SG+ L D F + YQTLTG+KF+ + +
Sbjct: 108 --KEPFTNWNKSGLRQLCTDQFTMFIYQTLTGLKFVAISSSVMPQRQPTIATTDKPDRPK 165
Query: 164 -------SGLDLILKKIYELYADYALKNPFYSLEMPIRCELFDTHLQNLLQQHE 210
D L+K+Y LY+DY +K+P YS+EMPIR LFD ++ +++ +
Sbjct: 166 STSNLAIQIADNFLRKVYCLYSDYVMKDPSYSMEMPIRSNLFDEKVKKMVENLQ 219
>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 = 136 bits (345), Expect = 2e-41
Identities = 28/113 (24%), Positives = 51/113 (45%), Gaps = 1/113 (0%)
Query: 97 TFTRPRMTTNEKIFLASMFYPLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFM 156
E + M + + + S++SP G + +KLH Y+T TG+K +
Sbjct: 24 KKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDGFLSFQTSRYKLHYYETPTGIKVV 83
Query: 157 IVGDTNQSGLDLILKKIYE-LYADYALKNPFYSLEMPIRCELFDTHLQNLLQQ 208
+ D + +L IY LY ++ +KNP L ++ ELF + L + ++
Sbjct: 84 MNTDLGVGPIRDVLHHIYSALYVEFVVKNPLCPLGQTVQSELFRSRLDSYVRS 136
Score = 32.1 bits (73), Expect = 0.064
Identities = 3/20 (15%), Positives = 11/20 (55%)
Query: 1 MVIYGVYIVSKSGGLIFNYD 20
M ++ +Y+ ++G + +
Sbjct: 1 MTVHNLYLFDRNGVCLHYSE 20
>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 = 126 bits (319), Expect = 2e-37
Identities = 24/123 (19%), Positives = 46/123 (37%), Gaps = 14/123 (11%)
Query: 99 TRPRMTTNEKIFLASMFYPLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIV 158
+ + L M + L +I +LS + I + +++H Y T +G+ F+++
Sbjct: 32 INSKQNEEDAKLLYGMIFSLRSITQKLSKGSVKNDIRSISTGKYRVHTYCTASGLWFVLL 91
Query: 159 GDTNQSGLDLILKKIY-ELYADYALKNPFYSLEMP-------------IRCELFDTHLQN 204
D Q +L+ IY +Y Y N + I F + L++
Sbjct: 92 SDFKQQSYTQVLQYIYSHIYVKYVSNNLLSPYDFAENENEMRGQGTRKITNRNFISVLES 151
Query: 205 LLQ 207
L
Sbjct: 152 FLA 154
Score = 32.6 bits (74), Expect = 0.047
Identities = 11/51 (21%), Positives = 21/51 (41%), Gaps = 4/51 (7%)
Query: 1 MVIYGVYIVSKSGGLIFNYDHNVPKIENAVTFQFPLNIKLTPENKKIVVSF 51
M IY +I + IF+ + + + T +N K E+ K++
Sbjct: 1 MGIYSFWIFDRHCNCIFDREWTLASNSASGT----INSKQNEEDAKLLYGM 47
>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 = 81.2 bits (200), Expect = 6e-20
Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 140 DTFKLHCYQTLTGVKFMIVGDTNQ-SGLDLILKKIYELYADYALKNPFYSLEMPIRCELF 198
+ + + + T ++F+++ D Q G+ +Y+LY +A+ NPFY PIR F
Sbjct: 70 NEWFVSAFVTAGHMRFIMLHDVRQEDGIKNFFTDVYDLYIKFAM-NPFYEPNSPIRSSAF 128
Query: 199 DTHLQNLLQQH 209
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 = 46.4 bits (109), Expect = 3e-06
Identities = 30/208 (14%), Positives = 61/208 (29%), Gaps = 32/208 (15%)
Query: 19 YDH--NVPKIENAVTFQFPLNIKLTPEN--KKIVVSFGQRD-GILVGHVLTAVNDAVIKN 73
DH + F + E +K V + + L+ + T +
Sbjct: 51 IDHIIMSKDAVSGTLRLFWT-LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMT 109
Query: 74 GQLDDGTDVLEFLSKPESFPVKLTFTRPRMTTNEKIFLASMFYPLFAIASQLSPEP---- 129
+ D L + + F K +R + + L +L P
Sbjct: 110 RMYIEQRDRLY--NDNQVFA-KYNVSRLQPYLKLRQAL-----------LELRPAKNVLI 155
Query: 130 ---KSSGIEVLEADT---FKLHCYQTLTGVKFMIVGDTNQSGLDL-ILKKIYELYADYAL 182
SG + D +K+ C + ++ + + N L +L+K+
Sbjct: 156 DGVLGSGKTWVALDVCLSYKVQCKMDF-KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWT 214
Query: 183 KNPFYSLEMPIRCELFDTHLQNLLQQHE 210
+S + +R L+ LL+
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRRLLKSKP 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 = 36.6 bits (84), Expect = 0.006
Identities = 22/168 (13%), Positives = 42/168 (25%), Gaps = 35/168 (20%)
Query: 58 LVGHVLTAVNDAVIKNGQLDDGTDVLE---------FLSKPE--SFPVKLTFTRPRMTTN 106
LVG L V+ V + ++ VL +L + + KL
Sbjct: 60 LVGKFLGYVSSLV-EPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVK 118
Query: 107 EKIFLASMFYPLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVG--DTNQS 164
K + + + S+ + +L I G
Sbjct: 119 TKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL----------VAIFGGQGNTDD 168
Query: 165 GLDLILKKIYELYADYALKNPFYSLEMPIRCELFDTHLQNLLQQHEKT 212
+ L+ +Y+ Y L + L L++
Sbjct: 169 YFEE-LRDLYQTYH--VLVGDL--------IKFSAETLSELIRTTLDA 205
Score = 34.6 bits (79), Expect = 0.020
Identities = 27/138 (19%), Positives = 50/138 (36%), Gaps = 38/138 (27%)
Query: 31 TFQFPLNIKLTPEN-KKIVVSFGQRDG--I---LVGHVLTAVNDAVIKNGQLDDGTDVLE 84
T+ F + + + N + + FG G I + + D +K ++ + E
Sbjct: 1656 TYGFSI-LDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEIN--E 1712
Query: 85 FLSK-----PESFPVKLT-FTRPRMTTNEK-IF----------LASMF-------YP-LF 119
+ + + T FT+P +T EK F + F Y L
Sbjct: 1713 HSTSYTFRSEKGL-LSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALA 1771
Query: 120 AIASQLSPEPKSSGIEVL 137
++A +S E S +EV+
Sbjct: 1772 SLADVMSIE---SLVEVV 1786
Score = 34.3 bits (78), Expect = 0.030
Identities = 44/230 (19%), Positives = 74/230 (32%), Gaps = 78/230 (33%)
Query: 9 VSKSGGLIFNY-------DHNVPKIENAVTFQFPLNIKLTPENKKIVVSF-GQ------- 53
+ K+ LI NY K N+ F+ + N ++V F GQ
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFR-----AVGEGNAQLVAIFGGQGNTDDYF 170
Query: 54 ---RD-----GILVGHVLTA--------VNDAVIKNGQLDDGTDVLEFLSKPESFPVKLT 97
RD +LVG ++ + + G ++LE+L P + P
Sbjct: 171 EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTP---- 226
Query: 98 FTRPRMTTNEKIFLASMFY--PLFAIASQLS---PEPKSSGIEVLEADTFKLHCYQTLTG 152
+K +L S+ PL + QL+ K G E + TG
Sbjct: 227 ---------DKDYLLSIPISCPLIGVI-QLAHYVVTAKLLGFTPGEL----RSYLKGATG 272
Query: 153 VKFMIV-------GDTNQSGLDLILKKIYELYADYALKNPFYSLEMPIRC 195
+V D+ +S + K A+ F+ + +RC
Sbjct: 273 HSQGLVTAVAIAETDSWESFFVSVRK---------AITVLFF---IGVRC 310
Score = 33.5 bits (76), Expect = 0.054
Identities = 25/135 (18%), Positives = 40/135 (29%), Gaps = 43/135 (31%)
Query: 36 LNIKLTPENKKIVVSF--GQRDGILVGHV--LTAVNDAVIKNGQLDDGTD---------- 81
N L P K++ +S G ++ ++ G L +N + + + G D
Sbjct: 356 TNSHL-PAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL-RKAKAPSGLDQSRIPFSERK 413
Query: 82 ---VLEFLSKPESFPVKLTFTRPRMTTNEKIFLASMFY-PLFAIASQLSPEPKSSGIEVL 137
FL PV P F+ L AS L +
Sbjct: 414 LKFSNRFL------PV----ASP-------------FHSHLLVPASDLINKDLVKNNVSF 450
Query: 138 EADTFKLHCYQTLTG 152
A ++ Y T G
Sbjct: 451 NAKDIQIPVYDTFDG 465
Score = 31.9 bits (72), Expect = 0.18
Identities = 27/131 (20%), Positives = 45/131 (34%), Gaps = 41/131 (31%)
Query: 5 GVYIVSKSGGLIFNYDHNVPKIEN--------AVTFQFPLNI--KLTPEN-KKIVVSFGQ 53
V +V G + VP+ E A+ P + + E + +V G+
Sbjct: 1782 LVEVVFYRGMTM---QVAVPRDELGRSNYGMIAIN---PGRVAASFSQEALQYVVERVGK 1835
Query: 54 RDGILVGHVLTAVNDAVIKN--GQ----------LDDGTDVLEFLS--KPESFPVKLTFT 99
R G LV VN N Q LD T+VL F+ K + ++ + +
Sbjct: 1836 RTGWLV----EIVNY----NVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLS 1887
Query: 100 RPRMTTNEKIF 110
+ +F
Sbjct: 1888 LEEV--EGHLF 1896
Score = 26.9 bits (59), Expect = 7.6
Identities = 30/137 (21%), Positives = 53/137 (38%), Gaps = 36/137 (26%)
Query: 61 HVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFT----RPRMTTN--EKIFLASM 114
H+L +D + K D + + F +K PV TF R ++ + E+I +
Sbjct: 430 HLLVPASDLINK----DLVKNNVSFNAKDIQIPVYDTFDGSDLR-VLSGSISERIVDCII 484
Query: 115 FYPL-FAIASQLSPE------P-KSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQSGL 166
P+ + +Q P +SG+ VL T + + TGV+ ++ G + +
Sbjct: 485 RLPVKWETTTQFKATHILDFGPGGASGLGVL---THRN---KDGTGVRVIVAGTLDINPD 538
Query: 167 DLILKKIYELYADYALK 183
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 = 0.60
Identities = 16/64 (25%), Positives = 24/64 (37%), Gaps = 4/64 (6%)
Query: 117 PLFAIASQLSPEPKSSGIEVLEADTFKLHCYQTLTGVKFMIVGDTNQSGLDLILKKIYEL 176
L IA + GI E+ TFK H T + + G+ I +YE
Sbjct: 109 ALLEIAETAKRTFQEKGILAGESRTFKPHL--TFMKLSK--APMLWKKGVRKIEPGLYEQ 164
Query: 177 YADY 180
+ D+
Sbjct: 165 FIDH 168
>3r0h_A INAD, inactivation-NO-after-potential D protein; protein-protein
complex, PDZ domain, peptide binding protein; 2.60A
{Drosophila melanogaster}
Length = 206
Score = 28.3 bits (63), Expect = 1.5
Identities = 9/51 (17%), Positives = 16/51 (31%), Gaps = 5/51 (9%)
Query: 53 QRDGIL-VGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPESFPVKLTFTRPR 102
+ D L G ++T N ++ V + TRP+
Sbjct: 150 EIDSKLQRGDIITKFNGDALEGLPFQ---VCYALFKGANG-KVSMEVTRPK 196
>1w9e_A Syntenin 1; cell adhesion, adhesion/complex, PDZ domain,
scaffolding protein signaling protein; 1.56A {Homo
sapiens} SCOP: b.36.1.1 b.36.1.1 PDB: 1n99_A 1v1t_A
1obz_A 1w9o_A 1w9q_A 1ybo_A
Length = 166
Score = 27.9 bits (62), Expect = 2.0
Identities = 9/70 (12%), Positives = 19/70 (27%), Gaps = 9/70 (12%)
Query: 38 IKLTPENKKIVVSF------GQRDGILVGHVLTAVNDAVIKNGQLDDGTDVLEFLSKPES 91
++L + I V G+ G + +N D + L +
Sbjct: 20 LRLKSIDNGIFVQLVQANSPASLVGLRFGDQVLQINGENCAGWSSD---KAHKVLKQAFG 76
Query: 92 FPVKLTFTRP 101
+ +T
Sbjct: 77 EKITMTIRDR 86
>3suz_A Amyloid beta A4 precursor protein-binding family 2; APP binding;
2.70A {Rattus norvegicus} PDB: 1u3b_A 1u39_A 1x45_A
1u37_A 1u38_A 2yt8_A
Length = 388
Score = 26.9 bits (58), Expect = 6.5
Identities = 7/32 (21%), Positives = 13/32 (40%)
Query: 53 QRDGILVGHVLTAVNDAVIKNGQLDDGTDVLE 84
+R G+ VGH + +N + + L
Sbjct: 329 ERGGVRVGHRIIEINGQSVVATAHEKIVQALS 360
>1ekr_A Molybdenum cofactor biosynthesis protein C; MOAC, molybdenum
cofactor (MOCO), MOCO biosynthesis, MOCO DE translation;
2.00A {Escherichia coli} SCOP: d.58.21.1 PDB: 1eks_A*
Length = 161
Score = 26.0 bits (58), Expect = 7.1
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 1 MVIYGVYIVSKSGG 14
MVI V +++KSGG
Sbjct: 137 MVIGPVRLLAKSGG 150
>2iih_A Molybdenum cofactor biosynthesis protein C; MOAC, molybdenum
cofactor (MOCO), MOCO biosynthesis, structu genomics,
NPPSFA; 1.75A {Thermus thermophilus} PDB: 2ide_A 3jqj_A
3jqk_A 3jqm_A*
Length = 157
Score = 25.9 bits (58), Expect = 7.2
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 1 MVIYGVYIVSKSGG 14
+VI V ++ K+GG
Sbjct: 135 LVISQVRLLHKAGG 148
>2eey_A Molybdopterin biosynthesis; molybdenium precursor bosynthesis,
structural genomics; 1.94A {Geobacillus kaustophilus}
Length = 162
Score = 26.0 bits (58), Expect = 7.3
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 1 MVIYGVYIVSKSGG 14
MVI Y+V K+GG
Sbjct: 139 MVIGPTYLVEKTGG 152
>2ohd_A Probable molybdenum cofactor biosynthesis protein; alpha + beta,
biosynthetic protein; 2.20A {Sulfolobus tokodaii str}
Length = 151
Score = 25.6 bits (57), Expect = 8.6
Identities = 2/14 (14%), Positives = 6/14 (42%)
Query: 1 MVIYGVYIVSKSGG 14
I + +++K
Sbjct: 133 TEIKSIRVINKIKT 146
>2ekn_A Probable molybdenum cofactor biosynthesis protein; structural
genomic NPPSFA, national project on protein structural
and function analyses; HET: FLC; 2.05A {Pyrococcus
horikoshii}
Length = 159
Score = 25.6 bits (57), Expect = 9.4
Identities = 4/14 (28%), Positives = 6/14 (42%)
Query: 1 MVIYGVYIVSKSGG 14
I V++V K
Sbjct: 142 TRIENVHVVEKVKT 155
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
0.321 0.139 0.401
Gapped
Lambda K H
0.267 0.0436 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,256,294
Number of extensions: 191423
Number of successful extensions: 392
Number of sequences better than 10.0: 1
Number of HSP's gapped: 383
Number of HSP's successfully gapped: 26
Length of query: 217
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 127
Effective length of database: 4,188,903
Effective search space: 531990681
Effective search space used: 531990681
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: 55 (25.7 bits)