RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4857
(327 letters)
>gnl|CDD|217862 pfam04051, TRAPP, Transport protein particle (TRAPP) component.
TRAPP plays a key role in the targeting and/or fusion of
ER-to-Golgi transport vesicles with their acceptor
compartment. TRAPP is a large multimeric protein that
contains at least 10 subunits. This family contains many
TRAPP family proteins. The Bet3 subunit is one of the
better characterized TRAPP proteins and has a dimeric
structure with hydrophobic channels. The channel
entrances are located on a putative membrane-interacting
surface that is distinctively flat, wide and decorated
with positively charged residues. Bet3 is proposed to
localise TRAPP to the Golgi.
Length = 148
Score = 161 bits (409), Expect = 3e-49
Identities = 61/151 (40%), Positives = 84/151 (55%), Gaps = 6/151 (3%)
Query: 166 LFTLTYGALVSQLLKDYDNVEDVNKQLDRMGYNIGIRLIEDFLARTQSTRCYDFKETAEK 225
LF L YG LVS LL+D EDVN +L++MGYNIG RLIE LAR+ S RC D E +
Sbjct: 1 LFALLYGELVSYLLRDV---EDVNARLEKMGYNIGQRLIERLLARSGSKRCTDLLEVLKF 57
Query: 226 IQL-GFRIYLGISPNISNWSAGGDEFSLIFETNPMLEFVELPDNCTNLKYCNVLTGVLRG 284
I +++ G ++ S G E+ LI NP+ +FVELP + + L Y N L G++RG
Sbjct: 58 ICKDLWKMLFGKQADVLETSHDG-EYVLIDNDNPLSQFVELPPDYSGLNYLNFLCGIIRG 116
Query: 285 ACEMVQLDITSKFIQDQLKGDN-VTELRVKF 314
A + D L+G V E++ +
Sbjct: 117 ALSSLGFPAKVTAHSDPLRGPGTVFEIKFEK 147
Score = 158 bits (402), Expect = 3e-48
Identities = 59/144 (40%), Positives = 79/144 (54%), Gaps = 5/144 (3%)
Query: 17 LFTLTYGALVSQLLKDYDNVEDVNKQLDRMGYNIGIRLIEDFLARTQSTRCYDFKETAEK 76
LF L YG LVS LL+D EDVN +L++MGYNIG RLIE LAR+ S RC D E +
Sbjct: 1 LFALLYGELVSYLLRDV---EDVNARLEKMGYNIGQRLIERLLARSGSKRCTDLLEVLKF 57
Query: 77 IQL-GFRIYLGISPNISNWSAGGDEFSLIFETNPMLEFVELPDNCTNLKYCNVLTGVLRG 135
I +++ G ++ S G E+ LI NP+ +FVELP + + L Y N L G++RG
Sbjct: 58 ICKDLWKMLFGKQADVLETSHDG-EYVLIDNDNPLSQFVELPPDYSGLNYLNFLCGIIRG 116
Query: 136 ACEMVQLDITSKFIQDQLKGDNVT 159
A + D L+G
Sbjct: 117 ALSSLGFPAKVTAHSDPLRGPGTV 140
>gnl|CDD|227457 COG5128, COG5128, Transport protein particle (TRAPP) complex
subunit [Intracellular trafficking and secretion].
Length = 208
Score = 38.0 bits (88), Expect = 0.003
Identities = 26/141 (18%), Positives = 61/141 (43%), Gaps = 13/141 (9%)
Query: 11 KKVNSELFTLTYGALVSQLLKDYDNVEDVNKQLDRMGYNIGIRLIEDFLARTQSTRCYDF 70
++V + ++ L++ ++D +L +GY +GI+L+E R ++ +
Sbjct: 38 REVPLSTMAFLFCEMIEYLMEQRSGIQDFEAKLKSIGYEVGIKLLELCNFRRRNPK---- 93
Query: 71 KETAEKIQLGFRIYLGISPNISNWSAGGDEFS-------LIFETNPML-EFVELPDNCTN 122
+E + + RI+ + + S E S +I + +P+L F+ +PD
Sbjct: 94 REV-RILTILQRIHFDLWSYLFGDSDDRLEKSREVDREYMIVDNDPLLSRFISVPDEWNG 152
Query: 123 LKYCNVLTGVLRGACEMVQLD 143
L +++ G+++G
Sbjct: 153 LSCDSIVCGIIQGFLMAAGFP 173
Score = 37.2 bits (86), Expect = 0.006
Identities = 26/144 (18%), Positives = 61/144 (42%), Gaps = 17/144 (11%)
Query: 161 LRNSEL----FTLTYGALVSQLLKDYDNVEDVNKQLDRMGYNIGIRLIEDFLARTQSTRC 216
+ E+ + ++ L++ ++D +L +GY +GI+L+E R ++ +
Sbjct: 35 IMKREVPLSTMAFLFCEMIEYLMEQRSGIQDFEAKLKSIGYEVGIKLLELCNFRRRNPK- 93
Query: 217 YDFKETAEKIQLGFRIYLGISPNISNWSAGGDEFS-------LIFETNPML-EFVELPDN 268
+E + + RI+ + + S E S +I + +P+L F+ +PD
Sbjct: 94 ---REV-RILTILQRIHFDLWSYLFGDSDDRLEKSREVDREYMIVDNDPLLSRFISVPDE 149
Query: 269 CTNLKYCNVLTGVLRGACEMVQLD 292
L +++ G+++G
Sbjct: 150 WNGLSCDSIVCGIIQGFLMAAGFP 173
>gnl|CDD|232896 TIGR00260, thrC, threonine synthase. Involved in threonine
biosynthesis it catalyses the reaction
O-PHOSPHO-L-HOMOSERINE + H(2)O = L-THREONINE +
ORTHOPHOSPHATE using pyridoxal phosphate as a cofactor.
the enzyme is distantly related to the serine/threonine
dehydratases which are also pyridoxal-phosphate
dependent enzymes. the pyridoxal-phosphate binding site
is a Lys (K) residues present at residue 70 of the model
[Amino acid biosynthesis, Aspartate family].
Length = 328
Score = 30.0 bits (68), Expect = 1.8
Identities = 20/107 (18%), Positives = 35/107 (32%), Gaps = 18/107 (16%)
Query: 19 TLTYGALVSQLLKDYDNVEDVNKQLDRMGYNIGIRLIEDFLARTQSTRCYDF-------K 71
L Y A V + ++D+ + + KQL +G+ + R + + Y F
Sbjct: 114 ALGYNAEVVAIDGNFDDAQRLVKQLFGDKEALGLNSVNSIPYRLEGQKTYAFEAVEQLGW 173
Query: 72 ETAEKIQLGFRIYLGISPNISNWSAGGDEFSLIFETNPMLEFVELPD 118
E +K+ + + S N G E LP
Sbjct: 174 EAPDKVVVP----VPNSGNFGAILKGFKEKK-------EGGLDSLPV 209
Score = 30.0 bits (68), Expect = 1.8
Identities = 20/107 (18%), Positives = 35/107 (32%), Gaps = 18/107 (16%)
Query: 168 TLTYGALVSQLLKDYDNVEDVNKQLDRMGYNIGIRLIEDFLARTQSTRCYDF-------K 220
L Y A V + ++D+ + + KQL +G+ + R + + Y F
Sbjct: 114 ALGYNAEVVAIDGNFDDAQRLVKQLFGDKEALGLNSVNSIPYRLEGQKTYAFEAVEQLGW 173
Query: 221 ETAEKIQLGFRIYLGISPNISNWSAGGDEFSLIFETNPMLEFVELPD 267
E +K+ + + S N G E LP
Sbjct: 174 EAPDKVVVP----VPNSGNFGAILKGFKEKK-------EGGLDSLPV 209
>gnl|CDD|222896 PHA02592, 52, DNA topisomerase II medium subunit; Provisional.
Length = 439
Score = 29.3 bits (66), Expect = 3.3
Identities = 11/43 (25%), Positives = 19/43 (44%)
Query: 56 EDFLARTQSTRCYDFKETAEKIQLGFRIYLGISPNISNWSAGG 98
+ F + R + + T EKI F + +S NI+ + G
Sbjct: 266 DGFRFKVTLKREENEEATHEKIMKDFGLIERVSQNITVINENG 308
Score = 29.3 bits (66), Expect = 3.3
Identities = 11/43 (25%), Positives = 19/43 (44%)
Query: 205 EDFLARTQSTRCYDFKETAEKIQLGFRIYLGISPNISNWSAGG 247
+ F + R + + T EKI F + +S NI+ + G
Sbjct: 266 DGFRFKVTLKREENEEATHEKIMKDFGLIERVSQNITVINENG 308
>gnl|CDD|237144 PRK12582, PRK12582, acyl-CoA synthetase; Provisional.
Length = 624
Score = 28.9 bits (65), Expect = 4.4
Identities = 13/42 (30%), Positives = 15/42 (35%), Gaps = 1/42 (2%)
Query: 22 YGALVSQLLKDYDNVEDVNKQLDRMGYNIGIRLIEDFLARTQ 63
Y L + KD K L M Y G L +D R Q
Sbjct: 327 YAMLAEAMEKDDALRRSFFKNLRLMAYG-GATLSDDLYERMQ 367
Score = 28.9 bits (65), Expect = 4.4
Identities = 13/42 (30%), Positives = 15/42 (35%), Gaps = 1/42 (2%)
Query: 171 YGALVSQLLKDYDNVEDVNKQLDRMGYNIGIRLIEDFLARTQ 212
Y L + KD K L M Y G L +D R Q
Sbjct: 327 YAMLAEAMEKDDALRRSFFKNLRLMAYG-GATLSDDLYERMQ 367
>gnl|CDD|226042 COG3511, PlcC, Phospholipase C [Cell envelope biogenesis, outer
membrane].
Length = 527
Score = 28.5 bits (64), Expect = 5.5
Identities = 17/41 (41%), Positives = 20/41 (48%), Gaps = 3/41 (7%)
Query: 77 IQLGFRIYLGISPNISNWSAGGDEFSLIFETNPMLEFVELP 117
LGFR+ G IS WS GG S F+ L F+EL
Sbjct: 383 YGLGFRVPCG---VISPWSRGGYVDSDTFDHTSALRFLELR 420
Score = 28.5 bits (64), Expect = 5.5
Identities = 17/41 (41%), Positives = 20/41 (48%), Gaps = 3/41 (7%)
Query: 226 IQLGFRIYLGISPNISNWSAGGDEFSLIFETNPMLEFVELP 266
LGFR+ G IS WS GG S F+ L F+EL
Sbjct: 383 YGLGFRVPCG---VISPWSRGGYVDSDTFDHTSALRFLELR 420
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.320 0.138 0.401
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,516,393
Number of extensions: 1586924
Number of successful extensions: 1264
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1256
Number of HSP's successfully gapped: 27
Length of query: 327
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 230
Effective length of database: 6,635,264
Effective search space: 1526110720
Effective search space used: 1526110720
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: 59 (26.5 bits)