RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16475
(299 letters)
>gnl|CDD|233179 TIGR00911, 2A0308, L-type amino acid transporter. [Transport and
binding proteins, Amino acids, peptides and amines].
Length = 501
Score = 138 bits (350), Expect = 1e-37
Identities = 63/145 (43%), Positives = 94/145 (64%)
Query: 147 FVQKLMCFVGARYGHFPAMLSHINISRFTPTPSLVFLNILSLFMLFTSDVFLLITYSSFV 206
F + FVG R GH P++LS I++ R TP PSL+ + L+L MLF+ D++ LI SF
Sbjct: 338 FSSSRLFFVGGREGHLPSLLSMIHVKRLTPLPSLLIVCTLTLLMLFSGDIYSLINLISFA 397
Query: 207 ESAFIMISVCGILYLRYTQPDMHRPIKVSLWVPISFVLICVFLVVTPILEAPREVGMAVL 266
F ++V G+L+LRY +P+M+RPIKV L+ P+ F+L C+FL++ + P G+ +
Sbjct: 398 NWLFNALAVAGLLWLRYKRPEMNRPIKVPLFFPVFFLLSCLFLIILSLYSPPVGCGVGFI 457
Query: 267 ITLSGVPVYLIGVKWRDKPEAFTRS 291
I L+GVPVY GV W++KP+ F
Sbjct: 458 IMLTGVPVYFFGVWWQNKPKWFRYL 482
Score = 137 bits (347), Expect = 4e-37
Identities = 64/150 (42%), Positives = 97/150 (64%)
Query: 3 FVGARYDHFPVMLSHINLSRFTPTPSLVFLNILSLFMLFTSDVFLLITYSSFVESAFIMI 62
FVG R H P +LS I++ R TP PSL+ + L+L MLF+ D++ LI SF F +
Sbjct: 345 FVGGREGHLPSLLSMIHVKRLTPLPSLLIVCTLTLLMLFSGDIYSLINLISFANWLFNAL 404
Query: 63 SVCGILYLRYTQPDMHRPIKVSLWVPISFVLICVFLVVTPILEAPREVGMAVLITLSGVP 122
+V G+L+LRY +P+M+RPIKV L+ P+ F+L C+FL++ + P G+ +I L+GVP
Sbjct: 405 AVAGLLWLRYKRPEMNRPIKVPLFFPVFFLLSCLFLIILSLYSPPVGCGVGFIIMLTGVP 464
Query: 123 VYLIGVKWRDKPEAFTRSFNALTYFVQKLM 152
VY GV W++KP+ F + T +QK++
Sbjct: 465 VYFFGVWWQNKPKWFRYLIVSKTVLLQKVL 494
>gnl|CDD|129986 TIGR00908, 2A0305, ethanolamine permease. The three genes used as
the seed for this model (from Burkholderia pseudomallei,
Pseudomonas aeruginosa and Clostridium acetobutylicum
are all adjacent to genes for the catabolism of
ethanolamine. Most if not all of the hits to this model
have a similar arrangement of genes. This group is a
member of the Amino Acid-Polyamine-Organocation (APC)
Superfamily [Transport and binding proteins, Amino
acids, peptides and amines].
Length = 442
Score = 52.5 bits (126), Expect = 1e-07
Identities = 34/117 (29%), Positives = 52/117 (44%), Gaps = 5/117 (4%)
Query: 154 FVGARYGHFPAMLSHINISRFTPTPSLVFLNILSLFMLFTSDVFLLITYSSFVESAFIMI 213
F +R G+ P LS +N + P ++V ++ + T L+I S F ++
Sbjct: 304 FALSRAGYLPESLSKVN-RKKAPVLAIVVPGVIGFGLSLTGQTALIILVSVFGAIISYVL 362
Query: 214 SVCGILYLRYTQPDMHRPIKVSLWV---PISFVLICVFLVVTPILEAPREVGMAVLI 267
S+ LR +PDM RP + + ++ VL CV LV PR V AV I
Sbjct: 363 SMAAHFTLRIRRPDMERPYRTPGGILTPGVALVLACVALVTG-FYVDPRVVVGAVAI 418
Score = 49.5 bits (118), Expect = 9e-07
Identities = 33/117 (28%), Positives = 51/117 (43%), Gaps = 5/117 (4%)
Query: 3 FVGARYDHFPVMLSHINLSRFTPTPSLVFLNILSLFMLFTSDVFLLITYSSFVESAFIMI 62
F +R + P LS +N + P ++V ++ + T L+I S F ++
Sbjct: 304 FALSRAGYLPESLSKVN-RKKAPVLAIVVPGVIGFGLSLTGQTALIILVSVFGAIISYVL 362
Query: 63 SVCGILYLRYTQPDMHRPIKVSLWV---PISFVLICVFLVVTPILEAPREVGMAVLI 116
S+ LR +PDM RP + + ++ VL CV LV PR V AV I
Sbjct: 363 SMAAHFTLRIRRPDMERPYRTPGGILTPGVALVLACVALVTG-FYVDPRVVVGAVAI 418
>gnl|CDD|223605 COG0531, PotE, Amino acid transporters [Amino acid transport and
metabolism].
Length = 466
Score = 37.5 bits (87), Expect = 0.007
Identities = 29/136 (21%), Positives = 56/136 (41%), Gaps = 6/136 (4%)
Query: 152 MCFVGARYGHFPAMLSHINISRFTPTPSLVFLNILSLFMLF-----TSDVFLLITYSSFV 206
+ + AR G P + +N TP +L+ I+SL +L + L++ +S
Sbjct: 312 VLYAMARDGLLPKFFAKVNPKGRTPVIALILTGIISLILLLLFPLSSIAFNALVSLASVA 371
Query: 207 ESAFIMISVCGILYLRYTQPDMHRPIKVSLWVPISFVLICVFLVVTPILEAPREVGMAVL 266
++ +L LR +PD+ RP ++ L I + I L++ L A + +L
Sbjct: 372 FLIAYLLVALALLVLRRKKPDLKRPFRLPLAPLIPILGIVAVLLLLYALYAS-GLPPLLL 430
Query: 267 ITLSGVPVYLIGVKWR 282
+ +I +
Sbjct: 431 GVILIAGGIIIYLLVY 446
Score = 35.5 bits (82), Expect = 0.032
Identities = 28/136 (20%), Positives = 55/136 (40%), Gaps = 6/136 (4%)
Query: 1 MCFVGARYDHFPVMLSHINLSRFTPTPSLVFLNILSLFMLF-----TSDVFLLITYSSFV 55
+ + AR P + +N TP +L+ I+SL +L + L++ +S
Sbjct: 312 VLYAMARDGLLPKFFAKVNPKGRTPVIALILTGIISLILLLLFPLSSIAFNALVSLASVA 371
Query: 56 ESAFIMISVCGILYLRYTQPDMHRPIKVSLWVPISFVLICVFLVVTPILEAPREVGMAVL 115
++ +L LR +PD+ RP ++ L I + I L++ L A + +L
Sbjct: 372 FLIAYLLVALALLVLRRKKPDLKRPFRLPLAPLIPILGIVAVLLLLYALYAS-GLPPLLL 430
Query: 116 ITLSGVPVYLIGVKWR 131
+ +I +
Sbjct: 431 GVILIAGGIIIYLLVY 446
>gnl|CDD|222193 pfam13520, AA_permease_2, Amino acid permease.
Length = 425
Score = 34.2 bits (79), Expect = 0.065
Identities = 25/106 (23%), Positives = 44/106 (41%), Gaps = 6/106 (5%)
Query: 154 FVGARYGHFPAMLSHINISRFTPTPSLVFLNILS-----LFMLFTSDVFLLITYSSFVES 208
AR G P + +N +P +L+ ILS LF+L + L++ S+
Sbjct: 300 EALARDGVLPKFFAKVNKFG-SPVRALILTAILSLILLLLFLLSGAAYNALLSLSAVGYL 358
Query: 209 AFIMISVCGILYLRYTQPDMHRPIKVSLWVPISFVLICVFLVVTPI 254
++ + G+L LR +PD+ R ++ + I LV
Sbjct: 359 LVYLLLIIGLLILRKKRPDLPRIKGRWPVAILAILFILFLLVALFF 404
Score = 31.9 bits (73), Expect = 0.44
Identities = 20/85 (23%), Positives = 37/85 (43%), Gaps = 5/85 (5%)
Query: 24 TPTPSLVFLNILS-----LFMLFTSDVFLLITYSSFVESAFIMISVCGILYLRYTQPDMH 78
+P +L+ ILS LF+L + L++ S+ ++ + G+L LR +PD+
Sbjct: 320 SPVRALILTAILSLILLLLFLLSGAAYNALLSLSAVGYLLVYLLLIIGLLILRKKRPDLP 379
Query: 79 RPIKVSLWVPISFVLICVFLVVTPI 103
R ++ + I LV
Sbjct: 380 RIKGRWPVAILAILFILFLLVALFF 404
>gnl|CDD|234093 TIGR03025, EPS_sugtrans, exopolysaccharide biosynthesis polyprenyl
glycosylphosphotransferase. Members of this family are
generally found near other genes involved in the
biosynthesis of a variety of exopolysaccharides. These
proteins consist of two fused domains, an N-terminal
hydrophobic domain of generally low conservation and a
highly conserved C-terminal sugar transferase domain
(pfam02397). Characterized and partially characterized
members of this subfamily include Salmonella WbaP
(originally RfbP) , E. coli WcaJ , Methylobacillus EpsB,
Xanthomonas GumD, Vibrio CpsA, Erwinia AmsG, Group B
Streptococcus CpsE (originally CpsD), and Streptococcus
suis Cps2E. Each of these is believed to act in
transferring the sugar from, for instance, UDP-glucose
or UDP-galactose, to a lipid carrier such as
undecaprenyl phosphate as the first (priming) step in
the synthesis of an oligosaccharide "block". This
function is encoded in the C-terminal domain. The
liposaccharide is believed to be subsequently
transferred through a "flippase" function from the
cytoplasmic to the periplasmic face of the inner
membrane by the N-terminal domain. Certain closely
related transferase enzymes such as Sinorhizobium ExoY
and Lactococcus EpsD lack the N-terminal domain and are
not found by this model.
Length = 445
Score = 33.3 bits (77), Expect = 0.15
Identities = 14/126 (11%), Positives = 47/126 (37%), Gaps = 6/126 (4%)
Query: 180 LVFLNILSLFMLFTSDVFLLITYSSFVESAFIMISVCGILYLRYTQPDMHRP-----IKV 234
+ L++L F+L + ++ S + +++ + + R +V
Sbjct: 6 ALALSLLLAFLLRGGGLLPPPSFYSLLLLLILLLFLILFAASGLYRSWRGRSLLEELARV 65
Query: 235 SLWVPISFVLICVFLVVTPILEAPREV-GMAVLITLSGVPVYLIGVKWRDKPEAFTRSFS 293
L + F+L+ + + R V + ++ L + ++ + ++ +
Sbjct: 66 LLAWLLVFLLLLALAFLLKGFDFSRLVLLLWFVLALVLLLLWRLLLRRLLRRLRKRGKNL 125
Query: 294 KFIIII 299
+ ++I+
Sbjct: 126 RRVLIV 131
Score = 31.8 bits (73), Expect = 0.40
Identities = 13/108 (12%), Positives = 41/108 (37%), Gaps = 6/108 (5%)
Query: 29 LVFLNILSLFMLFTSDVFLLITYSSFVESAFIMISVCGILYLRYTQPDMHRP-----IKV 83
+ L++L F+L + ++ S + +++ + + R +V
Sbjct: 6 ALALSLLLAFLLRGGGLLPPPSFYSLLLLLILLLFLILFAASGLYRSWRGRSLLEELARV 65
Query: 84 SLWVPISFVLICVFLVVTPILEAPREV-GMAVLITLSGVPVYLIGVKW 130
L + F+L+ + + R V + ++ L + ++ + ++
Sbjct: 66 LLAWLLVFLLLLALAFLLKGFDFSRLVLLLWFVLALVLLLLWRLLLRR 113
>gnl|CDD|129987 TIGR00909, 2A0306, amino acid transporter. [Transport and binding
proteins, Amino acids, peptides and amines].
Length = 429
Score = 32.8 bits (75), Expect = 0.18
Identities = 41/203 (20%), Positives = 80/203 (39%), Gaps = 14/203 (6%)
Query: 87 VPISFVLICVFLVVTPILEAPREVGMAVLITLSGV--PVYLIGVKWRDKPEAFTRSFNAL 144
+P + +L + + + +L A +G L+G P+ L+G + A+
Sbjct: 228 IPKAIILSLIVVTLLYVLVAAVILGAVPWRQLAGSTAPLSLVGYDLGQGIGGLILTAGAV 287
Query: 145 ---------TYFVQKLMCFVGARYGHFPAMLSHINISRFTPTPSLVFLNILSLFMLFTSD 195
+ + F +R G P LS ++ TP S++ ++ + +
Sbjct: 288 FSIASVMLAGIYGTSRVLFAMSRDGLLPGSLSKVHPKTGTPHMSIIIFSLTAALLASLVP 347
Query: 196 VFLLITYSSFVE-SAFIMISVCGILYLRYTQPDMHRPIKVSLWVPISFVLICVFLVVTPI 254
+ L +S AF ++V I+ LR +PD+ R + L VP+ VL+ + + +
Sbjct: 348 LEGLAELTSIGTLIAFAAVNVAVII-LRRRRPDIQRAFRCPL-VPVLPVLVVSYCIYLLL 405
Query: 255 LEAPREVGMAVLITLSGVPVYLI 277
P ++ L G Y I
Sbjct: 406 NLGPGTTVWFLVWMLLGSVFYFI 428
Score = 28.9 bits (65), Expect = 3.2
Identities = 29/125 (23%), Positives = 53/125 (42%), Gaps = 3/125 (2%)
Query: 3 FVGARYDHFPVMLSHINLSRFTPTPSLVFLNILSLFMLFTSDVFLLITYSSFVE-SAFIM 61
F +R P LS ++ TP S++ ++ + + + L +S AF
Sbjct: 306 FAMSRDGLLPGSLSKVHPKTGTPHMSIIIFSLTAALLASLVPLEGLAELTSIGTLIAFAA 365
Query: 62 ISVCGILYLRYTQPDMHRPIKVSLWVPISFVLICVFLVVTPILEAPREVGMAVLITLSGV 121
++V I+ LR +PD+ R + L VP+ VL+ + + + P ++ L G
Sbjct: 366 VNVAVII-LRRRRPDIQRAFRCPL-VPVLPVLVVSYCIYLLLNLGPGTTVWFLVWMLLGS 423
Query: 122 PVYLI 126
Y I
Sbjct: 424 VFYFI 428
>gnl|CDD|183096 PRK11357, frlA, putative fructoselysine transporter; Provisional.
Length = 445
Score = 30.2 bits (68), Expect = 1.4
Identities = 28/127 (22%), Positives = 53/127 (41%), Gaps = 12/127 (9%)
Query: 157 ARYGHFPAMLSHINISRFTPTPSLVFLNILSLFMLFTSDVFLLITYSSFVESAFIMISVC 216
A+ F H++ TP S++ L +F +F SD+ L+ Y + V ++
Sbjct: 311 AKDNLFFKCFGHVHPKYNTPDVSIILQGALGIFFIFVSDLTSLLGYFTLVMCFKNTLTFG 370
Query: 217 GILYLRYTQPDMH-------RPIKVSLWVPISFVLICVFLVVTPILEAPREVGMAVLITL 269
I++ R + D + +L + S +L+ V PI + AV++
Sbjct: 371 SIIWCR-KRDDYKPLWRTPAFGLMTTLAIASSLILVASTFVWAPI----PGLICAVIVIA 425
Query: 270 SGVPVYL 276
+G+P Y
Sbjct: 426 TGLPAYA 432
Score = 28.7 bits (64), Expect = 4.0
Identities = 26/116 (22%), Positives = 50/116 (43%), Gaps = 12/116 (10%)
Query: 17 HINLSRFTPTPSLVFLNILSLFMLFTSDVFLLITYSSFVESAFIMISVCGILYLRYTQPD 76
H++ TP S++ L +F +F SD+ L+ Y + V ++ I++ R + D
Sbjct: 322 HVHPKYNTPDVSIILQGALGIFFIFVSDLTSLLGYFTLVMCFKNTLTFGSIIWCR-KRDD 380
Query: 77 MH-------RPIKVSLWVPISFVLICVFLVVTPILEAPREVGMAVLITLSGVPVYL 125
+ +L + S +L+ V PI + AV++ +G+P Y
Sbjct: 381 YKPLWRTPAFGLMTTLAIASSLILVASTFVWAPI----PGLICAVIVIATGLPAYA 432
>gnl|CDD|176095 cd08523, Reeler_cohesin_like, Domains similar to the eukaryotic
reeler domain and bacterial cohesins. This diverse
family summarizes a set of distantly related domains, as
revealed by structural similarity.
Length = 124
Score = 28.0 bits (62), Expect = 2.9
Identities = 12/41 (29%), Positives = 15/41 (36%), Gaps = 5/41 (12%)
Query: 76 DMHRPIKVSLWVPISFVLICVFLVVTP-----ILEAPREVG 111
D+ R + V+ P V V L P L A E G
Sbjct: 68 DIMRRVSVTWKAPSQEVRAKVSLRAEPKAEHVYLSASSEKG 108
Score = 28.0 bits (62), Expect = 2.9
Identities = 12/41 (29%), Positives = 15/41 (36%), Gaps = 5/41 (12%)
Query: 227 DMHRPIKVSLWVPISFVLICVFLVVTP-----ILEAPREVG 262
D+ R + V+ P V V L P L A E G
Sbjct: 68 DIMRRVSVTWKAPSQEVRAKVSLRAEPKAEHVYLSASSEKG 108
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
0.334 0.146 0.455
Gapped
Lambda K H
0.267 0.0736 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,845,395
Number of extensions: 1579373
Number of successful extensions: 3505
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3450
Number of HSP's successfully gapped: 216
Length of query: 299
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 203
Effective length of database: 6,679,618
Effective search space: 1355962454
Effective search space used: 1355962454
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 59 (26.5 bits)