RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2491
(162 letters)
>gnl|CDD|215884 pfam00375, SDF, Sodium:dicarboxylate symporter family.
Length = 388
Score = 57.1 bits (139), Expect = 3e-10
Identities = 20/55 (36%), Positives = 30/55 (54%)
Query: 107 TMRQLSKFVATSIGGFLVYHLIVIQLIYFLFTRKNPYKYYVNFFPAILTAFATSS 161
T+ L KFV T ++ +V L+ T NP+K+ PA+LTAF+T+S
Sbjct: 201 TLGSLGKFVLTVYLALAIHLFVVYPLLLKFLTGLNPFKFLKKILPALLTAFSTAS 255
>gnl|CDD|224220 COG1301, GltP, Na+/H+-dicarboxylate symporters [Energy production
and conversion].
Length = 415
Score = 42.2 bits (100), Expect = 4e-05
Identities = 17/52 (32%), Positives = 28/52 (53%)
Query: 110 QLSKFVATSIGGFLVYHLIVIQLIYFLFTRKNPYKYYVNFFPAILTAFATSS 161
L K V G L++ +V+ L+ L + +P+K+ A+L AF+TSS
Sbjct: 213 SLGKLVLAVYLGLLLFVFVVLGLLLKLLSGFSPFKFLRYISEALLLAFSTSS 264
>gnl|CDD|177130 MTH00058, ND1, NADH dehydrogenase subunit 1; Provisional.
Length = 293
Score = 29.5 bits (67), Expect = 0.63
Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 4/36 (11%)
Query: 119 IGGFLVYHLIVIQLIYFLFTRKN-P---YKYYVNFF 150
GG V +++ L++F++ R P Y Y+VNFF
Sbjct: 242 FGGGFVSIMLLFHLLFFMWARATLPRVRYDYFVNFF 277
>gnl|CDD|184190 PRK13628, PRK13628, serine/threonine transporter SstT; Provisional.
Length = 402
Score = 29.4 bits (67), Expect = 0.73
Identities = 17/51 (33%), Positives = 21/51 (41%), Gaps = 15/51 (29%)
Query: 119 IGGFLVYHLIVIQLIYFLFTRKNPYKYYVNFFPAIL--------TAFATSS 161
+G L L+V LI F R+NPY P + TAF T S
Sbjct: 221 VGCMLFVALVVNPLIVFWKIRRNPY-------PLVFTCLRESGVTAFFTRS 264
>gnl|CDD|224736 COG1823, COG1823, Predicted Na+/dicarboxylate symporter [General
function prediction only].
Length = 458
Score = 28.5 bits (64), Expect = 1.5
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 115 VATSIGGFLVYHLIVIQLIYFLFTRKNPYKYYVNFFPAILTAFATSS 161
VA+ I F+++ V+ I NP KY+ +P + AF + S
Sbjct: 265 VASYIAIFIMF---VVHGILLALNGVNPIKYFKKVWPVLTFAFTSRS 308
>gnl|CDD|206501 pfam14333, DUF4389, Domain of unknown function (DUF4389). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria and archaea.
Proteins in this family are typically between 104 and
223 amino acids in length. There is a single completely
conserved residue R that may be functionally important.
Length = 81
Score = 26.3 bits (59), Expect = 3.2
Identities = 6/29 (20%), Positives = 14/29 (48%)
Query: 114 FVATSIGGFLVYHLIVIQLIYFLFTRKNP 142
+ S+ F++ ++V Q + L T +
Sbjct: 17 AIVLSVAQFVLGVVVVFQFLVILITGRPN 45
>gnl|CDD|234572 PRK00012, gatA, aspartyl/glutamyl-tRNA amidotransferase subunit A;
Reviewed.
Length = 459
Score = 27.4 bits (62), Expect = 3.6
Identities = 9/18 (50%), Positives = 13/18 (72%), Gaps = 1/18 (5%)
Query: 65 YDSYYASAQQVCRHLYRR 82
YD+YY AQ+V R L ++
Sbjct: 356 YDAYYLKAQKV-RTLIKQ 372
>gnl|CDD|187672 cd09812, 3b-HSD_like_1_SDR_e, 3beta-hydroxysteroid dehydrogenase
(3b-HSD)-like, subgroup1, extended (e) SDRs. An
uncharacterized subgroup of the 3b-HSD-like extended-SDR
family. Proteins in this subgroup have the
characteristic active site tetrad and NAD(P)-binding
motif of extended-SDRs. 3 beta-HSD catalyzes the
oxidative conversion of delta 5-3 beta-hydroxysteroids
to the delta 4-3-keto configuration; this activity is
essential for the biosynthesis of all classes of
hormonal steroids. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid sythase have
a GGXGXXG NAD(P)-binding motif and an altered active
site motif (YXXXN). Fungal type ketoacyl reductases have
a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 339
Score = 27.1 bits (60), Expect = 5.2
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 83 IPGLPSDCHPAHTSKLISIEDMTVTM 108
+P LP D H H S+ SI + V
Sbjct: 129 LPYLPLDLHVDHYSRTKSIAEQLVLK 154
>gnl|CDD|226159 COG3633, SstT, Na+/serine symporter [Amino acid transport and
metabolism].
Length = 407
Score = 27.0 bits (60), Expect = 5.2
Identities = 18/57 (31%), Positives = 25/57 (43%), Gaps = 15/57 (26%)
Query: 113 KFVATSIGGFLVYHLIVIQLIYFLFTRKNPYKYYVNFFPAIL--------TAFATSS 161
+ +A +G L L+V LI + R+NPY P +L TAF T S
Sbjct: 215 QLLAVLVGCMLFVALVVNPLIVYWKIRRNPY-------PLVLTCLRESGVTAFFTRS 264
>gnl|CDD|234691 PRK00220, PRK00220, putative glycerol-3-phosphate acyltransferase
PlsY; Provisional.
Length = 198
Score = 25.9 bits (58), Expect = 8.8
Identities = 14/53 (26%), Positives = 19/53 (35%), Gaps = 13/53 (24%)
Query: 113 KFVATSIGGFLVYH------LIVIQLIYFLFTRKNPYKYYVNFFPAILTAFAT 159
K VAT+ G L L L+ L TR Y + A++ A
Sbjct: 106 KGVATAAGVLLGIGPLLALILAATWLLVALLTR------YSS-LAALVAALIA 151
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
0.329 0.140 0.431
Gapped
Lambda K H
0.267 0.0813 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,130,880
Number of extensions: 716411
Number of successful extensions: 918
Number of sequences better than 10.0: 1
Number of HSP's gapped: 917
Number of HSP's successfully gapped: 27
Length of query: 162
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 73
Effective length of database: 6,990,096
Effective search space: 510277008
Effective search space used: 510277008
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 55 (24.8 bits)