RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9039
(251 letters)
>gnl|CDD|223511 COG0434, SgcQ, Predicted TIM-barrel enzyme [General function
prediction only].
Length = 263
Score = 157 bits (398), Expect = 4e-47
Identities = 76/200 (38%), Positives = 110/200 (55%), Gaps = 9/200 (4%)
Query: 52 HGVIVENMHDVPYVLEAESGPEITANMTRLCAEIRKVLPPSVPVGVQILSGCNKAALATA 111
VIVEN D P++ + GPE A M + E+ + + S+PVGV +L AALA A
Sbjct: 49 DAVIVENYGDAPFLKDV--GPETVAAMAVIVREVVREV--SIPVGVNVLRNDAVAALAIA 104
Query: 112 QAAGLDFIRAESFVFGHMADEGLMNAQAGPLLRYRKQIGADNVLVFTDIKKKHSSHAITA 171
A G DFIR + D+G++ A L RYR ++G+ V V D+ KH+ H
Sbjct: 105 YAVGADFIRVNVLTGAYATDQGIIEGNAAELARYRARLGSR-VKVLADVHVKHAVHLGNR 163
Query: 172 DVDITETAK-AASFFLSDGLIITGNATGDPADVSQLMSVKNAVDLPILIGSGVTSDNVEH 230
+ E K L+D +I+TG+ TG P D+ +L K AVD P+L+GSGV +N+E
Sbjct: 164 --SLEEAVKDTVERGLADAVIVTGSRTGSPPDLEELKLAKEAVDTPVLVGSGVNPENIEE 221
Query: 231 YMT-ADALIIGSHFKQGGRT 249
+ AD +I+G+ K+GG T
Sbjct: 222 LLKIADGVIVGTSLKKGGVT 241
>gnl|CDD|112262 pfam03437, BtpA, BtpA family. The BtpA protein is tightly
associated with the thylakoid membranes, where it
stabilises the reaction centre proteins of photosystem
I.
Length = 254
Score = 136 bits (344), Expect = 3e-39
Identities = 69/199 (34%), Positives = 106/199 (53%), Gaps = 9/199 (4%)
Query: 53 GVIVENMHDVPYVLEAESGPEITANMTRLCAEIRKVLPPSVPVGVQILSGCNKAALATAQ 112
VI+EN D PY+ GPE A MT + E++ + S+P+G+ +L AALA A
Sbjct: 45 AVILENYGDAPYLKTV--GPETVAAMTVIAGEVKSDV--SIPLGINVLRNDAVAALAIAY 100
Query: 113 AAGLDFIRAESFVFGHMADEGLMNAQAGPLLRYRKQIGADNVLVFTDIKKKHSSHAITAD 172
A G DFIR +D+G++ AG L RYRK + + + + D+ KH+ H +
Sbjct: 101 AVGADFIRVNVLTGVAASDQGILEGNAGELARYRKLLPSR-IKILADVHVKHAVH--LGN 157
Query: 173 VDITETAKAASF-FLSDGLIITGNATGDPADVSQLMSVKNAVDLPILIGSGVTSDNVEHY 231
DI L+D +I++G TG D+ +L K V +P+L+GSGV +N+E
Sbjct: 158 RDIESAVLDTIERGLADAVILSGKTTGGEVDLEELKLAKETVPVPVLVGSGVNLENLEEL 217
Query: 232 MT-ADALIIGSHFKQGGRT 249
+ AD I+G+ K+GG+
Sbjct: 218 WSIADGFIVGTSIKKGGKF 236
>gnl|CDD|129361 TIGR00259, thylakoid_BtpA, membrane complex biogenesis protein,
BtpA family. Members of this family are found in C.
elegans, Synechocystis sp., E. coli, and several of the
Archaea. Members in Cyanobacteria have been shown to
play a role in protein complex biogenesis, and
designated BtpA (biogenesis of thylakoid protein).
Homologs in non-photosynthetic species, where thylakoid
intracytoplasmic membranes are lacking, are likely to
act elsewhere in membrane protein biogenesis [Protein
fate, Protein folding and stabilization].
Length = 257
Score = 129 bits (325), Expect = 2e-36
Identities = 66/198 (33%), Positives = 104/198 (52%), Gaps = 10/198 (5%)
Query: 53 GVIVENMHDVPYVLEAESGPEITANMTRLCAEIRKVLPPSVPVGVQILSGCNKAALATAQ 112
V+ EN D P++ E PE A M + +++ + S+P+G+ +L AALA A
Sbjct: 44 AVMFENFFDAPFLKEV--DPETVAAMAVIAGQLKSDV--SIPLGINVLRNDAVAALAIAM 99
Query: 113 AAGLDFIRAESFVFGHMADEGLMNAQAGPLLRYRKQIGADNVLVFTDIKKKHSSHAITAD 172
A G FIR + +D+G++ AG L+RY+K +G++ V + DI KH+ H
Sbjct: 100 AVGAKFIRVNVLTGVYASDQGIIEGNAGELIRYKKLLGSE-VKILADIVVKHAVHLGNR- 157
Query: 173 VDITETAKAASFF-LSDGLIITGNATGDPADVSQLMSVKNAV-DLPILIGSGVTSDNVEH 230
D+ A L+D +I++G TG D+ L K V D P+L GSGV +NVE
Sbjct: 158 -DLESIALDTVERGLADAVILSGKTTGTEVDLELLKLAKETVKDTPVLAGSGVNLENVEE 216
Query: 231 YMT-ADALIIGSHFKQGG 247
++ AD +I+ + K+ G
Sbjct: 217 LLSIADGVIVATTIKKDG 234
>gnl|CDD|237285 PRK13111, trpA, tryptophan synthase subunit alpha; Provisional.
Length = 258
Score = 33.9 bits (79), Expect = 0.046
Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 7/57 (12%)
Query: 192 ITGNATGDPADVSQLMS-VKNAVDLPILIGSGV-TSDNVE---HYMTADALIIGSHF 243
+TG + D AD+++L++ +K DLP+ +G G+ T + AD +I+GS
Sbjct: 177 VTGARSADAADLAELVARLKAHTDLPVAVGFGISTPEQAAAIAAV--ADGVIVGSAL 231
>gnl|CDD|240075 cd04724, Tryptophan_synthase_alpha, Ttryptophan synthase (TRPS)
alpha subunit (TSA). TPRS is a bifunctional tetrameric
enzyme (2 alpha and 2 beta subunits) that catalyzes the
last two steps of L-tryptophan biosynthesis. Alpha and
beta subunit catalyze two distinct reactions which are
both strongly stimulated by the formation of the
complex. The alpha subunit catalyzes the cleavage of
indole 3-glycerol phosphate (IGP) to indole and
d-glyceraldehyde 3-phosphate (G3P). Indole is then
channeled to the active site of the beta subunit, a
PLP-dependent enzyme that catalyzes a replacement
reaction to convert L-serine into L-tryptophan.
Length = 242
Score = 33.6 bits (78), Expect = 0.057
Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 192 ITGNATGDPADVSQLMS-VKNAVDLPILIGSGV-TSDNVEHYMT-ADALIIGSHF 243
+TG T P D+ +L+ ++ DLPI +G G+ T + AD +I+GS
Sbjct: 164 VTGARTELPDDLKELIKRIRKYTDLPIAVGFGISTPEQAAEVAKYADGVIVGSAL 218
>gnl|CDD|240073 cd04722, TIM_phosphate_binding, TIM barrel proteins share a
structurally conserved phosphate binding motif and in
general share an eight beta/alpha closed barrel
structure. Specific for this family is the conserved
phosphate binding site at the edges of strands 7 and 8.
The phosphate comes either from the substrate, as in the
case of inosine monophosphate dehydrogenase (IMPDH), or
from ribulose-5-phosphate 3-epimerase (RPE) or from
cofactors, like FMN.
Length = 200
Score = 31.8 bits (72), Expect = 0.25
Identities = 17/68 (25%), Positives = 26/68 (38%), Gaps = 3/68 (4%)
Query: 177 ETAKAASFFLSDGLIITGNATGDPADVSQLMSVKNAVDLPILIGSGVTSDN--VEH-YMT 233
E A L +G G P L+ K +P++ G G+ E +
Sbjct: 133 EEAGVDEVGLGNGGGGGGGRDAVPIADLLLILAKRGSKVPVIAGGGINDPEDAAEALALG 192
Query: 234 ADALIIGS 241
AD +I+GS
Sbjct: 193 ADGVIVGS 200
>gnl|CDD|118107 pfam09571, RE_XcyI, XcyI restriction endonuclease. This family
includes the XcyI (recognises and cleaves C^CCGGG)
restriction endonucleases.
Length = 318
Score = 30.2 bits (68), Expect = 0.86
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 28 TANMTRLCAEIRKVLPPS-VPVGVQHGVIVENMHDVPYVLEA 68
T ++ L AE+ K +P + +G+ E + VP VLEA
Sbjct: 31 TLDINVLDAELAKYVPAHDLQELAGYGLRAEIVFPVPCVLEA 72
>gnl|CDD|223237 COG0159, TrpA, Tryptophan synthase alpha chain [Amino acid
transport and metabolism].
Length = 265
Score = 29.1 bits (66), Expect = 1.7
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 3/55 (5%)
Query: 192 ITGNATGDPADVSQLMS-VKNAVDLPILIGSGVTS-DNVEHYMT-ADALIIGSHF 243
+TG ADV +L+ V+ D+P+L+G G++S + AD +I+GS
Sbjct: 182 VTGARNPVSADVKELVKRVRKYTDVPVLVGFGISSPEQAAQVAEAADGVIVGSAI 236
>gnl|CDD|240074 cd04723, HisA_HisF, Phosphoribosylformimino-5-aminoimidazole
carboxamide ribonucleotide (ProFAR) isomerase (HisA) and
the cyclase subunit of imidazoleglycerol phosphate
synthase (HisF). The ProFAR isomerase catalyzes the
fourth step in histidine biosynthesis, an isomerisation
of the aminoaldose moiety of ProFAR to the aminoketose
of PRFAR
(N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-
phospho-ribosyl)-4-imidazolecarboxamide). In bacteria
and archaea, ProFAR isomerase is encoded by the HisA
gene. The Imidazole glycerol phosphate synthase (IGPS)
catalyzes the fifth step of histidine biosynthesis, the
formation of the imidazole ring. IGPS converts
N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-
carboxamide ribonucleotide (PRFAR) to imidazole glycerol
phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide)
ribonucleotide (AICAR). This conversion involves two
tightly coupled reactions in distinct active sites of
IGPS. The two catalytic domains can be fused, like in
fungi and plants, or peformed by a heterodimer
(HisH-glutaminase and HisF-cyclase), like in bacteria.
Length = 233
Score = 28.8 bits (65), Expect = 2.0
Identities = 18/109 (16%), Positives = 44/109 (40%), Gaps = 6/109 (5%)
Query: 147 KQIGADNVLVFTDIKKKHSSHAITADVDITETAKAASFFLSDGLIITGNA--TGDPADVS 204
+G +++ D + T + E + + + + +++ + +G D+
Sbjct: 121 AALGEQRLVLSLDFRGGQLL-KPTDFIGPEELLRRLAKWPEELIVLDIDRVGSGQGPDLE 179
Query: 205 QLMSVKNAVDLPILIGSGVTS-DNVEHY--MTADALIIGSHFKQGGRTF 250
L + D+P++ GV S +++E + A ++ S GG T
Sbjct: 180 LLERLAARADIPVIAAGGVRSVEDLELLKKLGASGALVASALHDGGLTL 228
>gnl|CDD|201134 pfam00290, Trp_syntA, Tryptophan synthase alpha chain.
Length = 258
Score = 28.7 bits (65), Expect = 2.7
Identities = 15/53 (28%), Positives = 30/53 (56%), Gaps = 3/53 (5%)
Query: 192 ITGNATGDPADVSQLMS-VKNAVDLPILIGSGV-TSDNVEHYMT-ADALIIGS 241
+TG A + +L+ +K ++P+ +G G+ T ++V+ AD +I+GS
Sbjct: 174 VTGARNAFNAQLDELVERLKKYTNVPVAVGFGISTPEHVKKIAAGADGVIVGS 226
>gnl|CDD|181670 PRK09140, PRK09140, 2-dehydro-3-deoxy-6-phosphogalactonate
aldolase; Reviewed.
Length = 206
Score = 28.3 bits (64), Expect = 3.5
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 38 IRKVLPPSVPVGVQHGVIVENMHD 61
+R VLPP VPV GV EN+
Sbjct: 144 LRAVLPPDVPVFAVGGVTPENLAP 167
>gnl|CDD|107370 cd06375, PBP1_mGluR_groupII, Ligand binding domain of the group II
metabotropic glutamate receptor. Ligand binding domain
of the group II metabotropic glutamate receptor, a
family that contains mGlu2R and mGlu3R, all of which
inhibit adenylyl cyclase. The metabotropic glutamate
receptor is a member of the family C of
G-protein-coupled receptors that transduce extracellular
signals into G-protein activation and ultimately into
intracellular responses. The mGluRs are classified into
three groups which comprise eight subtypes.
Length = 458
Score = 28.6 bits (64), Expect = 3.5
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 91 PSVPVGVQILSGCNKAALATAQAAGLDFIRA 121
P + +GV IL C++ A Q+ L+F+RA
Sbjct: 51 PGIKLGVHILDTCSRDTYALEQS--LEFVRA 79
>gnl|CDD|224997 COG2086, FixA, Electron transfer flavoprotein, beta subunit [Energy
production and conversion].
Length = 260
Score = 28.4 bits (64), Expect = 3.8
Identities = 16/63 (25%), Positives = 23/63 (36%), Gaps = 5/63 (7%)
Query: 137 AQAGPLLRYRKQIGADNVLVFTDIKKKHSSHAITADVDITETAKAASFFLSDGLIITGNA 196
QA LR +GAD ++ TD + TA + K L++TG
Sbjct: 66 PQAEEALREALAMGADRAILITDRAFAGADPLATAKA-LAAAVKKIGP----DLVLTGKQ 120
Query: 197 TGD 199
D
Sbjct: 121 AID 123
>gnl|CDD|239237 cd02911, arch_FMN, Archeal FMN-binding domain. This family of
archaeal proteins are part of the NAD(P)H-dependent
flavin oxidoreductase (oxidored) FMN-binding family that
reduce a range of alternative electron acceptors. Most
use FAD/FMN as a cofactor and NAD(P)H as electron donor.
Some contain 4Fe-4S cluster to transfer electron from
FAD to FMN. The specific function of this group is
unknown.
Length = 233
Score = 28.1 bits (63), Expect = 4.5
Identities = 25/85 (29%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 52 HGVIVE-NMH-DVPYVLEAESGPEITANMTRLCAEIRKVLPPSVPVGVQILSGCNKAALA 109
+ I+E N H P ++EA +G + + RL I+ + VPV V+I +G +
Sbjct: 97 NAAILEINAHCRQPEMVEAGAGEALLKDPERLSEFIKALKETGVPVSVKIRAGVDVDDEE 156
Query: 110 TAQA---AGLDFIRAESFVFGHMAD 131
A+ AG D I ++ G+ AD
Sbjct: 157 LARLIEKAGADIIHVDAMDPGNHAD 181
>gnl|CDD|237236 PRK12858, PRK12858, tagatose 1,6-diphosphate aldolase; Reviewed.
Length = 340
Score = 28.1 bits (63), Expect = 4.6
Identities = 18/83 (21%), Positives = 29/83 (34%), Gaps = 19/83 (22%)
Query: 60 HDVPYVLE----------------AESGPEITANMTRLCAEIR---KVLPPSVPVGVQIL 100
+D+P+ LE A+ PE ++ R VL VPV ++ +
Sbjct: 155 NDIPFFLEPLTYDGKGSDKKAEEFAKVKPEKVIKTMEEFSKPRYGVDVLKVEVPVDMKFV 214
Query: 101 SGCNKAALATAQAAGLDFIRAES 123
G + A Q R +S
Sbjct: 215 EGFDGFEEAYTQEEAFKLFREQS 237
>gnl|CDD|235720 PRK06156, PRK06156, hypothetical protein; Provisional.
Length = 520
Score = 28.0 bits (63), Expect = 4.8
Identities = 18/71 (25%), Positives = 25/71 (35%), Gaps = 18/71 (25%)
Query: 97 VQILSGCNKAALATA-QAAGLDFIRAESFVFGHMADEGLMNAQAGPLLRYRKQIGADNVL 155
V LSG + AALA A QAA ++ + G + +V
Sbjct: 260 VATLSGGDPAALAAALQAAAAAQVK-----------------RHGGGFSIDFKRDGKDVT 302
Query: 156 VFTDIKKKHSS 166
+ K HSS
Sbjct: 303 ITVTGKSAHSS 313
>gnl|CDD|182483 PRK10468, PRK10468, hydrogenase 2 small subunit; Provisional.
Length = 371
Score = 27.9 bits (62), Expect = 5.4
Identities = 21/81 (25%), Positives = 35/81 (43%), Gaps = 15/81 (18%)
Query: 66 LEAESGPEITANMTRLCAEIRKVLPPSVPVGVQILSGCNKAAL----ATAQAAGLDFIRA 121
L +++ E+ ++T PP + +G Q +GC ++ L T + L+ I
Sbjct: 31 LSSKAAAEMAESVTN------PQRPPVIWIGAQECTGCTESLLRATHPTVENLVLETISL 84
Query: 122 E-----SFVFGHMADEGLMNA 137
E S FGH +E NA
Sbjct: 85 EYHEVLSAAFGHQVEENKHNA 105
>gnl|CDD|169553 PRK08690, PRK08690, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 261
Score = 27.6 bits (61), Expect = 5.8
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 9/79 (11%)
Query: 139 AGPLLRYRKQIGADNVLVFTDIKKKHSSHA-ITADVDITETAKAASFFLSDGLIITGNAT 197
AGP+ K + A + F + ++H + +V I E A+F LSD ++ T
Sbjct: 190 AGPI----KTLAASGIADFGKLLGHVAAHNPLRRNVTIEEVGNTAAFLLSD---LSSGIT 242
Query: 198 GDPADVSQLMSVKNAVDLP 216
G+ V S+ NA+
Sbjct: 243 GEITYVDGGYSI-NALSTE 260
>gnl|CDD|233337 TIGR01273, speA, arginine decarboxylase, biosynthetic. Two
alternative pathways can convert arginine to putrescine.
One is decarboxylation by this enzyme followed by
removal of the urea moeity by agmatinase. In the other,
the ureohydrolase (arginase) acts first, followed by
ornithine decarboxylase. This pathway leads to
spermidine biosynthesis, hence the gene symbol speA. A
distinct biodegradative form is also pyridoxal
phosphate-dependent but is not similar in sequence
[Central intermediary metabolism, Polyamine
biosynthesis].
Length = 624
Score = 27.7 bits (62), Expect = 7.4
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 47 PVGV-QHGVIVENM----HDVPYVLEAESGPEITANMTRLC 82
P+ V QH +VE++ PY LEA S PE+ A M
Sbjct: 96 PIKVNQHRRVVEDIVASGKGEPYGLEAGSKPELMAAMAYAT 136
>gnl|CDD|234279 TIGR03607, TIGR03607, patatin-related protein. This bacterial
protein family contains an N-terminal patatin domain,
where patatins are plant storage proteins capable of
phospholipase activity (see pfam01734). Regions of
strong sequence conservation are separated by regions of
significant sequence and length variability. Members of
the family are distributed sporadically among bacteria.
The function is unknown [Unknown function, General].
Length = 739
Score = 27.4 bits (61), Expect = 7.8
Identities = 11/29 (37%), Positives = 13/29 (44%), Gaps = 5/29 (17%)
Query: 95 VGVQILSGC-----NKAALATAQAAGLDF 118
V V ++SG N LA A A G D
Sbjct: 65 VRVDVISGTSAGGINGVLLAYALAYGADL 93
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
0.318 0.134 0.384
Gapped
Lambda K H
0.267 0.0605 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,897,407
Number of extensions: 1244815
Number of successful extensions: 1314
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1292
Number of HSP's successfully gapped: 55
Length of query: 251
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 156
Effective length of database: 6,723,972
Effective search space: 1048939632
Effective search space used: 1048939632
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.4 bits)