RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7275
(150 letters)
>gnl|CDD|217326 pfam03029, ATP_bind_1, Conserved hypothetical ATP binding protein.
Members of this family are found in a range of archaea
and eukaryotes and have hypothesised ATP binding
activity.
Length = 235
Score = 65.8 bits (161), Expect = 8e-14
Identities = 25/82 (30%), Positives = 42/82 (51%), Gaps = 3/82 (3%)
Query: 1 MYDTGFPYTELVVGIDIVNHKYAIEWMQDFEVFQEALEADSSYISNLTRSMSLALDEFYS 60
M G P+ + D+++ ++A++W D + Q LE D S L ++ ALD FY
Sbjct: 151 MLRLGLPFVVALNKFDLLSLEFALKWFTDPDDLQLLLELDPSK---LNEAIREALDLFYL 207
Query: 61 TLKVVGFSSVSGEGTEELLQLI 82
+ + + +GE E+LL LI
Sbjct: 208 VPRFLPDARETGESMEDLLTLI 229
>gnl|CDD|237498 PRK13768, PRK13768, GTPase; Provisional.
Length = 253
Score = 37.5 bits (88), Expect = 0.001
Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 3/70 (4%)
Query: 24 IEWMQDFEVFQEALEADSSYISNLTRSMSLALDEFYSTLKVVGFSSVSGEGTEEL---LQ 80
++W++D E E L+ + L+ + AL+E ++V+ S+ +GEG +EL +Q
Sbjct: 184 LKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQ 243
Query: 81 LIKLAGEDYE 90
+ GED
Sbjct: 244 EVFCGGEDLT 253
>gnl|CDD|206665 cd01876, YihA_EngB, YihA (EngB) GTPase family. The YihA (EngB)
subfamily of GTPases is typified by the E. coli YihA, an
essential protein involved in cell division control.
YihA and its orthologs are small proteins that typically
contain less than 200 amino acid residues and consists
of the GTPase domain only (some of the eukaryotic
homologs contain an N-terminal extension of about 120
residues that might be involved in organellar
targeting). Homologs of yihA are found in most
Gram-positive and Gram-negative pathogenic bacteria,
with the exception of Mycobacterium tuberculosis. The
broad-spectrum nature of YihA and its essentiality for
cell viability in bacteria make it an attractive
antibacterial target.
Length = 170
Score = 30.2 bits (69), Expect = 0.24
Identities = 13/41 (31%), Positives = 21/41 (51%)
Query: 42 SYISNLTRSMSLALDEFYSTLKVVGFSSVSGEGTEELLQLI 82
S ++ + + + L+ F V+ FSS G G +EL LI
Sbjct: 126 SELAKVLKKIKEELNLFNILPPVILFSSKKGTGIDELRALI 166
>gnl|CDD|200478 cd11339, AmyAc_bac_CMD_like_2, Alpha amylase catalytic domain found
in bacterial cyclomaltodextrinases and related proteins.
Cyclomaltodextrinase (CDase; EC3.2.1.54),
neopullulanase (NPase; EC 3.2.1.135), and maltogenic
amylase (MA; EC 3.2.1.133) catalyze the hydrolysis of
alpha-(1,4) glycosidic linkages on a number of
substrates including cyclomaltodextrins (CDs), pullulan,
and starch. These enzymes hydrolyze CDs and starch to
maltose and pullulan to panose by cleavage of alpha-1,4
glycosidic bonds whereas alpha-amylases essentially lack
activity on CDs and pullulan. They also catalyze
transglycosylation of oligosaccharides to the C3-, C4-
or C6-hydroxyl groups of various acceptor sugar
molecules. Since these proteins are nearly
indistinguishable from each other, they are referred to
as cyclomaltodextrinases (CMDs). This group of CMDs is
bacterial. The Alpha-amylase family comprises the
largest family of glycoside hydrolases (GH), with the
majority of enzymes acting on starch, glycogen, and
related oligo- and polysaccharides. These proteins
catalyze the transformation of alpha-1,4 and alpha-1,6
glucosidic linkages with retention of the anomeric
center. The protein is described as having 3 domains: A,
B, C. A is a (beta/alpha) 8-barrel; B is a loop between
the beta 3 strand and alpha 3 helix of A; C is the
C-terminal extension characterized by a Greek key. The
majority of the enzymes have an active site cleft found
between domains A and B where a triad of catalytic
residues (Asp, Glu and Asp) performs catalysis. Other
members of this family have lost the catalytic activity
as in the case of the human 4F2hc, or only have 2
residues that serve as the catalytic nucleophile and the
acid/base, such as Thermus A4 beta-galactosidase with 2
Glu residues (GH42) and human alpha-galactosidase with 2
Asp residues (GH31). The family members are quite
extensive and include: alpha amylase,
maltosyltransferase, cyclodextrin glycotransferase,
maltogenic amylase, neopullulanase, isoamylase,
1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 344
Score = 29.9 bits (68), Expect = 0.44
Identities = 25/90 (27%), Positives = 40/90 (44%), Gaps = 19/90 (21%)
Query: 15 IDIVNH-------KYAIEWMQ-----DFEVFQEALEADSSYISNLTRSMSL--ALD-EFY 59
ID V H ++A Q DF +F E + D SYI+ T + LD Y
Sbjct: 155 IDTVKHVPREFWQEFAPAIRQAAGKPDFFMFGEVYDGDPSYIAPYTTTAGGDSVLDFPLY 214
Query: 60 STLKVVGFSSVSGEGTEELLQLIKLAGEDY 89
++ + +G G+ +LLQ + L+ + Y
Sbjct: 215 GAIR----DAFAGGGSGDLLQDLFLSDDLY 240
>gnl|CDD|237048 PRK12299, obgE, GTPase CgtA; Reviewed.
Length = 335
Score = 29.3 bits (67), Expect = 0.66
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 63 KVVGFSSVSGEGTEELLQLI 82
V S+V+GEG +ELL+ +
Sbjct: 304 PVFLISAVTGEGLDELLRAL 323
>gnl|CDD|237047 PRK12298, obgE, GTPase CgtA; Reviewed.
Length = 390
Score = 29.1 bits (66), Expect = 0.79
Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 5/66 (7%)
Query: 55 LDEFYSTLKVVGFSSVSGEGTEELLQ-----LIKLAGEDYEKNYRVEWIRLRDEKAKSEQ 109
++ V S+ SG G +EL + + E+ E+ E + + EQ
Sbjct: 301 VEALGWEGPVYLISAASGLGVKELCWDLMTFIEENPREEAEEAEAPEKVEFMWDDYHREQ 360
Query: 110 LEKREQ 115
LE+ E+
Sbjct: 361 LEEVEE 366
>gnl|CDD|129582 TIGR00491, aIF-2, translation initiation factor aIF-2/yIF-2. This
model describes archaeal and eukaryotic orthologs of
bacterial IF-2. Like IF-2, it helps convey the initiator
tRNA to the ribosome, although the initiator is
N-formyl-Met in bacteria and Met here. This protein is
not closely related to the subunits of eIF-2 of
eukaryotes, which is also involved in the initiation of
translation. The aIF-2 of Methanococcus jannaschii
contains a large intein interrupting a region of very
strongly conserved sequence very near the amino end; the
alignment generated by This model does not correctly
align the sequences from Methanococcus jannaschii and
Pyrococcus horikoshii in this region [Protein synthesis,
Translation factors].
Length = 590
Score = 29.0 bits (65), Expect = 1.0
Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 5/60 (8%)
Query: 57 EFYSTLKVVGFSSVSGEGTEELLQ-LIKLAGEDYEKNYRVEWIRLRDEKAKSEQLEKREQ 115
+F T+ ++ S+++GEG ELL L LA + E+ ++E + A+ LE +E+
Sbjct: 186 DFTKTVAIIPISAITGEGIPELLTMLAGLAQQYLEEQLKLE----EEGPARGTILEVKEE 241
>gnl|CDD|234770 PRK00454, engB, GTP-binding protein YsxC; Reviewed.
Length = 196
Score = 28.2 bits (64), Expect = 1.4
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 2/29 (6%)
Query: 54 ALDEFYSTLKVVGFSSVSGEGTEELLQLI 82
AL +V+ FSS+ +G +EL I
Sbjct: 163 ALKFGD--DEVILFSSLKKQGIDELRAAI 189
>gnl|CDD|206667 cd01879, FeoB, Ferrous iron transport protein B (FeoB) family.
Ferrous iron transport protein B (FeoB) subfamily. E.
coli has an iron(II) transport system, known as feo,
which may make an important contribution to the iron
supply of the cell under anaerobic conditions. FeoB has
been identified as part of this transport system. FeoB
is a large 700-800 amino acid integral membrane protein.
The N terminus contains a P-loop motif suggesting that
iron transport may be ATP dependent.
Length = 159
Score = 27.8 bits (63), Expect = 1.6
Identities = 11/25 (44%), Positives = 13/25 (52%)
Query: 64 VVGFSSVSGEGTEELLQLIKLAGED 88
VV S+ GEG +ELL I E
Sbjct: 135 VVPTSARKGEGIDELLDAIAKLAES 159
>gnl|CDD|236325 PRK08654, PRK08654, pyruvate carboxylase subunit A; Validated.
Length = 499
Score = 28.0 bits (63), Expect = 1.9
Identities = 12/29 (41%), Positives = 16/29 (55%)
Query: 7 PYTELVVGIDIVNHKYAIEWMQDFEVFQE 35
P TE+V GIDIV + I ++ QE
Sbjct: 297 PITEMVTGIDIVKEQIKIAAGEELSFKQE 325
>gnl|CDD|233986 TIGR02729, Obg_CgtA, Obg family GTPase CgtA. This model describes
a univeral, mostly one-gene-per-genome GTP-binding
protein that associates with ribosomal subunits and
appears to play a role in ribosomal RNA maturation. This
GTPase, related to the nucleolar protein Obg, is
designated CgtA in bacteria. Mutations in this gene are
pleiotropic, but it appears that effects on cellular
functions such as chromosome partition may be secondary
to the effect on ribosome structure. Recent work done in
Vibrio cholerae shows an essential role in the stringent
response, in which RelA-dependent ability to synthesize
the alarmone ppGpp is required for deletion of this
GTPase to be lethal [Protein synthesis, Other].
Length = 329
Score = 27.8 bits (63), Expect = 2.3
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 60 STLKVVGFSSVSGEGTEELLQLI 82
V S+++GEG +ELL +
Sbjct: 302 LGKPVFPISALTGEGLDELLYAL 324
>gnl|CDD|224617 COG1703, ArgK, Putative periplasmic protein kinase ArgK and related
GTPases of G3E family [Amino acid transport and
metabolism].
Length = 323
Score = 27.7 bits (62), Expect = 2.6
Identities = 22/68 (32%), Positives = 30/68 (44%), Gaps = 12/68 (17%)
Query: 63 KVVGFSSVSGEGTEELLQLI-------KLAGEDYEKN--YRVEWIR--LRDEKAKS-EQL 110
VV S++ GEG +EL I +G EK VEWIR +RDE E
Sbjct: 230 PVVTTSALEGEGIDELWDAIEDHRKFLTESGLFTEKRRTQYVEWIRTLVRDEVLDRLEAN 289
Query: 111 EKREQHFA 118
++ +A
Sbjct: 290 PAVKKVYA 297
>gnl|CDD|234395 TIGR03918, GTP_HydF, [FeFe] hydrogenase H-cluster maturation GTPase
HydF. This model describes the family of the [Fe]
hydrogenase maturation protein HypF as characterized in
Chlamydomonas reinhardtii and found, in an operon with
radical SAM proteins HydE and HydG, in numerous
bacteria. It has GTPase activity, can bind an 4Fe-4S
cluster, and is essential for hydrogenase activity
[Protein fate, Protein modification and repair].
Length = 391
Score = 27.5 bits (62), Expect = 2.8
Identities = 22/88 (25%), Positives = 41/88 (46%), Gaps = 13/88 (14%)
Query: 11 LVVGIDIVNHKYAIEWMQDFEVFQEALEADSSYI-----SNLTRSMSLA-LDEFYSTLKV 64
LVV + +Y +E +++ + E YI +L + E L
Sbjct: 91 LVVDAGVGPGEYELELIEELK------ERKIPYIVVINKIDLGEESAELEKLEKKFGLPP 144
Query: 65 VGFSSVSGEGTEELLQ-LIKLAGEDYEK 91
+ S+++GEG +EL + +I+L ED+E+
Sbjct: 145 IFVSALTGEGIDELKEAIIELLPEDFEE 172
>gnl|CDD|227111 COG4770, COG4770, Acetyl/propionyl-CoA carboxylase, alpha subunit
[Lipid metabolism].
Length = 645
Score = 27.6 bits (62), Expect = 3.2
Identities = 10/21 (47%), Positives = 12/21 (57%), Gaps = 6/21 (28%)
Query: 7 PYTELVVGIDIVNHKYAIEWM 27
P TEL+ GID+V EW
Sbjct: 298 PVTELITGIDLV------EWQ 312
>gnl|CDD|215089 PLN00175, PLN00175, aminotransferase family protein; Provisional.
Length = 413
Score = 27.5 bits (61), Expect = 3.2
Identities = 16/41 (39%), Positives = 16/41 (39%)
Query: 35 EALEADSSYISNLTRSMSLALDEFYSTLKVVGFSSVSGEGT 75
AL A SY L R S D LK VGF GT
Sbjct: 302 AALRAPESYYEELKRDYSAKKDILVEGLKEVGFKVYPSSGT 342
>gnl|CDD|233905 TIGR02515, IV_pilus_PilQ, type IV pilus secretin (or competence
protein) PilQ. A number of proteins homologous to PilQ
are involved in type IV pilus formation, competence for
transformation, type III secretion, and type II
secretion (also called the main terminal branch of the
general secretion pathway). Members of this family
include PilQ itself, which is a component of the type IV
pilus structure, from a number of species. In
Haemophilus influenzae, the member of this family is
associated with competence for transformation with
exogenous DNA rather than with formation of a type IV
pilus; the surface structure required for competence may
be considered an unusual, incomplete type IV pilus
structure [Cell envelope, Surface structures].
Length = 418
Score = 27.3 bits (61), Expect = 3.3
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 9/63 (14%)
Query: 58 FYSTLKVVGFSSVSGEGT--------EELLQLI-KLAGEDYEKNYRVEWIRLRDEKAKSE 108
++ L +V SV G T ++ L +I K G D ++ + +I DE A E
Sbjct: 22 EFTNLNIVVSDSVQGNITLRLKNVPWDQALDIILKSKGLDKRRDGNIIYIAPLDELAAQE 81
Query: 109 QLE 111
+ E
Sbjct: 82 KDE 84
>gnl|CDD|223606 COG0532, InfB, Translation initiation factor 2 (IF-2; GTPase)
[Translation, ribosomal structure and biogenesis].
Length = 509
Score = 27.1 bits (61), Expect = 3.5
Identities = 15/41 (36%), Positives = 22/41 (53%)
Query: 56 DEFYSTLKVVGFSSVSGEGTEELLQLIKLAGEDYEKNYRVE 96
+E+ + V S+ +GEG +ELL+LI L E E E
Sbjct: 139 EEWGGDVIFVPVSAKTGEGIDELLELILLLAEVLELKANPE 179
>gnl|CDD|235063 PRK02726, PRK02726, molybdopterin-guanine dinucleotide biosynthesis
protein A; Provisional.
Length = 200
Score = 26.9 bits (60), Expect = 3.6
Identities = 12/35 (34%), Positives = 14/35 (40%), Gaps = 7/35 (20%)
Query: 115 QHFALPTPQPLWASCDRGNCNLPTD-KVPKTKGRK 148
Q AL P L+ NCN P D + GR
Sbjct: 172 QELALSDPDMLF------NCNTPEDLATIQGIGRD 200
>gnl|CDD|206734 cd04171, SelB, SelB, the dedicated elongation factor for delivery
of selenocysteinyl-tRNA to the ribosome. SelB is an
elongation factor needed for the co-translational
incorporation of selenocysteine. Selenocysteine is coded
by a UGA stop codon in combination with a specific
downstream mRNA hairpin. In bacteria, the C-terminal
part of SelB recognizes this hairpin, while the
N-terminal part binds GTP and tRNA in analogy with
elongation factor Tu (EF-Tu). It specifically recognizes
the selenocysteine charged tRNAsec, which has a UCA
anticodon, in an EF-Tu like manner. This allows
insertion of selenocysteine at in-frame UGA stop codons.
In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a
stem-loop structure immediately downstream of the UGA
codon (the SECIS sequence). The absence of active SelB
prevents the participation of selenocysteyl-tRNAsec in
translation. Archaeal and animal mechanisms of
selenocysteine incorporation are more complex. Although
the SECIS elements have different secondary structures
and conserved elements between archaea and eukaryotes,
they do share a common feature. Unlike in E. coli, these
SECIS elements are located in the 3' UTRs. This group
contains bacterial SelBs, as well as, one from archaea.
Length = 170
Score = 26.8 bits (60), Expect = 3.6
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 58 FYSTLKVVGFSSVSGEGTEELLQ-LIKLAGED 88
F + + SSV+GEG EEL L +LA
Sbjct: 136 FLADAPIFPVSSVTGEGIEELKNYLDELAEPQ 167
>gnl|CDD|237833 PRK14845, PRK14845, translation initiation factor IF-2;
Provisional.
Length = 1049
Score = 27.2 bits (60), Expect = 3.9
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 57 EFYSTLKVVGFSSVSGEGTEELLQLIK-LAGEDYEKNYRVEWIRLRDEKAKSEQLEKREQ 115
+F T+ +V S+ +GEG ELL ++ LA + E+ ++ + AK LE +E+
Sbjct: 643 DFTRTVAIVPVSAKTGEGIPELLMMVAGLAQKYLEERLKLN----VEGYAKGTILEVKEE 698
>gnl|CDD|239322 cd03024, DsbA_FrnE, DsbA family, FrnE subfamily; FrnE is a
DsbA-like protein containing a CXXC motif. It is
presumed to be a thiol oxidoreductase involved in
polyketide biosynthesis, specifically in the production
of the aromatic antibiotics frenolicin and nanaomycins.
Length = 201
Score = 26.8 bits (60), Expect = 4.1
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 17 IVNHKYAIEWMQDFEVFQEALE 38
+ N KYA+ Q EVF +AL
Sbjct: 180 VFNGKYAVSGAQPPEVFLQALR 201
>gnl|CDD|226646 COG4178, COG4178, ABC-type uncharacterized transport system,
permease and ATPase components [General function
prediction only].
Length = 604
Score = 26.9 bits (60), Expect = 4.5
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 12/45 (26%)
Query: 81 LIKLAGEDY--EKNYRVEWIRLRD----------EKAKSEQLEKR 113
LI+L E E ++R +R+R+ EK + +L+ R
Sbjct: 230 LIRLNFERQKLEADFRYSLVRVRENAEAIALYRGEKVERRRLDDR 274
>gnl|CDD|237790 PRK14694, PRK14694, putative mercuric reductase; Provisional.
Length = 468
Score = 26.8 bits (59), Expect = 5.1
Identities = 27/104 (25%), Positives = 41/104 (39%), Gaps = 20/104 (19%)
Query: 39 ADSSYISNLTRSMSLALDEFYSTLKVVGFSSVSGEGTEELLQL----IKLA--------- 85
A++ Y LT + +L LD L V+G S V+ E + +L LA
Sbjct: 161 AETPY---LTSTSALELDHIPERLLVIGASVVALELAQAFARLGSRVTVLARSRVLSQED 217
Query: 86 ---GEDYEKNYRVEWIRLRDEKAKSEQLEKREQHFALPTPQPLW 126
GE E +R E I + + SE ++ + F L T
Sbjct: 218 PAVGEAIEAAFRREGIEVLKQTQASE-VDYNGREFILETNAGTL 260
>gnl|CDD|206685 cd01898, Obg, Obg GTPase. The Obg nucleotide binding protein
subfamily has been implicated in stress response,
chromosome partitioning, replication initiation,
mycelium development, and sporulation. Obg proteins are
among a large group of GTP binding proteins conserved
from bacteria to humans. The E. coli homolog, ObgE is
believed to function in ribosomal biogenesis. Members of
the subfamily contain two equally and highly conserved
domains, a C-terminal GTP binding domain and an
N-terminal glycine-rich domain.
Length = 170
Score = 26.2 bits (59), Expect = 5.4
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 57 EFYSTLKVVGFSSVSGEGTEELLQLI 82
+ KV S+++GEG +ELL+ +
Sbjct: 141 KELKGKKVFPISALTGEGLDELLKKL 166
>gnl|CDD|233251 TIGR01054, rgy, reverse gyrase. This model describes reverse
gyrase, found in both archaeal and bacterial
thermophiles. This enzyme, a fusion of a type I
topoisomerase domain and a helicase domain, introduces
positive supercoiling to increase the melting
temperature of DNA double strands. Generally, these
gyrases are encoded as a single polypeptide. An
exception was found in Methanopyrus kandleri, where
enzyme is split within the topoisomerase domain,
yielding a heterodimer of gene products designated RgyB
and RgyA [DNA metabolism, DNA replication,
recombination, and repair].
Length = 1171
Score = 26.7 bits (59), Expect = 5.7
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 7/53 (13%)
Query: 61 TLKVVGFSSVSGEGTEELLQLIKLAGEDYEKNYRVEWIRLRDEKAKSEQLEKR 113
LK++GF S E E+ +LI+L K YR + R E ++ +KR
Sbjct: 221 LLKLLGF---SEELIEKAWKLIRLR----LKLYRALHAKKRLELLEAIPGKKR 266
>gnl|CDD|226404 COG3887, COG3887, Predicted signaling protein consisting of a
modified GGDEF domain and a DHH domain [Signal
transduction mechanisms].
Length = 655
Score = 26.5 bits (59), Expect = 6.1
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 9 TELVVGIDIVNHKYAIEWMQDF 30
T + +GI + N +EW+ F
Sbjct: 82 TNMPIGIILFNETNKVEWVNPF 103
>gnl|CDD|234624 PRK00089, era, GTPase Era; Reviewed.
Length = 292
Score = 26.2 bits (59), Expect = 7.3
Identities = 9/30 (30%), Positives = 16/30 (53%)
Query: 54 ALDEFYSTLKVVGFSSVSGEGTEELLQLIK 83
L E ++V S++ G+ +ELL +I
Sbjct: 138 ELSELMDFAEIVPISALKGDNVDELLDVIA 167
>gnl|CDD|217025 pfam02421, FeoB_N, Ferrous iron transport protein B. Escherichia
coli has an iron(II) transport system (feo) which may
make an important contribution to the iron supply of the
cell under anaerobic conditions. FeoB has been
identified as part of this transport system. FeoB is a
large 700-800 amino acid integral membrane protein. The
N terminus contains a P-loop motif suggesting that iron
transport may be ATP dependent.
Length = 190
Score = 25.9 bits (58), Expect = 7.6
Identities = 10/29 (34%), Positives = 12/29 (41%)
Query: 64 VVGFSSVSGEGTEELLQLIKLAGEDYEKN 92
VV S+ GEG +EL I E
Sbjct: 138 VVPTSARKGEGIDELKDAIIEVAEGKVPP 166
>gnl|CDD|235932 PRK07093, PRK07093, para-aminobenzoate synthase component I;
Validated.
Length = 323
Score = 26.0 bits (58), Expect = 8.2
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 7/48 (14%)
Query: 20 HKYAI---EWMQDFEVFQEALEADSSYISNLTRS----MSLALDEFYS 60
K I E+ Q FE+ QE ++A +SY+ NLT +L+L+E +
Sbjct: 67 QKEPISFEEYQQGFELVQEEIQAGNSYLLNLTYPTPIETNLSLEEIFQ 114
>gnl|CDD|212514 cd09988, Formimidoylglutamase, Formimidoylglutamase or HutE.
Formimidoylglutamase (N-formimidoyl-L-glutamate
formimidoylhydrolase; formiminoglutamase;
N-formiminoglutamate hydrolase; N-formimino-L-glutamate
formiminohydrolase; HutE; EC 3.5.3.8) is a metalloenzyme
that catalyzes hydrolysis of N-formimidoyl-L-glutamate
to L-glutamate and formamide. This enzyme is involved in
histidine degradation, requiring Mn as a cofactor while
glutathione may be required for maximal activity. In
Pseudomonas PAO1, mutation studies show that histidine
degradation proceeds via a 'four-step' pathway if the
'five-step' route is absent and vice versa; in the
four-step pathway, formiminoglutaminase (HutE, EC
3.5.3.8) directly converts formiminoglutamate (FIGLU) to
L-glutamate and formamide in a single step.
Formiminoglutamase has traditionally also been referred
to as HutG; however, formiminoglutamase is structurally
and mechanistically unrelated to N-formyl-glutamate
deformylase (also called HutG). Phylogenetic analysis
has suggested that HutE was acquired by horizontal gene
transfer from a Ralstonia-like ancestor.
Length = 262
Score = 25.9 bits (58), Expect = 8.7
Identities = 14/79 (17%), Positives = 28/79 (35%), Gaps = 11/79 (13%)
Query: 19 NHKYAIEWMQDFEV-FQEALEADSSYISNLTRSMSLALDEFYSTLKV----------VGF 67
N + + ++ V + EA I ++ + D Y ++ + V
Sbjct: 150 NTQELFDLAKELGVLYFEAERLLGEKILDILEAEPALRDAIYLSIDLDVISSSDAPGVSA 209
Query: 68 SSVSGEGTEELLQLIKLAG 86
S +G EE + + AG
Sbjct: 210 PSPNGLSPEEACAIARYAG 228
>gnl|CDD|198393 cd10446, GIY-YIG_unchar_1, GIY-YIG domain of uncharacterized
hypothetical protein found in bacteria. The family
includes a group of uncharacterized bacterial
hypothetical proteins with a GIY-YIG domain that shows
statistically significant similarity to the N-terminal
catalytic domains of GIY-YIG family of intron-encoded
homing endonuclease I-TevI and catalytic GIY-YIG domain
of nucleotide excision repair endonuclease UvrC.
Length = 103
Score = 25.3 bits (56), Expect = 9.0
Identities = 9/44 (20%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 74 GTEELLQLIKLAGEDYEKNYRVEWIRLRDEKAKSEQLEKREQHF 117
G +EL +L+ G +KN++ + + +++ RE ++
Sbjct: 47 GNKELKELVPNKGY-IKKNFQFSILEILPPTTDDKEIIARESYW 89
>gnl|CDD|140327 PTZ00306, PTZ00306, NADH-dependent fumarate reductase; Provisional.
Length = 1167
Score = 26.3 bits (58), Expect = 9.5
Identities = 15/52 (28%), Positives = 21/52 (40%), Gaps = 5/52 (9%)
Query: 75 TEELLQLIKLAGEDYEKNYRVEWIRLRDEKAKSEQLEKREQHFALPTPQPLW 126
+ E ++LI A + E YR E + E K + HF L P W
Sbjct: 1061 SIESIRLIYAAEDVSELTYR-----ELLESYRKENPGKFKCHFVLNNPPEGW 1107
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
0.315 0.133 0.391
Gapped
Lambda K H
0.267 0.0841 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,675,223
Number of extensions: 673283
Number of successful extensions: 747
Number of sequences better than 10.0: 1
Number of HSP's gapped: 745
Number of HSP's successfully gapped: 61
Length of query: 150
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 62
Effective length of database: 7,034,450
Effective search space: 436135900
Effective search space used: 436135900
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 (21.6 bits)
S2: 54 (24.4 bits)