RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy18105
(333 letters)
>gnl|CDD|224361 COG1444, COG1444, Predicted P-loop ATPase fused to an
acetyltransferase [General function prediction only].
Length = 758
Score = 193 bits (492), Expect = 8e-56
Identities = 89/331 (26%), Positives = 122/331 (36%), Gaps = 73/331 (22%)
Query: 3 SVQRKVQAGKLNVNEDDPFELFVASTNIRYTYYSETHKILGNTYGMCVLQDFEALTPNLL 62
+++R AG DPFE + Y E+ +ILG T+ + VL E L PN L
Sbjct: 55 ALKRDALAGDRLPESPDPFEG-----EFEHIDYKESERILGRTFDLLVLDLTEGLDPNAL 109
Query: 63 ARTIETVEGGGVIVLLLRTLSSLKQLYTMSMDIHERYRTEAHSDVVCRFNERFLLSLSSC 122
AR + TV GGG++VLLL K L T R DV RFN RF+ SLS+
Sbjct: 110 ARLVGTVRGGGLLVLLLPPWEEWKTLPTA---DSRRLSVPPFPDVTPRFNRRFIRSLSAH 166
Query: 123 NRCLVVDDQLTVLPITSQHVLNITPVSKTSDLSQQEQELNALKTSLKDTQPVSALIDCCK 182
+ +DD ++ +S E K L P L + C
Sbjct: 167 PDGIFIDDVD-------------PKKIESGPVSANEPSKERKKPPLDPVFP-RELYELCL 212
Query: 183 TLDQGKALLKFIDSISEKTLRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFGKALLK 242
T DQ +AL + + + LTA RGRGKSAALG+A+A A
Sbjct: 213 TEDQAEALEILERLLDAP--KRALVLTADRGRGKSAALGIALAAAARLA----------- 259
Query: 243 FIDGISEKTLRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFI 302
G I VT+P+P N+ T F+F
Sbjct: 260 --------------------------------------GSVRIIVTAPTPANVQTLFEFA 281
Query: 303 FKGFDALAYQEHLDYSIVQSTEPEYNKALVR 333
KG + L Y+ + +
Sbjct: 282 GKGLEFLGYKRKVAPDALGEIREVSGDGFRI 312
>gnl|CDD|149420 pfam08351, DUF1726, Domain of unknown function (DUF1726). This
domain of unknown function is often found at the
N-terminus of proteins containing pfam05127. Its fold
resembles that of pfam05127, but it does not appear to
bind ATP.
Length = 92
Score = 154 bits (391), Expect = 3e-47
Identities = 51/95 (53%), Positives = 60/95 (63%), Gaps = 3/95 (3%)
Query: 35 YSETHKILGNTYGMCVLQDFEALTPNLLARTIETVEGGGVIVLLLRTLSSLKQLYTMSMD 94
Y E+ KILG T+ M VL FE LTPN L R +ETV GGG+I+LLL L S KQLYT D
Sbjct: 1 YKESEKILGQTFDMLVLDLFEDLTPNDLGRLVETVRGGGLIILLLPPLESWKQLYT---D 57
Query: 95 IHERYRTEAHSDVVCRFNERFLLSLSSCNRCLVVD 129
H R ++DV RFNERF+ SL L+VD
Sbjct: 58 FHRRLVVPPYTDVKGRFNERFIRSLLEHRGILIVD 92
>gnl|CDD|218449 pfam05127, Helicase_RecD, Helicase. This domain contains a P-loop
(Walker A) motif, suggesting that it has ATPase
activity, and a Walker B motif. In tRNA(Met) cytidine
acetyltransferase (TmcA) it may function as an RNA
helicase motor (driven by ATP hydrolysis) which delivers
the wobble base to the active centre of the GCN5-related
N-acetyltransferase (GNAT) domain. It is found in the
bacterial exodeoxyribonuclease V alpha chain (RecD),
which has 5'-3' helicase activity. It is structurally
similar to the motor domain 1A in other SF1 helicases.
Length = 160
Score = 68.4 bits (168), Expect = 5e-14
Identities = 27/55 (49%), Positives = 33/55 (60%)
Query: 270 LGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALAYQEHLDYSIVQSTE 324
LGLA A +A GYS I VT+PSP N+ T F+F KG DAL Y+ I+ S
Sbjct: 1 LGLAAAALIAQGYSRILVTAPSPANVQTLFEFAIKGLDALGYKPKKREGIIASLR 55
>gnl|CDD|237723 PRK14479, PRK14479, dihydroxyacetone kinase; Provisional.
Length = 568
Score = 31.3 bits (72), Expect = 0.65
Identities = 19/79 (24%), Positives = 25/79 (31%), Gaps = 22/79 (27%)
Query: 207 SLTAARGRGKSAALGLAVAGAVAFGYSNIFGKALLKFIDGISEKTLRSTVSLTAARGRGK 266
+L AA G A A A A E+ +T L GR +
Sbjct: 498 ALEAAAAAGADLAEAWAAAAEAA-------------------EEGAEATADLVPRMGRAR 538
Query: 267 S---AALGLAVAGAVAFGY 282
+LG AGAV+
Sbjct: 539 YLGERSLGTPDAGAVSLAL 557
>gnl|CDD|215721 pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.
Length = 131
Score = 29.2 bits (66), Expect = 1.3
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 269 ALGL-AVAGAVAFGYSNIFVTSPSPENL 295
+GL AV A A G + + S E L
Sbjct: 1 GVGLAAVQLAKALGAARVIAVDRSEEKL 28
>gnl|CDD|237862 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 620
Score = 30.3 bits (69), Expect = 1.5
Identities = 21/62 (33%), Positives = 31/62 (50%), Gaps = 11/62 (17%)
Query: 130 DQLTVLP--ITSQHVLN-ITPVSKTSDLSQQEQELNALKTSLKDTQPVSALIDCCKTLDQ 186
DQL++LP IT + V + + V EQ+L L +L P S L C + LD+
Sbjct: 224 DQLSLLPGPITPEAVWDLLGAVP--------EQDLLNLLKALASNDPESLLDSCRQLLDR 275
Query: 187 GK 188
G+
Sbjct: 276 GR 277
>gnl|CDD|172378 PRK13857, PRK13857, type IV secretion system pilin subunit VirB2;
Provisional.
Length = 120
Score = 28.7 bits (64), Expect = 2.1
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 222 LAVAGAVAFGYSNIFGKALLKFIDGI 247
LAV G VA G S +FG+A L + G+
Sbjct: 74 LAVLGIVAIGISWMFGRASLGLVAGV 99
>gnl|CDD|213674 TIGR02011, IscA, iron-sulfur cluster assembly protein IscA. This
model represents the IscA component of the ISC system
for iron-sulfur cluster assembly. The ISC system
consists of IscRASU, HscAB and an Isc-specific
ferredoxin. IscA previously was believed to act as a
scaffold and now is seen as an iron donor protein. This
clade is limited to the proteobacteria [Biosynthesis of
cofactors, prosthetic groups, and carriers, Other].
Length = 105
Score = 28.3 bits (63), Expect = 2.6
Identities = 15/73 (20%), Positives = 30/73 (41%), Gaps = 6/73 (8%)
Query: 257 SLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALAYQEHLD 316
+ A RG+G LG+ +G Y FV P+P+++ +F+ +
Sbjct: 13 TFLANRGKGFGLRLGVKTSGCSGMAYVLEFVDEPTPDDI------VFEDKGVKIVIDGKS 66
Query: 317 YSIVQSTEPEYNK 329
+ T+ ++ K
Sbjct: 67 LQYLDGTQLDFVK 79
>gnl|CDD|187664 cd09763, DHRS1-like_SDR_c, human dehydrogenase/reductase (SDR
family) member 1 (DHRS1) -like, classical (c) SDRs.
This subgroup includes human DHRS1 and related proteins.
These are members of the classical SDR family, with a
canonical Gly-rich NAD-binding motif and the typical
YXXXK active site motif. However, the rest of the
catalytic tetrad is not strongly conserved. DHRS1 mRNA
has been detected in many tissues, liver, heart,
skeletal muscle, kidney and pancreas; a longer
transcript is predominantly expressed in the liver , a
shorter one in the heart. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 265
Score = 29.3 bits (66), Expect = 2.9
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 210 AARGRGKSAALGLAVAGAVAFGYSNIFGKALLKFIDGISE 249
A+RG G+ AL L AGA + I G+ +L + G +E
Sbjct: 11 ASRGIGRGIALQLGEAGATVY----ITGRTILPQLPGTAE 46
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 29.0 bits (65), Expect = 3.5
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 203 RSTVSLTAARGRGKSAALGLAVAGAV 228
+ V AA G G++ ALGLA GA
Sbjct: 13 KVAVVTGAAAGLGRAEALGLARLGAT 38
Score = 29.0 bits (65), Expect = 3.5
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 253 RSTVSLTAARGRGKSAALGLAVAGAV 278
+ V AA G G++ ALGLA GA
Sbjct: 13 KVAVVTGAAAGLGRAEALGLARLGAT 38
>gnl|CDD|234422 TIGR03971, SDR_subfam_1, oxidoreductase, SDR family. Members of
this protein subfamily are putative oxidoreductases
belonging to the larger SDR family. Members of the
present subfamily may occur several to a genome and are
largely restricted to genomes that contain members of
families TIGR03962, TIGR03967, and TIGR03969. Many
members have been annotated by homology as carveol
dehydrogenases.
Length = 265
Score = 28.3 bits (63), Expect = 5.5
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 210 AARGRGKSAALGLAVAGA 227
AARG+G++ A+ LA GA
Sbjct: 11 AARGQGRAHAVRLAAEGA 28
Score = 28.3 bits (63), Expect = 5.5
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 260 AARGRGKSAALGLAVAGA 277
AARG+G++ A+ LA GA
Sbjct: 11 AARGQGRAHAVRLAAEGA 28
>gnl|CDD|237168 PRK12668, PRK12668, putative monovalent cation/H+ antiporter
subunit D; Reviewed.
Length = 581
Score = 28.7 bits (65), Expect = 5.6
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 222 LAVAGAVAFGYSNIFGKALL 241
LA+ GAVA +++I K LL
Sbjct: 289 LAINGAVAHAFNHILYKGLL 308
>gnl|CDD|224483 COG1567, COG1567, CRISPR system related protein, RAMP superfamily
[Defense mechanisms].
Length = 313
Score = 27.8 bits (62), Expect = 8.1
Identities = 7/33 (21%), Positives = 17/33 (51%)
Query: 226 GAVAFGYSNIFGKALLKFIDGISEKTLRSTVSL 258
GA+ + ++G+ + I+ ++ LR + L
Sbjct: 34 GAIIYAALKLYGREIDDLIENFAKSPLRISSLL 66
>gnl|CDD|217208 pfam02734, Dak2, DAK2 domain. This domain is the predicted
phosphatase domain of the dihydroxyacetone kinase
family.
Length = 174
Score = 27.1 bits (61), Expect = 8.3
Identities = 16/78 (20%), Positives = 30/78 (38%), Gaps = 12/78 (15%)
Query: 174 VSALIDCCKTLDQGKALLKFIDSI------SEKTLRSTVSLTAARGRGK---SAALGLAV 224
+ L + L+ K +++ +E+ +T L A GR ++G+
Sbjct: 100 LDVLRPAAEALEAAKDGADLAEALEAAVKAAEEGAEATKELLAKLGRASYLGERSIGVVD 159
Query: 225 AGAVAFGYSNIFGKALLK 242
GAV I +AL +
Sbjct: 160 PGAVGLAL--IL-EALAE 174
>gnl|CDD|220473 pfam09925, DUF2157, Predicted membrane protein (DUF2157). This
domain, found in various hypothetical prokaryotic
proteins, has no known function.
Length = 144
Score = 27.2 bits (61), Expect = 8.7
Identities = 25/114 (21%), Positives = 34/114 (29%), Gaps = 17/114 (14%)
Query: 197 ISEKTLRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFGKA--------LLKFIDGIS 248
I + ++ S L GA+ G IF A +KF G+
Sbjct: 10 IDPAQAEAILARYGEDPARSSLVRILLWLGALLLGAGVIFFVAANWEEIPRFVKF--GLL 67
Query: 249 EKTLRSTVSLTAARGRGKSAALG--LAVAGAVAFG-----YSNIFVTSPSPENL 295
L R LG L + GA+ FG I+ T P L
Sbjct: 68 LALLVGLALGGFWLWRRGKPRLGEALLLLGALLFGALLALIGQIYQTGADPWQL 121
>gnl|CDD|180533 PRK06334, PRK06334, long chain fatty acid--[acyl-carrier-protein]
ligase; Validated.
Length = 539
Score = 27.9 bits (62), Expect = 9.1
Identities = 33/138 (23%), Positives = 51/138 (36%), Gaps = 8/138 (5%)
Query: 154 LSQQEQELNA--LKTSLKDTQPVSALIDCCKTLDQGKALLKFIDSISEKTLRSTVSLTAA 211
+S ++ E A L TS + P + L +A LKF + + S + A
Sbjct: 177 VSDKDPEDVAVILFTSGTEKLPKGVPLTHANLLANQRACLKFFSPKEDDVMMSFLPPFHA 236
Query: 212 RGRGKSAALGLAVAGAVAFGYSNIFGKALLKFIDGISEKTLRST-----VSLTAARGRGK 266
G L V F Y+ ++ K +++ ID L ST L A+ +
Sbjct: 237 YGFNSCTLFPLLSGVPVVFAYNPLYPKKIVEMIDEAKVTFLGSTPVFFDYILKTAKKQES 296
Query: 267 S-AALGLAVAGAVAFGYS 283
+L V G AF S
Sbjct: 297 CLPSLRFVVIGGDAFKDS 314
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
0.319 0.133 0.368
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,393,383
Number of extensions: 1573601
Number of successful extensions: 1966
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1957
Number of HSP's successfully gapped: 40
Length of query: 333
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 236
Effective length of database: 6,635,264
Effective search space: 1565922304
Effective search space used: 1565922304
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 (26.4 bits)