RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14077
(296 letters)
>gnl|CDD|235916 PRK07044, PRK07044, aldolase II superfamily protein; Provisional.
Length = 252
Score = 60.2 bits (147), Expect = 1e-10
Identities = 20/39 (51%), Positives = 33/39 (84%)
Query: 1 ARLNVDEEIFLVNPHGLLYNEITASSLVKVDMRGDIIEP 39
AR+ +E FL+NP+GLL++EITAS+LVK+D+ G++++
Sbjct: 43 ARVPGEEHHFLINPYGLLFDEITASNLVKIDLDGNVVDD 81
>gnl|CDD|238232 cd00398, Aldolase_II, Class II Aldolase and Adducin head
(N-terminal) domain. Aldolases are ubiquitous enzymes
catalyzing central steps of carbohydrate metabolism.
Based on enzymatic mechanisms, this superfamily has
been divided into two distinct classes (Class I and
II). Class II enzymes are further divided into two
sub-classes A and B. This family includes class II A
aldolases and adducins which has not been ascribed any
enzymatic function. Members of this class are primarily
bacterial and eukaryotic in origin and include
L-fuculose-1-phosphate, L-rhamnulose-1-phosphate
aldolases and L-ribulose-5-phosphate 4-epimerases. They
all share the ability to promote carbon-carbon bond
cleavage and stabilize enolate intermediates using
divalent cations.
Length = 209
Score = 47.4 bits (113), Expect = 2e-06
Identities = 16/37 (43%), Positives = 22/37 (59%)
Query: 6 DEEIFLVNPHGLLYNEITASSLVKVDMRGDIIEPVLG 42
D FL+ P G+ Y E+TAS LV VD +G ++E
Sbjct: 33 DRGYFLITPSGVDYEEMTASDLVVVDAQGKVVEGKKP 69
>gnl|CDD|216015 pfam00596, Aldolase_II, Class II Aldolase and Adducin N-terminal
domain. This family includes class II aldolases and
adducins which have not been ascribed any enzymatic
function.
Length = 181
Score = 46.8 bits (112), Expect = 2e-06
Identities = 14/33 (42%), Positives = 23/33 (69%)
Query: 6 DEEIFLVNPHGLLYNEITASSLVKVDMRGDIIE 38
D + FL+ P G+ + E+TA LV VD+ G+++E
Sbjct: 27 DPDHFLITPSGVDFGELTAEDLVVVDLDGNVVE 59
>gnl|CDD|214970 smart01007, Aldolase_II, Class II Aldolase and Adducin N-terminal
domain. This family includes class II aldolases and
adducins which have not been ascribed any enzymatic
function.
Length = 185
Score = 46.1 bits (110), Expect = 4e-06
Identities = 17/39 (43%), Positives = 29/39 (74%), Gaps = 1/39 (2%)
Query: 1 ARLNVDEEIFLVNPHGLLYNEITASSLVKVDMRGDIIEP 39
AR+ +E++FL+ P G+ + E+TAS LV VD+ G+++E
Sbjct: 23 ARVG-EEDLFLITPSGVDFGELTASDLVVVDLDGNVVEG 60
>gnl|CDD|235814 PRK06486, PRK06486, hypothetical protein; Provisional.
Length = 262
Score = 43.5 bits (103), Expect = 6e-05
Identities = 21/56 (37%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 10 FLVNPHGLLYNEITASSLVKVDMRGDIIEPVLGLWLSRVEALALAMVSCITRLQPR 65
FLVNP+G ++EITAS L+ D G+++ EA A + + I R PR
Sbjct: 62 FLVNPYGYAFSEITASDLLICDFDGNVLAGR-----GEPEATAFFIHARIHRAIPR 112
>gnl|CDD|223313 COG0235, AraD, Ribulose-5-phosphate 4-epimerase and related
epimerases and aldolases [Carbohydrate transport and
metabolism].
Length = 219
Score = 41.9 bits (99), Expect = 1e-04
Identities = 15/39 (38%), Positives = 25/39 (64%), Gaps = 1/39 (2%)
Query: 1 ARLNVDEEIFLVNPHGLLYNEITASSLVKVDMRGDIIEP 39
RL + +FL+ P G+ + E+TA LV VD+ G+++E
Sbjct: 34 VRLP-EGGLFLITPSGVPFGELTADDLVVVDLDGEVVEG 71
>gnl|CDD|168637 PRK06661, PRK06661, hypothetical protein; Provisional.
Length = 231
Score = 37.5 bits (87), Expect = 0.004
Identities = 11/33 (33%), Positives = 21/33 (63%)
Query: 6 DEEIFLVNPHGLLYNEITASSLVKVDMRGDIIE 38
+ + + + P GL + E+T +L+KV + G I+E
Sbjct: 33 NADFYYIYPFGLRFEEVTTENLLKVSLDGQILE 65
>gnl|CDD|234701 PRK00252, alaS, alanyl-tRNA synthetase; Reviewed.
Length = 865
Score = 36.6 bits (86), Expect = 0.013
Identities = 23/111 (20%), Positives = 47/111 (42%), Gaps = 15/111 (13%)
Query: 114 NTNPKE-FKKLQQQIKENRRADKITSGPQSQLLEGVSWEEAKKLQDANQSATGDQVI--- 169
P E ++++ ++E + +K +++L A L + G +V+
Sbjct: 711 KAKPSELPERVEALLEELKELEKELEQLKAKLAAA----AAGDLLAQAKEVNGVKVLAAQ 766
Query: 170 LVGAASKELKSLAKKLQDANQSA-------TGDQVILVGAASKGIIQRGFQ 213
+ G +K L++LA L+D S +V LV A +K + +G +
Sbjct: 767 VEGVDAKALRTLADDLKDKLGSGVVVLATVEDGKVSLVVAVTKDLTDKGLK 817
>gnl|CDD|235743 PRK06208, PRK06208, hypothetical protein; Provisional.
Length = 274
Score = 33.4 bits (77), Expect = 0.094
Identities = 12/29 (41%), Positives = 20/29 (68%)
Query: 10 FLVNPHGLLYNEITASSLVKVDMRGDIIE 38
F VNP G+ +++I S L+ VD G+++E
Sbjct: 78 FWVNPLGVHFSQIKVSDLLLVDHDGEVVE 106
>gnl|CDD|235829 PRK06557, PRK06557, L-ribulose-5-phosphate 4-epimerase;
Validated.
Length = 221
Score = 33.1 bits (76), Expect = 0.100
Identities = 9/33 (27%), Positives = 22/33 (66%)
Query: 6 DEEIFLVNPHGLLYNEITASSLVKVDMRGDIIE 38
++ ++ P G+ Y+++T +V VD+ G+++E
Sbjct: 41 GTDLVVIKPSGVSYDDLTPEDMVVVDLDGNVVE 73
>gnl|CDD|214360 CHL00094, dnaK, heat shock protein 70.
Length = 621
Score = 33.2 bits (76), Expect = 0.15
Identities = 20/58 (34%), Positives = 34/58 (58%), Gaps = 5/58 (8%)
Query: 154 KKLQDANQSATG-DQVILVGAASK--ELKSLAKKL--QDANQSATGDQVILVGAASKG 206
L+DA + D+V+LVG +++ ++ L KKL + NQS D+V+ +GAA +
Sbjct: 317 NALKDAKLDKSDIDEVVLVGGSTRIPAIQELVKKLLGKKPNQSVNPDEVVAIGAAVQA 374
>gnl|CDD|227480 COG5151, SSL1, RNA polymerase II transcription
initiation/nucleotide excision repair factor TFIIH,
subunit SSL1 [Transcription / DNA replication,
recombination, and repair].
Length = 421
Score = 33.0 bits (75), Expect = 0.17
Identities = 30/135 (22%), Positives = 49/135 (36%), Gaps = 16/135 (11%)
Query: 113 KNTNPKEF---KKLQQQIKENRRADKITSGPQSQLLEGVSWEEAKK--LQDANQSATGDQ 167
N N K F K + ++N R K+ S + +G SWE+ K D N G
Sbjct: 1 MNENQKSFDSDKSESEDEQKNGR-VKVRSRKTDDMNKGYSWEQEYKRSWDDVNDDKEGSL 59
Query: 168 VILVGAASKELKS-LAKKLQDANQSATGDQVILVGAASKGIIQRGFQHNATVYKTPYA-- 224
V +V + E K+ + Q + L+ S+ + + F YA
Sbjct: 60 VGVVAEFNLETKAPYSNNRTTPLQRGIIRHLHLILDVSEAMDESDFLPTRRANVIKYAEG 119
Query: 225 -------KNPFDQMT 232
+NP Q++
Sbjct: 120 FVPEFFSQNPISQLS 134
>gnl|CDD|184038 PRK13410, PRK13410, molecular chaperone DnaK; Provisional.
Length = 668
Score = 32.7 bits (75), Expect = 0.24
Identities = 22/61 (36%), Positives = 36/61 (59%), Gaps = 9/61 (14%)
Query: 156 LQDANQSATG-DQVILVGAASK--ELKSLAKKL--QDANQSATGDQVILVGAASKGIIQR 210
L+DA S D+V+LVG +++ ++ L + L ++ NQ+ D+V+ VGAA IQ
Sbjct: 319 LKDAGLSPEDIDEVVLVGGSTRMPMVQQLVRTLIPREPNQNVNPDEVVAVGAA----IQA 374
Query: 211 G 211
G
Sbjct: 375 G 375
>gnl|CDD|227583 COG5258, GTPBP1, GTPase [General function prediction only].
Length = 527
Score = 30.9 bits (70), Expect = 0.91
Identities = 23/88 (26%), Positives = 32/88 (36%), Gaps = 5/88 (5%)
Query: 200 VGAASKGIIQRGFQHNA-TVYKTPYAKNPFDQMTDQEIEEYKSTVSRKQRGEF---SYDD 255
VG G ++ G H TV P+ F ++ + IE + V + G +
Sbjct: 362 VGTVVSGSVKSGILHVGDTVLLGPFKDGKFREVVVKSIEMHHYRVDSAKAGSIIGIALKG 421
Query: 256 SESEALSSSAALPPRAGTKPPVSETDDE 283
E E L L A K V E D E
Sbjct: 422 VEKEELERGMVLSAGADPK-AVREFDAE 448
>gnl|CDD|225081 COG2170, COG2170, Uncharacterized conserved protein [Function
unknown].
Length = 369
Score = 30.0 bits (68), Expect = 1.5
Identities = 10/38 (26%), Positives = 19/38 (50%), Gaps = 2/38 (5%)
Query: 2 RLNVDEEIFLVNPHGLLYNEITASSLVKVDMRGDIIEP 39
L V+ E LV+P G Y+ + +S + ++G +
Sbjct: 4 TLGVELEFQLVDPQG--YDLVGSSDAIIEALKGKVTAG 39
>gnl|CDD|183460 PRK12348, sgaE, L-ribulose-5-phosphate 4-epimerase; Reviewed.
Length = 228
Score = 29.4 bits (66), Expect = 1.8
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 5 VDEEIFLV--NPHGLLYNEITASSLVKVDMRGDIIE 38
+D E LV P G+ Y + A +V VDM G ++E
Sbjct: 31 IDRERGLVVIKPSGVAYETMKADDMVVVDMSGKVVE 66
>gnl|CDD|233830 TIGR02350, prok_dnaK, chaperone protein DnaK. Members of this
family are the chaperone DnaK, of the DnaK-DnaJ-GrpE
chaperone system. All members of the seed alignment were
taken from completely sequenced bacterial or archaeal
genomes and (except for Mycoplasma sequence) found
clustered with other genes of this systems. This model
excludes DnaK homologs that are not DnaK itself, such as
the heat shock cognate protein HscA (TIGR01991).
However, it is not designed to distinguish among DnaK
paralogs in eukaryotes. Note that a number of dnaK genes
have shadow ORFs in the same reverse (relative to dnaK)
reading frame, a few of which have been assigned
glutamate dehydrogenase activity. The significance of
this observation is unclear; lengths of such shadow ORFs
are highly variable as if the presumptive protein
product is not conserved [Protein fate, Protein folding
and stabilization].
Length = 595
Score = 29.2 bits (66), Expect = 2.7
Identities = 22/63 (34%), Positives = 40/63 (63%), Gaps = 5/63 (7%)
Query: 154 KKLQDANQSATG-DQVILVGAASK--ELKSLAKKL--QDANQSATGDQVILVGAASKGII 208
+ L+DA SA+ D+VILVG +++ ++ L K ++ N+S D+V+ +GAA +G +
Sbjct: 313 QALKDAGLSASDIDEVILVGGSTRIPAVQELVKDFFGKEPNKSVNPDEVVAIGAAIQGGV 372
Query: 209 QRG 211
+G
Sbjct: 373 LKG 375
>gnl|CDD|236181 PRK08193, araD, L-ribulose-5-phosphate 4-epimerase; Reviewed.
Length = 231
Score = 28.6 bits (65), Expect = 2.8
Identities = 13/36 (36%), Positives = 26/36 (72%), Gaps = 2/36 (5%)
Query: 5 VDEE--IFLVNPHGLLYNEITASSLVKVDMRGDIIE 38
+D E +F++ P G+ Y+++TA +V VD+ G+++E
Sbjct: 32 IDRERGLFVIKPSGVDYDKMTAEDMVVVDLEGNVVE 67
>gnl|CDD|183870 PRK13145, araD, L-ribulose-5-phosphate 4-epimerase; Provisional.
Length = 234
Score = 28.6 bits (64), Expect = 3.1
Identities = 11/36 (30%), Positives = 22/36 (61%), Gaps = 2/36 (5%)
Query: 5 VDEE--IFLVNPHGLLYNEITASSLVKVDMRGDIIE 38
V E ++ P G+ Y+E+T ++V D+ G+++E
Sbjct: 33 VCRELGRIVIKPSGVDYDELTPENMVVTDLDGNVVE 68
>gnl|CDD|216095 pfam00748, Calpain_inhib, Calpain inhibitor. This region is found
multiple times in calpain inhibitor proteins.
Length = 131
Score = 27.8 bits (62), Expect = 4.1
Identities = 17/56 (30%), Positives = 28/56 (50%)
Query: 241 STVSRKQRGEFSYDDSESEALSSSAALPPRAGTKPPVSETDDESRDEADLMQDSLG 296
S ++K++ E + E +S+ +A R+ PP + D S D D + DSLG
Sbjct: 17 SPTAKKKKEEAEKTAASGEVVSAQSAPSVRSAAPPPEKKRDKMSDDALDALSDSLG 72
>gnl|CDD|234715 PRK00290, dnaK, molecular chaperone DnaK; Provisional.
Length = 627
Score = 28.5 bits (65), Expect = 5.0
Identities = 22/63 (34%), Positives = 32/63 (50%), Gaps = 13/63 (20%)
Query: 156 LQDANQSATG-DQVILVG------AASKELKSLAKKLQDANQSATGDQVILVGAASKGII 208
L+DA S + D+VILVG A + +K K + N+ D+V+ +GAA I
Sbjct: 317 LKDAGLSVSDIDEVILVGGSTRMPAVQELVKEFFGK--EPNKGVNPDEVVAIGAA----I 370
Query: 209 QRG 211
Q G
Sbjct: 371 QGG 373
>gnl|CDD|149105 pfam07851, TMPIT, TMPIT-like protein. A number of members of this
family are annotated as being transmembrane proteins
induced by tumour necrosis factor alpha, but no
literature was found to support this.
Length = 330
Score = 28.2 bits (63), Expect = 5.8
Identities = 29/93 (31%), Positives = 38/93 (40%), Gaps = 19/93 (20%)
Query: 118 KEFKKLQQQIKENRRADKITSGPQSQLLEGVSWEEAKKLQDANQSATGDQVILVGAASKE 177
KE +K QQ++E R K Q LE V KLQ+ SA Q K
Sbjct: 7 KELEKEFQQLQETHRLYK-------QKLEEVE-----KLQEQCTSAIARQ-------RKR 47
Query: 178 LKSLAKKLQDANQSATGDQVILVGAASKGIIQR 210
LK L L+ +S T + LV + I +R
Sbjct: 48 LKQLIVSLKKLKKSLTPEDSELVEQLEEQIKER 80
>gnl|CDD|129843 TIGR00760, araD, L-ribulose-5-phosphate 4-epimerase. E. coli has
two genes, sgaE and sgbE (YiaS), that are very close
homologs of araD, the established
L-ribulose-5-phosphate 4-epimerase of E. coli. SgbE,
part of an operon for L-xylulose metabolism, also has
L-ribulose-5-phosphate 4-epimerase activity;
L-xylulose-5-phosphate may be converted into
L-ribulose-5-phosphate by another product of that
operon. The homolog to this family from Mycobacterium
smegmatis is flanked by putative araB and araA genes,
consistent with it also being araD [Energy metabolism,
Sugars].
Length = 231
Score = 27.5 bits (61), Expect = 7.1
Identities = 12/37 (32%), Positives = 24/37 (64%), Gaps = 3/37 (8%)
Query: 5 VDEE--IFLVNPHGLLYNEITASSLVKVDM-RGDIIE 38
+D E + ++ P G+ Y+ +TA +V VD+ G+++E
Sbjct: 32 IDRERGLVVIKPSGVEYDVMTADDMVVVDLETGNVVE 68
>gnl|CDD|217532 pfam03395, Pox_P4A, Poxvirus P4A protein.
Length = 889
Score = 27.9 bits (62), Expect = 7.3
Identities = 13/55 (23%), Positives = 24/55 (43%)
Query: 102 VKIDSALQFVPKNTNPKEFKKLQQQIKENRRADKITSGPQSQLLEGVSWEEAKKL 156
V ++ + FV + N F + + R D + S S +G+ +E+ KK
Sbjct: 324 VNVNLNIFFVDISPNVNFFITFLNMLAKENRNDALKSIIYSMFWDGIDYEDYKKK 378
>gnl|CDD|215628 PLN03196, PLN03196, MOC1-like protein; Provisional.
Length = 487
Score = 27.8 bits (62), Expect = 7.6
Identities = 9/47 (19%), Positives = 17/47 (36%)
Query: 246 KQRGEFSYDDSESEALSSSAALPPRAGTKPPVSETDDESRDEADLMQ 292
+QR + + E S VS+ +D+ D+ L +
Sbjct: 436 EQRMSGDFIEGEEMEPLFSMGGKLEMPGSESVSDEEDDDDDDEVLYR 482
>gnl|CDD|213509 TIGR00134, gatE_arch, glutamyl-tRNA(Gln) amidotransferase, subunit
E. This peptide is found only in the Archaea. It is
paralogous to the gatB-encoded subunit of Glu-tRNA(Gln)
amidotransferase. The GatABC system operates in many
bacteria to convert Glu-tRNA(Gln) into Gln-tRNA(Gln).
However, the homologous system in archaea instead
converts Asp-tRNA(Asn) to Asn-tRNA(Asn). Glu-tRNA(Gln)
is converted to Gln-tRNA(Gln) by a heterodimeric
amidotransferase of GatE (this protein) and GatD. The
Archaea have an Asp-tRNA(Asn) amidotransferase instead
of an Asp--tRNA ligase, but the genes have not been
identified. It is likely that this protein replaces gatB
in Asp-tRNA(Asn) amidotransferase but that both enzymes
share gatA [Protein synthesis, tRNA aminoacylation].
Length = 620
Score = 27.9 bits (62), Expect = 8.6
Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 147 GVSWEEAKKLQDANQSATGDQVILV-GAASKELKSLAKKLQDANQSATG 194
G++ EE + L+DA + GD V++V ++L + ++ A + G
Sbjct: 347 GITEEEVRGLRDAVGAEQGDAVVMVAHERVTVERALREVIERAKMALQG 395
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
0.309 0.126 0.355
Gapped
Lambda K H
0.267 0.0677 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,631,936
Number of extensions: 1340414
Number of successful extensions: 1154
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1148
Number of HSP's successfully gapped: 41
Length of query: 296
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 200
Effective length of database: 6,679,618
Effective search space: 1335923600
Effective search space used: 1335923600
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 59 (26.6 bits)