RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy866
(132 letters)
>gnl|CDD|215836 pfam00282, Pyridoxal_deC, Pyridoxal-dependent decarboxylase
conserved domain.
Length = 373
Score = 74.3 bits (183), Expect = 1e-16
Identities = 28/40 (70%), Positives = 31/40 (77%)
Query: 22 QVTHWQHPRFHAYFPSGNSYPSVLADMLSDAIGCIGFSWV 61
VT W P FHAYFP+GNSYPS+L DMLSDAI C GF+W
Sbjct: 33 GVTTWHSPNFHAYFPAGNSYPSLLGDMLSDAINCNGFTWE 72
>gnl|CDD|215475 PLN02880, PLN02880, tyrosine decarboxylase.
Length = 490
Score = 56.5 bits (136), Expect = 2e-10
Identities = 19/39 (48%), Positives = 26/39 (66%)
Query: 23 VTHWQHPRFHAYFPSGNSYPSVLADMLSDAIGCIGFSWV 61
VTHWQ P + AY+PS +S L +MLS + +GFSW+
Sbjct: 77 VTHWQSPNYFAYYPSNSSVAGFLGEMLSAGLNIVGFSWI 115
>gnl|CDD|99743 cd06450, DOPA_deC_like, DOPA decarboxylase family. This family
belongs to pyridoxal phosphate (PLP)-dependent
aspartate aminotransferase superfamily (fold I). The
major groups in this CD correspond to DOPA/tyrosine
decarboxylase (DDC), histidine decarboxylase (HDC), and
glutamate decarboxylase (GDC). DDC is active as a dimer
and catalyzes the decarboxylation of tyrosine. GDC
catalyzes the decarboxylation of glutamate and HDC
catalyzes the decarboxylation of histidine.
Length = 345
Score = 44.9 bits (107), Expect = 2e-06
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 31 FHAYFPSGNSYPSVLADMLSDAIGCIGFSW 60
F A F + P++L +ML+ A I F+W
Sbjct: 1 FLAGFVTTMDPPALLLEMLTSAKNAIDFTW 30
>gnl|CDD|178200 PLN02590, PLN02590, probable tyrosine decarboxylase.
Length = 539
Score = 43.9 bits (103), Expect = 5e-06
Identities = 15/39 (38%), Positives = 24/39 (61%)
Query: 23 VTHWQHPRFHAYFPSGNSYPSVLADMLSDAIGCIGFSWV 61
+THWQ P + AY+ S S L +ML+ + +GF+W+
Sbjct: 125 ITHWQSPSYFAYYASSTSVAGFLGEMLNAGLSVVGFTWL 163
>gnl|CDD|215564 PLN03082, PLN03082, Iron-sulfur cluster assembly; Provisional.
Length = 163
Score = 30.7 bits (69), Expect = 0.12
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 4/55 (7%)
Query: 40 SYPSVLADMLS---DAIGCIGFSWVFELQERKRKDDLAYKRSFFVRMVSDPKIYN 91
S PS ML + GC GF +VFEL ++ DD +++ V++V D Y+
Sbjct: 71 SEPSAEDKMLRLSVETGGCSGFQYVFELDDKTNSDDRVFEKD-GVKLVVDNISYD 124
>gnl|CDD|223154 COG0076, GadB, Glutamate decarboxylase and related PLP-dependent
proteins [Amino acid transport and metabolism].
Length = 460
Score = 30.4 bits (69), Expect = 0.25
Identities = 8/40 (20%), Positives = 14/40 (35%)
Query: 21 HQVTHWQHPRFHAYFPSGNSYPSVLADMLSDAIGCIGFSW 60
++ HPR + P V A++L A+
Sbjct: 54 DELYLDGHPRANLAGFCPTRVPPVAAELLVSALNKNLGDP 93
>gnl|CDD|232799 TIGR00049, TIGR00049, Iron-sulfur cluster assembly accessory
protein. Proteins in this subfamily appear to be
associated with the process of FeS-cluster assembly.
The HesB proteins are associated with the nif gene
cluster and the Rhizobium gene IscN has been shown to
be required for nitrogen fixation. Nitrogenase includes
multiple FeS clusters and many genes for their
assembly. The E. coli SufA protein is associated with
SufS, a NifS homolog and SufD which are involved in the
FeS cluster assembly of the FhnF protein. The
Azotobacter protein IscA (homologs of which are also
found in E.coli) is associated which IscS, another NifS
homolog and IscU, a nifU homolog as well as other
factors consistent with a role in FeS cluster
chemistry. A homolog from Geobacter contains a
selenocysteine in place of an otherwise invariant
cysteine, further suggesting a role in redox chemistry
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 105
Score = 28.3 bits (64), Expect = 0.50
Identities = 11/35 (31%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 54 GCIGFSWVFELQERKRKDDLAYKRSFFVRMVSDPK 88
GC G + E + +DD +++ V++V DPK
Sbjct: 32 GCSGLQYGLEFDDEPNEDDEVFEQD-GVKVVVDPK 65
>gnl|CDD|181915 PRK09504, sufA, iron-sulfur cluster assembly scaffold protein;
Provisional.
Length = 122
Score = 28.5 bits (64), Expect = 0.55
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 54 GCIGFSWVFELQERKRKDDLAYKR 77
GC GF +V + KDDL ++
Sbjct: 49 GCAGFGYVLDSVSEPDKDDLVFEH 72
>gnl|CDD|226779 COG4329, COG4329, Predicted membrane protein [Function unknown].
Length = 160
Score = 28.3 bits (63), Expect = 0.90
Identities = 14/68 (20%), Positives = 25/68 (36%), Gaps = 9/68 (13%)
Query: 19 LSHQVTHWQHPRFHAYFPSGNSYPSVLADMLSDAIGCIGFSWVFE------LQERKRKDD 72
L HQ+ W H + P + +++SD + FSWV L R+
Sbjct: 31 LLHQLLQWHHMLSSSTPPDSLENLEL--NLISDGL-FHAFSWVATVGGLFMLWRLGRRKT 87
Query: 73 LAYKRSFF 80
+ ++
Sbjct: 88 FQWSAKYW 95
>gnl|CDD|223393 COG0316, sufA, Fe-S cluster assembly scaffold protein
[Posttranslational modification, protein turnover,
chaperones].
Length = 110
Score = 27.1 bits (61), Expect = 1.4
Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 54 GCIGFSWVFELQERKRKDDLAYKRSFFVRMVSDPK 88
GC GF + E + +DD +++ V++V DPK
Sbjct: 37 GCSGFQYGLEFDDEINEDDTVFEQD-GVKVVVDPK 70
>gnl|CDD|184186 PRK13623, PRK13623, iron-sulfur cluster insertion protein ErpA;
Provisional.
Length = 115
Score = 27.2 bits (61), Expect = 1.6
Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 54 GCIGFSWVFELQERKRKDDLAYKRSFFVRMVSDP 87
GC GF + F E+ +DD ++ V +V DP
Sbjct: 42 GCSGFQYGFTFDEQVNEDDTTIEKQ-GVTLVVDP 74
>gnl|CDD|234504 TIGR04216, halo_surf_glyco, major cell surface glycoprotein.
Members of this family are the S-layer-forming
halobacterial major cell surface glycoprotein. The
highest scores below model cutoffs are fragmentary
paralogs to actual members of the family. Modifications
include at N-linked and O-linked glycosylation, a
C-terminal diphytanylglyceryl modification, and probable
cleavage of the PGF-CTERM tail.
Length = 782
Score = 27.5 bits (61), Expect = 2.3
Identities = 12/46 (26%), Positives = 15/46 (32%)
Query: 86 DPKIYNPKIAVATPTSRRPTCLASSAEEDEEAESDERSSEQGSYTP 131
D TPT+ P +AE E + GS TP
Sbjct: 715 DTTTSEDPTTTTTPTTTGPEETTETAEPTTTTEEPTEETTTGSSTP 760
>gnl|CDD|238865 cd01827, sialate_O-acetylesterase_like1, sialate
O-acetylesterase_like family of the SGNH hydrolases, a
diverse family of lipases and esterases. The tertiary
fold of the enzyme is substantially different from that
of the alpha/beta hydrolase family and unique among all
known hydrolases; its active site closely resembles the
Ser-His-Asp(Glu) triad found in other serine
hydrolases.
Length = 188
Score = 27.0 bits (60), Expect = 2.6
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 36 PSGNSYPSVLADMLSD 51
+ +SYPS LA ML D
Sbjct: 17 RAYDSYPSPLAQMLGD 32
>gnl|CDD|220380 pfam09751, Es2, Nuclear protein Es2. This entry is of a family of
proteins of approximately 500 residues with alternating
regions of low complexity and conservation where the
domain similarities are strong. Apart from a predicted
coiled-coil domain, no other known functional domains
have been characterized. The protein appears to be
expressed in the nucleus and particularly highly in the
pons sub-region of the brain. The protein is clearly
necessary for normal development of the nervous system.
Length = 390
Score = 27.4 bits (61), Expect = 2.7
Identities = 11/49 (22%), Positives = 20/49 (40%), Gaps = 4/49 (8%)
Query: 62 FELQERKRKDDLAYKRSFFVRMVSDPKIYNPKIAVATPTSRRPTCLASS 110
F++ E R++ LA+K V + K K A + R ++
Sbjct: 332 FKIPEPSRREKLAHKL---VEKAARAK-RREKAKGALRRNLRSPTSPTT 376
>gnl|CDD|240263 PTZ00092, PTZ00092, aconitate hydratase-like protein; Provisional.
Length = 898
Score = 27.3 bits (61), Expect = 3.0
Identities = 20/62 (32%), Positives = 26/62 (41%), Gaps = 13/62 (20%)
Query: 72 DLAYKRSFFVRMVSDPKIYNPKI--------AVATPTSRRPTCLASSAEEDEEAESDERS 123
DLA R R+ DP NP + +V SR P L E ++E E ER+
Sbjct: 106 DLAAMRDAMKRLGGDPAKINPLVPVDLVIDHSVQVDFSRSPDAL----ELNQEIEF-ERN 160
Query: 124 SE 125
E
Sbjct: 161 LE 162
>gnl|CDD|225723 COG3182, PiuB, Uncharacterized iron-regulated membrane protein
[Function unknown].
Length = 442
Score = 26.6 bits (59), Expect = 4.4
Identities = 10/36 (27%), Positives = 14/36 (38%), Gaps = 10/36 (27%)
Query: 5 LLVKPSLIIL-------LFHFLSHQVTHWQHPRFHA 33
LLV P L +L LFH ++ +P
Sbjct: 18 LLVAPFLFLLALTGSLLLFH---DEIEALLNPELLL 50
>gnl|CDD|182879 PRK10977, PRK10977, hypothetical protein; Provisional.
Length = 509
Score = 26.4 bits (59), Expect = 5.7
Identities = 9/19 (47%), Positives = 11/19 (57%), Gaps = 1/19 (5%)
Query: 23 VTHWQH-PRFHAYFPSGNS 40
+TH Q H Y+PSG S
Sbjct: 396 ITHLQTSAPHHKYYPSGIS 414
>gnl|CDD|151672 pfam11230, DUF3029, Protein of unknown function (DUF3029). Some
members in this family of proteins are annotated as
ykkI. Currently no function is known.
Length = 487
Score = 26.1 bits (58), Expect = 6.6
Identities = 11/19 (57%), Positives = 12/19 (63%), Gaps = 1/19 (5%)
Query: 23 VTHWQH-PRFHAYFPSGNS 40
+TH Q FH YFPSG S
Sbjct: 384 ITHLQASAPFHQYFPSGIS 402
>gnl|CDD|241322 cd13168, PTB_LOC417372, uncharacterized protein LOC417372
Phosphotyrosine-binding (PTB) PH-like fold. The
function of LOC417372 and its related proteins are
unknown to date. Members here contain a N-terminal RUN
domain, followed by a PDZ domain, and a C-terminal PTB
domain. The RUN domain is involved in Ras-like GTPase
signaling. The PDZ domain (also called DHR/Dlg
homologous region or GLGF after its conserved sequence
motif) binds C-terminal polypeptides, internal
(non-C-terminal) polypeptides, and lipids. PTB domains
have a common PH-like fold and are found in various
eukaryotic signaling molecules. This domain was
initially shown to binds peptides with a NPXY motif with
differing requirements for phosphorylation of the
tyrosine, although more recent studies have found that
some types of PTB domains can bind to peptides lack
tyrosine residues altogether. In contrast to SH2
domains, which recognize phosphotyrosine and adjacent
carboxy-terminal residues, PTB-domain binding
specificity is conferred by residues amino-terminal to
the phosphotyrosine. PTB domains are classified into
three groups: phosphotyrosine-dependent Shc-like,
phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the Dab-like subgroup.
Length = 120
Score = 25.4 bits (56), Expect = 8.1
Identities = 16/48 (33%), Positives = 20/48 (41%), Gaps = 3/48 (6%)
Query: 82 RMVSDPKIYNPKIAVATP--TSRRPTCLASSAEEDEEAESDERSSEQG 127
R V DPK + IA TP ++ C A EE E+ QG
Sbjct: 74 RRVDDPKYF-AYIAGDTPCTLAKHFVCYVFEAASKEECETILNGIAQG 120
>gnl|CDD|238807 cd01573, modD_like, ModD; Quinolinate phosphoribosyl transferase
(QAPRTase or QPRTase) present in some modABC operons in
bacteria, which are involved in molybdate transport. In
general, QPRTases are part of the de novo synthesis
pathway of NAD in both prokaryotes and eukaryotes. They
catalyse the reaction of quinolinic acid (QA) with
5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence
of Mg2+ to produce nicotinic acid mononucleotide (NAMN),
pyrophosphate and carbon dioxide.
Length = 272
Score = 25.7 bits (57), Expect = 8.4
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 82 RMVSDPKIYNPKIAVATP 99
MV+ + NP I VAT
Sbjct: 107 EMVAAARAVNPDIVVATT 124
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
0.320 0.133 0.403
Gapped
Lambda K H
0.267 0.0743 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,758,189
Number of extensions: 586782
Number of successful extensions: 552
Number of sequences better than 10.0: 1
Number of HSP's gapped: 552
Number of HSP's successfully gapped: 26
Length of query: 132
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 46
Effective length of database: 7,123,158
Effective search space: 327665268
Effective search space used: 327665268
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: 53 (24.2 bits)