RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9651
(414 letters)
>gnl|CDD|216174 pfam00887, ACBP, Acyl CoA binding protein.
Length = 87
Score = 131 bits (333), Expect = 5e-38
Identities = 45/86 (52%), Positives = 64/86 (74%), Gaps = 2/86 (2%)
Query: 330 IDEDFKKAVEDVKTLTK--RPTDEELLEIYALFKQATEGDNTTARPSMFNLKAKYKWECW 387
++E+F+ AV+ VK L K RP++EE L++YAL+KQATEGD T RP MF++ K KW+ W
Sbjct: 1 LEEEFEAAVKFVKKLPKDGRPSNEEKLKLYALYKQATEGDVNTPRPGMFDVIGKAKWDAW 60
Query: 388 TKLKGTSSDQAKQDYVKKVQELLAKY 413
KLKG S ++A + YV+ V+EL+ KY
Sbjct: 61 KKLKGMSKEEAMKKYVELVEELVEKY 86
>gnl|CDD|238248 cd00435, ACBP, Acyl CoA binding protein (ACBP) binds thiol esters
of long fatty acids and coenzyme A in a one-to-one
binding mode with high specificity and affinity.
Acyl-CoAs are important intermediates in fatty lipid
synthesis and fatty acid degradation and play a role in
regulation of intermediary metabolism and gene
regulation. The suggested role of ACBP is to act as a
intracellular acyl-CoA transporter and pool former.
ACBPs are present in a large group of eukaryotic species
and several tissue-specific isoforms have been detected.
Length = 85
Score = 126 bits (319), Expect = 5e-36
Identities = 42/84 (50%), Positives = 59/84 (70%)
Query: 331 DEDFKKAVEDVKTLTKRPTDEELLEIYALFKQATEGDNTTARPSMFNLKAKYKWECWTKL 390
E+F+ A E VK L +P++EE L++Y+L+KQAT GD T RP MF+LK + KW+ W L
Sbjct: 2 QEEFEAAAEKVKKLKTKPSNEEKLQLYSLYKQATVGDCNTERPGMFDLKGRAKWDAWNSL 61
Query: 391 KGTSSDQAKQDYVKKVQELLAKYQ 414
KG S + A + Y+ KV+EL+AKY
Sbjct: 62 KGMSKEDAMKAYIAKVEELIAKYA 85
>gnl|CDD|226731 COG4281, ACB, Acyl-CoA-binding protein [Lipid metabolism].
Length = 87
Score = 106 bits (266), Expect = 2e-28
Identities = 38/80 (47%), Positives = 59/80 (73%)
Query: 334 FKKAVEDVKTLTKRPTDEELLEIYALFKQATEGDNTTARPSMFNLKAKYKWECWTKLKGT 393
F++A DVK L+++P+++ELL++YALFKQ + GDN +P F++ +YK+E W LKG
Sbjct: 6 FEQAQTDVKELSEKPSNDELLKLYALFKQGSVGDNDGEKPGFFDIVGRYKYEAWAGLKGK 65
Query: 394 SSDQAKQDYVKKVQELLAKY 413
S + A+Q+Y+ V+EL AKY
Sbjct: 66 SQEDARQEYIALVEELKAKY 85
>gnl|CDD|185637 PTZ00458, PTZ00458, acyl CoA binding protein; Provisional.
Length = 90
Score = 49.4 bits (118), Expect = 8e-08
Identities = 25/83 (30%), Positives = 46/83 (55%), Gaps = 2/83 (2%)
Query: 334 FKKAVEDVKTL--TKRPTDEELLEIYALFKQATEGDNTTARPSMFNLKAKYKWECWTKLK 391
F++ V + +L T + E L++Y +KQ+T G+ PSMF + + K+E W ++
Sbjct: 5 FEECVSFINSLPKTVNLSVEIKLDLYKYYKQSTVGNCNIKEPSMFKYQDRKKYEAWKSIE 64
Query: 392 GTSSDQAKQDYVKKVQELLAKYQ 414
+ + AK+ YV+ V EL ++
Sbjct: 65 NLNREDAKKRYVEIVTELFPNWE 87
>gnl|CDD|216996 pfam02364, Glucan_synthase, 1,3-beta-glucan synthase component.
This family consists of various 1,3-beta-glucan synthase
components including Gls1, Gls2 and Gls3 from yeast.
1,3-beta-glucan synthase EC:2.4.1.34 also known as
callose synthase catalyzes the formation of a
beta-1,3-glucan polymer that is a major component of the
fungal cell wall. The reaction catalyzed is:-
UDP-glucose + {(1,3)-beta-D-glucosyl}(N) <=> UDP +
{(1,3)-beta-D-glucosyl}(N+1).
Length = 818
Score = 31.6 bits (72), Expect = 0.76
Identities = 12/36 (33%), Positives = 17/36 (47%)
Query: 240 VLWEYSHLTPPRPSTFAPGCPQRSLEPPAILDTLEH 275
VL E+ L +APG + + P AIL E+
Sbjct: 312 VLAEFEELHLDTVDPYAPGLEEEEIRPVAILGAREY 347
>gnl|CDD|226684 COG4231, COG4231, Indolepyruvate ferredoxin oxidoreductase, alpha
and beta subunits [Energy production and conversion].
Length = 640
Score = 31.2 bits (71), Expect = 1.2
Identities = 10/18 (55%), Positives = 10/18 (55%)
Query: 247 LTPPRPSTFAPGCPQRSL 264
L PPRP PGCP R
Sbjct: 374 LIPPRPPALCPGCPHRPS 391
>gnl|CDD|239899 cd04452, S1_IF2_alpha, S1_IF2_alpha: The alpha subunit of
translation Initiation Factor 2, S1-like RNA-binding
domain. S1-like RNA-binding domains are found in a wide
variety of RNA-associated proteins. Eukaryotic and
archaeal Initiation Factor 2 (e- and aIF2, respectively)
are heterotrimeric proteins with three subunits (alpha,
beta, and gamma). IF2 plays a crucial role in the
process of translation initiation. The IF2 gamma subunit
contains a GTP-binding site. The IF2 beta and gamma
subunits together are thought to be responsible for
binding methionyl-initiator tRNA. The ternary complex
consisting of IF2, GTP, and the methionyl-initiator tRNA
binds to the small subunit of the ribosome, as part of a
pre-initiation complex that scans the mRNA to find the
AUG start codon. The IF2-bound GTP is hydrolyzed to GDP
when the methionyl-initiator tRNA binds the AUG start
codon, at which time the IF2 is released with its bound
GDP. The large ribosomal subunit then joins with the
small subunit to complete the initiation complex, which
is competent to begin translation. The IF2a subunit is a
major site of control of the translation initiation
process, via phosphorylation of a specific serine
residue. This alpha subunit is well conserved in
eukaryotes and archaea but is not present in bacteria.
IF2 is a cold-shock-inducible protein.
Length = 76
Score = 27.5 bits (62), Expect = 2.9
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 81 YRVIHTEVKVPLKELVKVVNVNEDGMEYID 110
R I VKV KE+VKV+ V+++ YID
Sbjct: 43 IRSIRKLVKVGRKEVVKVIRVDKE-KGYID 71
>gnl|CDD|239792 cd04259, AAK_AK-DapDC, AAK_AK-DapDC: Amino Acid Kinase Superfamily
(AAK), AK-DapDC; this CD includes the N-terminal
catalytic aspartokinase (AK) domain of the bifunctional
enzyme AK - DAP decarboxylase (DapDC) found in some
bacteria. Aspartokinase is the first enzyme in the
aspartate metabolic pathway, catalyzes the conversion of
aspartate and ATP to aspartylphosphate and ADP. DapDC,
which is the lysA gene product, catalyzes the
decarboxylation of DAP to lysine.
Length = 295
Score = 29.4 bits (66), Expect = 3.4
Identities = 18/83 (21%), Positives = 30/83 (36%), Gaps = 8/83 (9%)
Query: 150 AQVCLSVQSSHLRCHYSALSRVYAVLRDFSSRYGGQLTLKNTGLSMTRALYGATKEFDEK 209
A+ + L+ + +++ + G+ L G S T A Y A K +
Sbjct: 162 ARCESEYADALLQKRLADGAQLIITQGFIARNAHGETVLLGRGGSDTSAAYFAAKLQAAR 221
Query: 210 VEVWTKV--------KLAPGAQL 224
E+WT V P A+L
Sbjct: 222 CEIWTDVPGLFTANPHEVPHARL 244
>gnl|CDD|173702 cd05611, STKc_Rim15_like, Catalytic domain of fungal Rim15-like
Protein Serine/Threonine Kinases. Serine/Threonine
Kinases (STKs), Microtubule-associated serine/threonine
(MAST) kinase subfamily, fungal Rim15-like kinases,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MAST kinase
subfamily is part of a larger superfamily that includes
the catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. Members of this group include Saccharomyces
cerevisiae Rim15, Schizosaccharomyces pombe cek1, and
similar fungal proteins. They contain a central
catalytic domain, which contains an insert relative to
MAST kinases. In addition, Rim15 contains a C-terminal
signal receiver (REC) domain while cek1 contains an
N-terminal PAS domain. Rim15 (or Rim15p) functions as a
regulator of meiosis. It acts as a downstream effector
of PKA and regulates entry into stationary phase (G0).
Thus, it plays a crucial role in regulating yeast
proliferation, differentiation, and aging. Cek1 may
facilitate progression of mitotic anaphase.
Length = 260
Score = 29.0 bits (65), Expect = 4.1
Identities = 23/88 (26%), Positives = 35/88 (39%), Gaps = 23/88 (26%)
Query: 106 MEYIDFVGD-----QTFRPLPEYYPELYDQSQCSDMAETVLGLQFIHS---------PAQ 151
MEY++ GD +T LPE +AE VLG++ +H P
Sbjct: 76 MEYLNG-GDCASLIKTLGGLPE-------DWAKQYIAEVVLGVEDLHQRGIIHRDIKPEN 127
Query: 152 VCLSVQSSHLRCHYSALSRVYAVLRDFS 179
+ + Q+ HL+ LSR + F
Sbjct: 128 LLID-QTGHLKLTDFGLSRNGLENKKFV 154
>gnl|CDD|233714 TIGR02082, metH, 5-methyltetrahydrofolate--homocysteine
methyltransferase. This family represents
5-methyltetrahydrofolate--homocysteine methyltransferase
(EC 2.1.1.13), one of at least three different enzymes
able to convert homocysteine to methionine by
transferring a methyl group on to the sulfur atom. It is
also called the vitamin B12(or cobalamine)-dependent
methionine synthase. Other methionine synthases include
5-methyltetrahydropteroyltriglutamate--homocysteine
S-methyltransferase (MetE, EC 2.1.1.14, the
cobalamin-independent methionine synthase) and
betaine-homocysteine methyltransferase [Amino acid
biosynthesis, Aspartate family].
Length = 1178
Score = 29.4 bits (66), Expect = 4.5
Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 2/51 (3%)
Query: 325 PSMTSIDEDFKKAVEDVKTLTKRPTD-EELLEIYALFKQATEGDNTTARPS 374
ID + ++ VED+ L +R E LLE+ L++ T + A+ +
Sbjct: 590 LPYDDIDPELRQVVEDL-ILNRRREATEPLLELAQLYEGTTTKSSKEAQQA 639
>gnl|CDD|221326 pfam11935, DUF3453, Domain of unknown function (DUF3453). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is typically
between 239 to 261 amino acids in length.
Length = 233
Score = 28.8 bits (65), Expect = 4.8
Identities = 9/45 (20%), Positives = 22/45 (48%)
Query: 306 LRRNKIAHNYPSDLIRYLRPSMTSIDEDFKKAVEDVKTLTKRPTD 350
L +++++ + + + L S E +A ++ + L KRP +
Sbjct: 188 LLKHQLSPPFQGRIQQALEDLGQSRAEIADEAPKEKRILPKRPKE 232
>gnl|CDD|185466 PTZ00130, PTZ00130, heat shock protein 90; Provisional.
Length = 814
Score = 29.2 bits (65), Expect = 5.6
Identities = 14/51 (27%), Positives = 29/51 (56%)
Query: 302 ARKQLRRNKIAHNYPSDLIRYLRPSMTSIDEDFKKAVEDVKTLTKRPTDEE 352
+R+QL++NKI ++R + + ++ ++ KK E ++ + TDEE
Sbjct: 431 SREQLQQNKILKAVSKRIVRKILDTFRTLYKEGKKNKETLRAELAKETDEE 481
>gnl|CDD|236539 PRK09490, metH, B12-dependent methionine synthase; Provisional.
Length = 1229
Score = 29.0 bits (66), Expect = 6.2
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 4/39 (10%)
Query: 330 IDEDFKKAVEDVKTLTKRP--TDEELLEIYALFKQATEG 366
I + ++AVEDV L +RP T E LLEI ++
Sbjct: 611 IPPELREAVEDV-VLNRRPDAT-ERLLEIAEKYRGKGGK 647
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 27.7 bits (62), Expect = 7.3
Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 8/52 (15%)
Query: 329 SID-EDFKKAVEDVKTLTKRPTDEELLEIYALFKQATEGDNTTARPSMFNLK 379
ID E+F + K L +R EE+L+ + LF D+ T + S+ NLK
Sbjct: 69 KIDFEEFLDIM--TKKLGERDPREEILKAFRLFD-----DDKTGKISLKNLK 113
>gnl|CDD|238966 cd02008, TPP_IOR_alpha, Thiamine pyrophosphate (TPP) family,
IOR-alpha subfamily, TPP-binding module; composed of
proteins similar to indolepyruvate ferredoxin
oxidoreductase (IOR) alpha subunit. IOR catalyzes the
oxidative decarboxylation of arylpyruvates, such as
indolepyruvate or phenylpyruvate, which are generated by
the transamination of aromatic amino acids, to the
corresponding aryl acetyl-CoA.
Length = 178
Score = 27.6 bits (62), Expect = 7.9
Identities = 8/14 (57%), Positives = 8/14 (57%)
Query: 250 PRPSTFAPGCPQRS 263
PRP PGCP R
Sbjct: 1 PRPPGLCPGCPHRP 14
>gnl|CDD|221998 pfam13234, rRNA_proc-arch, rRNA-processing arch domain. Mtr4 is
the essential RNA helicase, and is an exosome-activating
cofactor. This arch domain is carried in Mtr4 and Ski2
(the cytosolic homologue of Mtr4). The arch domain is
required for proper 5.8S rRNA processing, and appears to
function independently of canonical helicase activity.
Length = 266
Score = 27.9 bits (63), Expect = 8.2
Identities = 9/38 (23%), Positives = 16/38 (42%), Gaps = 6/38 (15%)
Query: 331 DEDFKKAVEDVKTLTKR------PTDEELLEIYALFKQ 362
D+ FKK + ++ L R L E+Y + +
Sbjct: 211 DDSFKKLLRKIEVLESRLLSNPLHNSPRLEELYDQYSK 248
>gnl|CDD|224328 COG1410, MetH, Methionine synthase I, cobalamin-binding domain
[Amino acid transport and metabolism].
Length = 842
Score = 28.5 bits (64), Expect = 9.4
Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 327 MTSIDEDFKKAVEDVKTLTKRPTDEELLEIYALFK 361
+I + ++AVED+ + R E LLE+ LF+
Sbjct: 272 YDNITAELREAVEDL--ILDRRGYERLLELAELFE 304
>gnl|CDD|131930 TIGR02884, spore_pdaA, delta-lactam-biosynthetic de-N-acetylase.
Muramic delta-lactam is an unusual constituent of
peptidoglycan, found only in bacterial spores in the
peptidoglycan wall, or spore cortex. The proteins in
this family are PdaA (yfjS), a member of a larger family
of polysaccharide deacetylases, and are specificially
involved in delta-lactam biosynthesis. PdaA acts
immediately after CwlD, an N-acetylmuramoyl-L-alanine
amidase and performs a de-N-acetylation. PdaA may also
perform the following transpeptidation for lactam ring
formation, as heterologous expression in E. coli of CwlD
and PdaA together is sufficient for delta-lactam
production [Cell envelope, Biosynthesis and degradation
of murein sacculus and peptidoglycan, Cellular
processes, Sporulation and germination].
Length = 224
Score = 27.7 bits (62), Expect = 9.8
Identities = 8/29 (27%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 325 PSMTSIDED-FKKAVEDVKTLTKRPTDEE 352
PS+T+++++ FK+ + V+ K+ T ++
Sbjct: 100 PSLTAVNDEKFKEELTGVEEEFKKVTGQK 128
>gnl|CDD|234170 TIGR03336, IOR_alpha, indolepyruvate ferredoxin oxidoreductase,
alpha subunit. Indolepyruvate ferredoxin oxidoreductase
(IOR) is an alpha 2/beta 2 tetramer related to ketoacid
oxidoreductases for pyruvate (1.2.7.1, POR),
2-ketoglutarate (1.2.7.3, KOR), and 2-oxoisovalerate
(1.2.7.7, VOR). These multi-subunit enzymes typically
are found in anaerobes and are inactiviated by oxygen.
IOR in Pyrococcus acts in fermentation of all three
aromatic amino acids, following removal of the amino
group by transamination. In Methanococcus maripaludis,
by contrast, IOR acts in the opposite direction, in
pathways of amino acid biosynthesis from phenylacetate,
indoleacetate, and p-hydroxyphenylacetate. In M.
maripaludis and many other species, iorA and iorB are
found next to an apparent phenylacetate-CoA ligase.
Length = 595
Score = 28.2 bits (63), Expect = 9.9
Identities = 7/14 (50%), Positives = 8/14 (57%)
Query: 249 PPRPSTFAPGCPQR 262
P RP + GCP R
Sbjct: 352 PVRPPSLCAGCPHR 365
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 0.132 0.397
Gapped
Lambda K H
0.267 0.0785 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,578,396
Number of extensions: 1927538
Number of successful extensions: 1778
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1777
Number of HSP's successfully gapped: 26
Length of query: 414
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 315
Effective length of database: 6,546,556
Effective search space: 2062165140
Effective search space used: 2062165140
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: 60 (26.8 bits)