RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9485
(190 letters)
>gnl|CDD|202014 pfam01858, RB_A, Retinoblastoma-associated protein A domain. This
domain has the cyclin fold as predicted.
Length = 192
Score = 139 bits (352), Expect = 4e-42
Identities = 56/152 (36%), Positives = 91/152 (59%), Gaps = 5/152 (3%)
Query: 26 TPVKTATQSISRLNLLCGRDPN-PSPALTRIFEACNKNPQPLIDSVLTNLGDKFTQHYS- 83
TPV+TA ++S+L + + PS L + +C++NP I + +G++ + ++
Sbjct: 1 TPVRTAMNTVSQLREVLSSLSDAPSETLLQYLNSCDRNPTEAIIKRVKIIGEEIFETFAE 60
Query: 84 ASGDTARDFAEKRLSVAVCLYYKLLESILADEQKK-PAYDFNVLLSLQIFHETLFACCIE 142
A + ++ A +R +A+ LYY++LESIL E+K+ D + LL + FH +L ACC+E
Sbjct: 61 AEDQSPKEIASQRFKLALKLYYRVLESILKAEEKRLHDMDLSNLLEQEAFHRSLLACCLE 120
Query: 143 IVIFCYNSN--SFPWILSVLGIEPYHFYKVIE 172
+V+ Y + SFPWIL V GI + FYKVIE
Sbjct: 121 LVLATYKTTDLSFPWILEVFGITAFDFYKVIE 152
>gnl|CDD|217903 pfam04112, Mak10, Mak10 subunit, NatC N(alpha)-terminal
acetyltransferase. NatC N(alpha)-terminal
acetyltransferases contains Mak10p, Mak31p and Mak3p
subunits. All three subunits are associated with each
other to form the active complex.
Length = 167
Score = 30.8 bits (70), Expect = 0.29
Identities = 13/56 (23%), Positives = 24/56 (42%), Gaps = 3/56 (5%)
Query: 98 SVAVCLYYKLLESILADEQKKPAYDFNVLLSLQIFHETLFACCIEIVIFCYNSNSF 153
+V CLY +ES+L K +++ + L + C+ +V F +S
Sbjct: 81 TVLTCLY---VESLLESYPKGAGDAHFSRTPRKLYDKVLNSFCLAVVKFIDFVHSV 133
>gnl|CDD|218761 pfam05815, DUF844, Baculovirus protein of unknown function
(DUF844). This family consists of several Baculovirus
sequences of between 350 and 380 residues long. The
family has no known function.
Length = 359
Score = 29.9 bits (68), Expect = 0.71
Identities = 16/86 (18%), Positives = 34/86 (39%), Gaps = 17/86 (19%)
Query: 46 PNPSPALTRIFEACNKNPQPLIDSVLTNLG------DKFTQHYSASGDTARDFAEKRLSV 99
+P + +F + + ++ K Q+Y+++ T+ +F K + V
Sbjct: 88 SSPRRPVLNLFAPARAARSAVSATNSIDMKKYRKACQKLLQYYTSASTTSTEFKVKDI-V 146
Query: 100 AVCLY----------YKLLESILADE 115
+Y +KLLE+ L D+
Sbjct: 147 MCMIYLSHSPKYKPLFKLLETTLTDD 172
>gnl|CDD|133043 cd06421, CESA_CelA_like, CESA_CelA_like are involved in the
elongation of the glucan chain of cellulose. Family of
proteins related to Agrobacterium tumefaciens CelA and
Gluconacetobacter xylinus BscA. These proteins are
involved in the elongation of the glucan chain of
cellulose, an aggregate of unbranched polymers of
beta-1,4-linked glucose residues. They are putative
catalytic subunit of cellulose synthase, which is a
glycosyltransferase using UDP-glucose as the substrate.
The catalytic subunit is an integral membrane protein
with 6 transmembrane segments and it is postulated that
the protein is anchored in the membrane at the
N-terminal end.
Length = 234
Score = 29.1 bits (66), Expect = 1.3
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 146 FCYNSNSFPWILSVLGIEPYHFYKVIEW 173
F YN + F W+ E FY VI+
Sbjct: 123 FFYNPDPFDWLADGAPNEQELFYGVIQP 150
>gnl|CDD|220626 pfam10192, GpcrRhopsn4, Rhodopsin-like GPCR transmembrane domain.
This region of 270 amino acids is the seven
transmembrane alpha-helical domains included within five
GPCRRHODOPSN4 motifs of a G-protein-coupled-receptor
(GPCR) protein, conserved from nematodes to humans.
GPCRs are integral membrane receptors whose
intracellular actions are mediated by signalling
pathways involving G proteins and downstream secondary
messengers.
Length = 256
Score = 28.7 bits (65), Expect = 1.7
Identities = 21/87 (24%), Positives = 38/87 (43%), Gaps = 6/87 (6%)
Query: 67 IDSVLTNLGDKFTQHYSA--SGDTARDFAEKRL-SVAVCLYYKLLESILADEQKKPAYD- 122
+ LTN GD +T H+SA G F L + + ++++ K P
Sbjct: 6 YEINLTNGGDFWTSHFSADEQGILELFFFFFLLYIILLVYNIIFIQALKKRGLKHPVLKL 65
Query: 123 FNVLLSLQIFHETLFACCIEIVIFCYN 149
+V L L++ +L I ++++ YN
Sbjct: 66 LSVSLLLELI--SLLLLLIHLIVYAYN 90
>gnl|CDD|99824 cd05781, DNA_polB_B3_exo, DEDDy 3'-5' exonuclease domain of
Sulfurisphaera ohwakuensis DNA polymerase B3 and similar
archaeal family-B DNA polymerases. The 3'-5'
exonuclease domain of archaeal proteins with similarity
to Sulfurisphaera ohwakuensis DNA polymerase B3. B3 is a
family-B DNA polymerase. Family-B DNA polymerases
contain an N-terminal DEDDy DnaQ-like exonuclease domain
in the same polypeptide chain as the polymerase domain,
similar to family-A DNA polymerases. B3 exhibits both
polymerase and 3'-5' exonuclease activities. This
exonuclease domain contains three sequence motifs termed
ExoI, ExoII and ExoIII, with a specific YX(3)D pattern
at ExoIII. These motifs are clustered around the active
site and are involved in metal binding and catalysis.
The exonuclease domain of family B polymerases also
contains a beta hairpin structure that plays an
important role in active site switching in the event of
nucleotide misincorporation. Archaeal proteins that are
involved in DNA replication are similar to those from
eukaryotes. Some archaea possess multiple family-B DNA
polymerases. B3 is mainly found in crenarchaea.
Phylogenetic analyses of eubacterial, archaeal, and
eukaryotic family B-DNA polymerases support independent
gene duplications during the evolution of archaeal and
eukaryotic family-B DNA polymerases.
Length = 188
Score = 28.4 bits (64), Expect = 1.9
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 144 VIFCYNSNSFPW 155
+I YNSN+F W
Sbjct: 66 IIVGYNSNAFDW 77
>gnl|CDD|238778 cd01520, RHOD_YbbB, Member of the Rhodanese Homology Domain
superfamily. This CD includes several putative ATP /GTP
binding proteins including E. coli YbbB.
Length = 128
Score = 26.9 bits (60), Expect = 4.0
Identities = 9/28 (32%), Positives = 15/28 (53%), Gaps = 4/28 (14%)
Query: 142 EIVIFCYN----SNSFPWILSVLGIEPY 165
+++I+C S S W+L LGI+
Sbjct: 88 KLLIYCARGGMRSQSLAWLLESLGIDVP 115
>gnl|CDD|240359 PTZ00324, PTZ00324, glutamate dehydrogenase 2; Provisional.
Length = 1002
Score = 27.5 bits (61), Expect = 5.6
Identities = 22/112 (19%), Positives = 39/112 (34%), Gaps = 20/112 (17%)
Query: 26 TPVKTATQSISRLNLLCGRDPN-PSPALTRIFEACNKNPQPLIDSVLTNLGDKFTQHYSA 84
T SI L P +LTR+ E + + ++ + F H++
Sbjct: 284 TADDNPDLSIEDRASLIRLLYILPFSSLTRLHEERVLSCE---ETAYADAAVIFAFHFTP 340
Query: 85 SGDTARDFAEKRLSVAVCLYYKLLESILADEQKKPA--YDFNVLLSLQIFHE 134
S T Y+ LE++LA E + + L+ ++F E
Sbjct: 341 SPTTD--------------DYRHLEALLAKEPNGVSRLNNLRTRLTQEVFSE 378
>gnl|CDD|215536 PLN02991, PLN02991, oxidoreductase.
Length = 543
Score = 27.3 bits (60), Expect = 6.5
Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 12/63 (19%)
Query: 22 YGNVTPVKTATQSISRLNLLCGRDPNPSPALTRIFEACNKNPQPLIDSVLTNLGDKFTQH 81
YGN++P+ A Q I L+ G+ P P I N N LI +V +L + F
Sbjct: 37 YGNISPLGVAQQGI----LINGKFPGPD-----IISVTNDN---LIINVFNHLDEPFLIS 84
Query: 82 YSA 84
+S
Sbjct: 85 WSG 87
>gnl|CDD|153165 cd04893, ACT_GcvR_1, ACT domains that comprise the Glycine
Cleavage System Transcriptional Repressor (GcvR)
protein, and other related domains. This CD includes
the first of the two ACT domains that comprise the
Glycine Cleavage System Transcriptional Repressor
(GcvR) protein, and other related domains. The glycine
cleavage enzyme system in Escherichia coli provides
one-carbon units for cellular methylation reactions.
This enzyme system, encoded by the gcvTHP operon and
lpd gene, catalyzes the cleavage of glycine into CO2 +
NH3 and transfers a one-carbon unit to
tetrahydrofolate, producing
5,10-methylenetetrahydrofolate. The gcvTHP operon is
activated by the GcvA protein in response to glycine
and repressed by a GcvA/GcvR interaction in the absence
of glycine. It has been proposed that the co-activator
glycine acts through a mechanism of de-repression by
binding to GcvR and preventing GcvR from interacting
with GcvA to block GcvA's activator function. Evidence
also suggests that GcvR interacts directly with GcvA
rather than binding to DNA to cause repression. Members
of this CD belong to the superfamily of ACT regulatory
domains.
Length = 77
Score = 25.4 bits (56), Expect = 6.6
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 7/46 (15%)
Query: 46 PNPSPALTR-IFEA-CNKNPQPLIDSVLTNLGDKFTQHYSASGDTA 89
P LTR + E+ CN ++DS + LG +F G
Sbjct: 12 PGILNELTRAVSESGCN-----ILDSRMAILGTEFALTMLVEGSWD 52
>gnl|CDD|183224 PRK11598, PRK11598, putative metal dependent hydrolase;
Provisional.
Length = 545
Score = 26.9 bits (60), Expect = 7.8
Identities = 11/36 (30%), Positives = 15/36 (41%), Gaps = 5/36 (13%)
Query: 126 LLSLQIFHETLFACCIEIVIFC-----YNSNSFPWI 156
LL L H L + +V F + SFPW+
Sbjct: 38 LLPLDSLHNVLVFASMPVVAFSVINIVFTLLSFPWL 73
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
0.321 0.137 0.421
Gapped
Lambda K H
0.267 0.0754 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,631,449
Number of extensions: 861330
Number of successful extensions: 708
Number of sequences better than 10.0: 1
Number of HSP's gapped: 703
Number of HSP's successfully gapped: 20
Length of query: 190
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 99
Effective length of database: 6,901,388
Effective search space: 683237412
Effective search space used: 683237412
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: 56 (25.3 bits)