RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10296
(116 letters)
>gnl|CDD|218212 pfam04685, DUF608, Protein of unknown function, DUF608. This
family represents a conserved region with a pankaryotic
distribution in a number of uncharacterized proteins.
Length = 357
Score = 111 bits (279), Expect = 1e-30
Identities = 42/105 (40%), Positives = 57/105 (54%), Gaps = 2/105 (1%)
Query: 1 MADQLCGYLFLKASGVNTEAIFPSANIARALATIFSTNVRGFEAGSMGAVNGMKPNGDRD 60
MADQL G + + G+ + I AL +I+ N + F G GAVNGM P+G D
Sbjct: 223 MADQLLGQWYARLLGL--GDVLDEEKIKSALRSIYKYNFKKFLNGEAGAVNGMWPDGSVD 280
Query: 61 RSAIQSEEVWTGVTYLLSAAMLYEGNVDEAWTTAGGLYRRLREDR 105
++QS EVWTG+ Y L+A M+ EG V+E A G+Y R
Sbjct: 281 TPSVQSLEVWTGIEYALAAHMIQEGMVEEGLKIAKGVYDRYDGRL 325
>gnl|CDD|226800 COG4354, COG4354, Predicted bile acid beta-glucosidase
[Carbohydrate transport and metabolism].
Length = 721
Score = 58.3 bits (141), Expect = 3e-11
Identities = 31/104 (29%), Positives = 51/104 (49%), Gaps = 6/104 (5%)
Query: 1 MADQLCGYLFLKASGVNTEAIFPSANIARALATIFSTNVRGFEAGSMGAVNGMKPNGDRD 60
+A QLCG + A+ + I I AL +I+ N F A A NG++P+G
Sbjct: 582 LASQLCGQFY--ATLLGLPDIVDHDKIKSALESIYDLN---FNASEYCAANGVRPDGSPV 636
Query: 61 -RSAIQSEEVWTGVTYLLSAAMLYEGNVDEAWTTAGGLYRRLRE 103
++Q VW G+ + L+A M+ G DE + A ++ +L+
Sbjct: 637 NPLSVQPLSVWPGINFALAAHMIQMGMKDEGFELAENVWNQLKN 680
>gnl|CDD|239861 cd04396, RhoGAP_fSAC7_BAG7, RhoGAP_fSAC7_BAG7: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain of fungal SAC7 and BAG7-like proteins.
Both proteins are GTPase activating proteins of Rho1,
but differ functionally in vivo: SAC7, but not BAG7, is
involved in the control of Rho1-mediated activation of
the PKC-MPK1 pathway. Small GTPases cluster into
distinct families, and all act as molecular switches,
active in their GTP-bound form but inactive when
GDP-bound. The Rho family of GTPases activates
effectors involved in a wide variety of developmental
processes, including regulation of cytoskeleton
formation, cell proliferation and the JNK signaling
pathway. GTPases generally have a low intrinsic GTPase
hydrolytic activity but there are family-specific
groups of GAPs that enhance the rate of GTP hydrolysis
by several orders of magnitude.
Length = 225
Score = 28.9 bits (65), Expect = 0.50
Identities = 14/35 (40%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 6 CGYLFLKASGVNTEAIFP---SANIARALATIFST 37
CG ++LK + E IF S+ R L IFST
Sbjct: 39 CG-VYLKENATEVEGIFRVAGSSKRIRELQLIFST 72
>gnl|CDD|223719 COG0646, MetH, Methionine synthase I (cobalamin-dependent),
methyltransferase domain [Amino acid transport and
metabolism].
Length = 311
Score = 26.1 bits (58), Expect = 5.0
Identities = 11/32 (34%), Positives = 13/32 (40%)
Query: 24 SANIARALATIFSTNVRGFEAGSMGAVNGMKP 55
+A IAR A F AGS+G N
Sbjct: 98 AARIARRAADEAGDPKPRFVAGSIGPTNKTLS 129
>gnl|CDD|189052 cd09882, PIN_MtRv0301, PIN domain of the Rv0301 toxin of
Mycobacterium tuberculosis and other uncharacterized,
annotated PilT protein domain proteins. Virulence
associated protein C (VapC)-like PIN (PilT N terminus)
domain of Mycobacterium tuberculosis protein Rv0301 and
similar bacterial proteins are included in this
subfamily. They are PIN domain homologs of the
Mycobacterium tuberculosis VapC and Neisseria
gonorrhoeae FitB toxins of the prokaryotic
toxin/antitoxin operons, VapBC and FitAB, respectively,
which are believed to be involved in growth inhibition
by regulating translation. These toxins are nearly
always co-expressed with an antitoxin, a cognate protein
inhibitor, forming an inert protein complex.
Disassociation of the protein complex activates the
ribonuclease activity of the toxin by an, as yet
undefined mechanism. VapC-like PIN domains are homologs
of flap endonuclease-1 (FEN1)-like PIN domains, but lack
the extensive arch/clamp region and the H3TH
(helix-3-turn-helix) domain, an atypical
helix-hairpin-helix-2-like region, seen in FEN1-like PIN
domains. PIN domains within this subgroup contain four
highly conserved acidic residues. These putative active
site residues are thought to bind Mg2+ and/or Mn2+ ions
and be essential for single-stranded ribonuclease
activity.
Length = 128
Score = 25.3 bits (56), Expect = 7.2
Identities = 9/41 (21%), Positives = 15/41 (36%)
Query: 62 SAIQSEEVWTGVTYLLSAAMLYEGNVDEAWTTAGGLYRRLR 102
+SE+ + + L + L + A L R LR
Sbjct: 43 QGAKSEKDFARLRRYLDSLFLLPPTTARDFIRAAELQRALR 83
>gnl|CDD|217911 pfam04123, DUF373, Domain of unknown function (DUF373). Archaeal
domain of unknown function. Predicted to be an integral
membrane protein with six transmembrane regions.
Length = 344
Score = 25.3 bits (56), Expect = 8.3
Identities = 9/44 (20%), Positives = 16/44 (36%), Gaps = 2/44 (4%)
Query: 66 SEEVWTGVTYLLSAAMLYEG-NVDEAWTTAGGLYRR-LREDRVS 107
+ +L +LY G +D+ R L E R++
Sbjct: 182 PAYALGVILLILGLYLLYRGFGLDDFLRELLKRVRESLYEGRIT 225
>gnl|CDD|235501 PRK05559, PRK05559, DNA topoisomerase IV subunit B; Reviewed.
Length = 631
Score = 25.4 bits (57), Expect = 8.5
Identities = 13/52 (25%), Positives = 23/52 (44%), Gaps = 10/52 (19%)
Query: 37 TNVRGFEAGSMGAVN------GMKPNGDRDRSAIQSEEVWTGVTYLLSAAML 82
T+ GF G + AV + P G + ++ E+V G+ +LS +
Sbjct: 282 THENGFREGLLKAVREFAEKRNLLPKGKK----LEGEDVREGLAAVLSVKIP 329
>gnl|CDD|129816 TIGR00733, TIGR00733, putative oligopeptide transporter, OPT
family. This protein represents a small family of
integral membrane proteins from Gram-negative bacteria,
a Gram-positive bacteria, and an archaeal species.
Members of this family contain 15 to 18 GES predicted
transmembrane regions, and this family has extensive
homology to a family of yeast tetrapeptide transporters,
including isp4 (Schizosaccharomyces pombe) and Opt1
(Candida albicans). EspB, an apparent equivalog from
Myxococcus xanthus, shares an operon with a two
component system regulatory protein, and is required for
the normal timing of sporulation after the aggregation
of cells. This is consistent with a role in transporting
oligopeptides as signals across the membrane [Transport
and binding proteins, Amino acids, peptides and amines].
Length = 591
Score = 25.2 bits (55), Expect = 9.6
Identities = 7/30 (23%), Positives = 11/30 (36%)
Query: 19 EAIFPSANIARALATIFSTNVRGFEAGSMG 48
+ TI+ST VR G++
Sbjct: 227 MGSPGDLSALDLAWTIWSTKVRYIGVGAIV 256
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
0.316 0.132 0.389
Gapped
Lambda K H
0.267 0.0734 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,894,029
Number of extensions: 495709
Number of successful extensions: 390
Number of sequences better than 10.0: 1
Number of HSP's gapped: 388
Number of HSP's successfully gapped: 17
Length of query: 116
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 37
Effective length of database: 7,433,636
Effective search space: 275044532
Effective search space used: 275044532
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.2 bits)