RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10809
(136 letters)
>gnl|CDD|214619 smart00325, RhoGEF, Guanine nucleotide exchange factor for
Rho/Rac/Cdc42-like GTPases. Guanine nucleotide exchange
factor for Rho/Rac/Cdc42-like GTPases Also called
Dbl-homologous (DH) domain. It appears that PH domains
invariably occur C-terminal to RhoGEF/DH domains.
Improved coverage.
Length = 180
Score = 87.4 bits (217), Expect = 1e-22
Identities = 36/101 (35%), Positives = 61/101 (60%)
Query: 1 MLLPMLGIYQEYVRNHHYSLQVLTECKQQPEFVQLLKRLEMKPACQGRSLEMFLTFPMHQ 60
L IY EY NH +L++L + K+ P F + LK +E P C+ +LE L P+ +
Sbjct: 80 KLEEFFKIYSEYCSNHPDALELLKKLKKNPRFQKFLKEIESSPQCRRLTLESLLLKPVQR 139
Query: 61 IPRYIVTLHELLAHTPHDHVERKSLQNARQQLEDLSRQMHD 101
+ +Y + L ELL HTP DH +R+ L+ A + +++L+ Q+++
Sbjct: 140 LTKYPLLLKELLKHTPEDHEDREDLKKALKAIKELANQVNE 180
>gnl|CDD|216028 pfam00621, RhoGEF, RhoGEF domain. Guanine nucleotide exchange
factor for Rho/Rac/Cdc42-like GTPases Also called
Dbl-homologous (DH) domain. It appears that pfam00169
domains invariably occur C-terminal to RhoGEF/DH
domains.
Length = 179
Score = 85.3 bits (212), Expect = 6e-22
Identities = 33/99 (33%), Positives = 59/99 (59%), Gaps = 1/99 (1%)
Query: 4 PMLGIYQEYVRNHHYSLQVLTECKQQPE-FVQLLKRLEMKPACQGRSLEMFLTFPMHQIP 62
P +Y Y N+ +L++L + +++ F + LK E P C+G L FL P+ +IP
Sbjct: 81 PFFKVYSTYCSNYPRALELLKKLRKKNPRFAKFLKECEASPLCRGLDLNSFLIKPVQRIP 140
Query: 63 RYIVTLHELLAHTPHDHVERKSLQNARQQLEDLSRQMHD 101
RY + L ELL HTP DH + + L+ A + +++++ Q+++
Sbjct: 141 RYPLLLKELLKHTPPDHPDYEDLKKALEAIKEVASQINE 179
>gnl|CDD|238091 cd00160, RhoGEF, Guanine nucleotide exchange factor for
Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous
(DH) domain. It appears that PH domains invariably occur
C-terminal to RhoGEF/DH domains.
Length = 181
Score = 72.7 bits (179), Expect = 5e-17
Identities = 32/100 (32%), Positives = 56/100 (56%), Gaps = 3/100 (3%)
Query: 2 LLPMLGIYQEYVRNHHYSLQVLTECKQ-QPEFVQLLKRLEMKPACQGRSLEMFLTFPMHQ 60
L P IY EY NH +L++L + K+ F + L++ E C LE L P+ +
Sbjct: 84 LAPFFKIYSEYCSNHPDALELLKKLKKFNKFFQEFLEKAE--SECGRLKLESLLLKPVQR 141
Query: 61 IPRYIVTLHELLAHTPHDHVERKSLQNARQQLEDLSRQMH 100
+ +Y + L ELL HTP H +R+ L+ A + +++++ Q++
Sbjct: 142 LTKYPLLLKELLKHTPDGHEDREDLKKALEAIKEVASQVN 181
>gnl|CDD|235447 PRK05409, PRK05409, hypothetical protein; Provisional.
Length = 281
Score = 31.3 bits (72), Expect = 0.12
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 9/37 (24%)
Query: 100 HDEVSETENLRKNLAVERLIVE--GCDILLDVNQVFV 134
E+SE E L + + E GC +LLDVN V+V
Sbjct: 150 DSEMSEWEFLNE-------LAERTGCGLLLDVNNVYV 179
>gnl|CDD|135173 PRK04654, PRK04654, sec-independent translocase; Provisional.
Length = 214
Score = 29.8 bits (66), Expect = 0.33
Identities = 11/26 (42%), Positives = 19/26 (73%)
Query: 85 LQNARQQLEDLSRQMHDEVSETENLR 110
L+N +QQ+E +R +HD+VS ++R
Sbjct: 77 LRNTQQQVEQGARALHDDVSRDIDIR 102
>gnl|CDD|226997 COG4650, RtcR, Sigma54-dependent transcription regulator containing
an AAA-type ATPase domain and a DNA-binding domain
[Transcription / Signal transduction mechanisms].
Length = 531
Score = 29.9 bits (67), Expect = 0.43
Identities = 16/34 (47%), Positives = 22/34 (64%)
Query: 81 ERKSLQNARQQLEDLSRQMHDEVSETENLRKNLA 114
+ KSL A +QL D+SRQ V++ + LRK LA
Sbjct: 483 QAKSLSAAGRQLFDVSRQGKASVNDADRLRKYLA 516
>gnl|CDD|225761 COG3220, COG3220, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 282
Score = 28.9 bits (65), Expect = 0.73
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 5/34 (14%)
Query: 101 DEVSETENLRKNLAVERLIVEGCDILLDVNQVFV 134
++E E L LA E GC +LLDVN ++V
Sbjct: 150 SAMNEVEFLNA-LARE----AGCGLLLDVNNIYV 178
>gnl|CDD|185700 cd09023, Aldose_epim_Ec_c4013, Aldose 1-epimerase, similar to
Escherichia coli c4013. Proteins, similar to
Escherichia coli c4013, are uncharacterized members of
aldose-1-epimerase superfamily. Aldose 1-epimerases or
mutarotases are key enzymes of carbohydrate metabolism,
catalyzing the interconversion of the alpha- and
beta-anomers of hexose sugars such as glucose and
galactose. This interconversion is an important step
that allows anomer specific metabolic conversion of
sugars. Studies of the catalytic mechanism of the best
known member of the family, galactose mutarotase, have
shown a glutamate and a histidine residue to be critical
for catalysis; the glutamate serves as the active site
base to initiate the reaction by removing the proton
from the C-1 hydroxyl group of the sugar substrate, and
the histidine as the active site acid to protonate the
C-5 ring oxygen.
Length = 284
Score = 28.0 bits (63), Expect = 1.7
Identities = 14/54 (25%), Positives = 25/54 (46%), Gaps = 5/54 (9%)
Query: 67 TLHELLAHTPHDHVERKSLQNARQQLEDLSRQMHDEVSETENLRKNLAVERLIV 120
LH +++TP + V + + ++E + EV E +NL +ER I
Sbjct: 72 PLHGRISNTPAELVGVEEDEEGDYEIE-----VSGEVREAALFGENLRLERTIE 120
>gnl|CDD|217546 pfam03417, AAT, Acyl-coenzyme A:6-aminopenicillanic acid
acyl-transferase.
Length = 223
Score = 27.7 bits (62), Expect = 1.7
Identities = 21/94 (22%), Positives = 33/94 (35%), Gaps = 11/94 (11%)
Query: 15 NHHYSLQVLTECKQQPEFVQLLKRLEMKPACQGRSLEM--------FLTFPMHQIPRYIV 66
H+ ++L EC E V+ LK + P G + + + +
Sbjct: 71 PRHFITRLLLECTSVEEAVKALKEI---PHAAGFNYILLDAAGNIAVVEVSPGSKDISVR 127
Query: 67 TLHELLAHTPHDHVERKSLQNARQQLEDLSRQMH 100
+E LAHT H E + +N Q SR
Sbjct: 128 EANEYLAHTNHFVHEGLTAKNQNQTDSSQSRLER 161
>gnl|CDD|180965 PRK07408, PRK07408, RNA polymerase sigma factor SigF; Reviewed.
Length = 256
Score = 27.6 bits (62), Expect = 2.3
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 8/70 (11%)
Query: 40 EMKPACQGRSLEMFLTFPMHQIPRYIVTLHELLAHTPHDHV------ERKSLQNARQQLE 93
E+K A Q R+ + L P++Q +L +LL P +R LQ A QLE
Sbjct: 148 EIKLALQNRTP-LSLDAPVNQDEDGSTSLGDLLPD-PRYRSFQLAQEDRIRLQQALAQLE 205
Query: 94 DLSRQMHDEV 103
+ +R++ + V
Sbjct: 206 ERTREVLEFV 215
>gnl|CDD|110514 pfam01517, HDV_ag, Hepatitis delta virus delta antigen. The
hepatitis delta virus (HDV) encodes a single protein,
the hepatitis delta antigen (HDAg). The central region
of this protein has been shown to bind RNA. Several
interactions are also mediated by a coiled-coil region
at the N terminus of the protein.
Length = 194
Score = 27.1 bits (60), Expect = 2.9
Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 78 DHVERKSLQNARQQLEDLSRQMHDEVSETENLRK 111
DH RK+L+N ++QL + + E E E LR+
Sbjct: 100 DHRRRKALENKKKQLSSGGKHLSRE--EEEELRR 131
>gnl|CDD|236323 PRK08651, PRK08651, succinyl-diaminopimelate desuccinylase;
Reviewed.
Length = 394
Score = 27.3 bits (61), Expect = 3.3
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 72 LAHTPHDHVERKSLQNARQQLEDL 95
LAH P ++VE K ++ A + E++
Sbjct: 363 LAHAPDEYVEVKDVEKAAKVYEEV 386
>gnl|CDD|152193 pfam11757, RSS_P20, Suppressor of RNA silencing P21-like. This is
a large family of putative suppressors of RNA silencing
proteins, P20-P25, from ssRNA positive-strand viruses
such as Closterovirus, Potyvirus and Cucumovirus
families. RNA silencing is one of the major mechanisms
of defence against viruses, and, in response, some
viruses have evolved or acquired functions for
suppression of RNA silencing. These counter-defencive
viral proteins with RNA silencing suppressor (RSS)
activity were originally discovered in the members of
plant virus genera Potyvirus and Cucumovirus. Each of
the conserved blocks of amino acids found in P21-like
proteins corresponds to a computer-predicted
alpha-helix, with the most C-terminal element being 42
residues long. This suggests conservation of the
predominantly alpha-helical secondary structure in the
P21-like proteins.
Length = 137
Score = 26.4 bits (58), Expect = 3.4
Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 1/50 (2%)
Query: 58 MHQIPRYIVTLHELLAHTPHDHVERKSLQNARQQ-LEDLSRQMHDEVSET 106
+ V + L+H P V R L+ + + DLSR+ + SE
Sbjct: 80 ATDTFGFFVMKYSSLSHVPFSEVMRTKLKLVVKAVISDLSREHKLDFSER 129
>gnl|CDD|183400 PRK12282, PRK12282, tryptophanyl-tRNA synthetase II; Reviewed.
Length = 333
Score = 27.1 bits (61), Expect = 3.5
Identities = 11/27 (40%), Positives = 14/27 (51%), Gaps = 2/27 (7%)
Query: 3 LPMLGIYQEYVR--NHHYSLQVLTECK 27
LPM+ +E VR N Y VL E +
Sbjct: 153 LPMIEQTREIVRRFNSLYGTDVLVEPE 179
>gnl|CDD|113869 pfam05114, DUF692, Protein of unknown function (DUF692). This
family consists of several uncharacterized bacterial
proteins.
Length = 275
Score = 26.6 bits (59), Expect = 3.8
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 122 GCDILLDVNQVFV 134
C +LLDVN ++V
Sbjct: 165 DCGLLLDVNNIYV 177
>gnl|CDD|227709 COG5422, ROM1, RhoGEF, Guanine nucleotide exchange factor for
Rho/Rac/Cdc42-like GTPases [Signal transduction
mechanisms].
Length = 1175
Score = 27.2 bits (60), Expect = 3.9
Identities = 15/59 (25%), Positives = 30/59 (50%)
Query: 50 LEMFLTFPMHQIPRYIVTLHELLAHTPHDHVERKSLQNARQQLEDLSRQMHDEVSETEN 108
L+ +LT P ++ RY + L E+L T D+ + + + L + +++ E + EN
Sbjct: 619 LDGYLTKPTTRLARYPLLLEEVLKFTDPDNPDTEDIPKVIDMLREFLSRLNFESGKAEN 677
>gnl|CDD|237195 PRK12767, PRK12767, carbamoyl phosphate synthase-like protein;
Provisional.
Length = 326
Score = 26.4 bits (59), Expect = 6.1
Identities = 9/35 (25%), Positives = 19/35 (54%)
Query: 8 IYQEYVRNHHYSLQVLTECKQQPEFVQLLKRLEMK 42
I QE++ Y++ VL + + + KR+E++
Sbjct: 184 IIQEFIEGQEYTVDVLCDLNGEVISIVPRKRIEVR 218
>gnl|CDD|165828 PLN02183, PLN02183, ferulate 5-hydroxylase.
Length = 516
Score = 26.4 bits (58), Expect = 6.2
Identities = 16/73 (21%), Positives = 36/73 (49%), Gaps = 12/73 (16%)
Query: 67 TLHELLAHTPHDHVERKSLQNARQQLEDLSRQMHDE----------VSETENLRKNLAVE 116
+L + DH++++ QNA E+ M D+ V+E+++L+ ++ +
Sbjct: 242 SLDGFIDDIIDDHIQKRKNQNADNDSEEAETDMVDDLLAFYSEEAKVNESDDLQNSIKLT 301
Query: 117 RLIVEGCDILLDV 129
R ++ I++DV
Sbjct: 302 RDNIKA--IIMDV 312
>gnl|CDD|218461 pfam05139, Erythro_esteras, Erythromycin esterase. This family
includes erythromycin esterase enzymes that confer
resistance to the erythromycin antibiotic.
Length = 344
Score = 26.1 bits (58), Expect = 6.5
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 6/49 (12%)
Query: 68 LHELLAHTPHDHVERKSL----QNAR--QQLEDLSRQMHDEVSETENLR 110
L LLA+ P QNAR +Q E R M++ E+ NLR
Sbjct: 135 LARLLAYAPRLRDASDEFFWAEQNARLVRQAERYYRAMYEGSPESWNLR 183
>gnl|CDD|237279 PRK13030, PRK13030, 2-oxoacid ferredoxin oxidoreductase; Provisional.
Length = 1159
Score = 26.1 bits (58), Expect = 7.8
Identities = 13/71 (18%), Positives = 25/71 (35%), Gaps = 19/71 (26%)
Query: 61 IPRYIVTLHELLAH-TPHD------------------HVERKSLQNARQQLEDLSRQMHD 101
I Y TL LLA T + HV+ +L + + +L ++
Sbjct: 1089 IDDYEATLERLLAALTAGNLDAAAALAELPDEVRGYGHVKLANLARVKAEEAELLARLGI 1148
Query: 102 EVSETENLRKN 112
+ + + +R
Sbjct: 1149 DAATSAAVRHA 1159
>gnl|CDD|224884 COG1973, HypE, Hydrogenase maturation factor [Posttranslational
modification, protein turnover, chaperones].
Length = 449
Score = 25.9 bits (57), Expect = 8.3
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 99 MHDEVSETENLRKNLAVERLIVEG 122
MHD V ET N+ A E ++ G
Sbjct: 261 MHDVVEETLNVDFIRACEAIVRSG 284
>gnl|CDD|225798 COG3259, FrhA, Coenzyme F420-reducing hydrogenase, alpha subunit
[Energy production and conversion].
Length = 441
Score = 25.8 bits (57), Expect = 8.7
Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 88 ARQQLEDLSRQMHDEVSETENLRKNLAVERLIVEGCDILLDVN 130
AR++L D +++ + T L K L +ER+ E L V
Sbjct: 175 AREKLLDRAKEALELADRTVELFKEL-LERMEEEESYHLGLVK 216
>gnl|CDD|218623 pfam05524, PEP-utilisers_N, PEP-utilising enzyme, N-terminal.
Length = 123
Score = 25.3 bits (56), Expect = 8.8
Identities = 8/26 (30%), Positives = 16/26 (61%)
Query: 82 RKSLQNARQQLEDLSRQMHDEVSETE 107
+L+ AR++LE L+ + + + E E
Sbjct: 41 EAALEKAREELEALAERAAESLGEEE 66
>gnl|CDD|193495 cd03873, Zinc_peptidase_like, Zinc peptidases M18, M20, M28, and
M42. Zinc peptidases play vital roles in metabolic and
signaling pathways throughout all kingdoms of life. This
family corresponds to several clans in the MEROPS
database, including the MH clan, which contains 4
families (M18, M20, M28, M42). The peptidase M20 family
includes carboxypeptidases such as the glutamate
carboxypeptidase from Pseudomonas, the thermostable
carboxypeptidase Ss1 of broad specificity from archaea
and yeast Gly-X carboxypeptidase. The dipeptidases
include bacterial dipeptidase, peptidase V (PepV), a
eukaryotic, non-specific dipeptidase, and two Xaa-His
dipeptidases (carnosinases). There is also the bacterial
aminopeptidase, peptidase T (PepT) that acts only on
tripeptide substrates and has therefore been termed a
tripeptidase. Peptidase family M28 contains
aminopeptidases and carboxypeptidases, and has
co-catalytic zinc ions. However, several enzymes in this
family utilize other first row transition metal ions
such as cobalt and manganese. Each zinc ion is
tetrahedrally co-ordinated, with three amino acid
ligands plus activated water; one aspartate residue
binds both metal ions. The aminopeptidases in this
family are also called bacterial leucyl aminopeptidases,
but are able to release a variety of N-terminal amino
acids. IAP aminopeptidase and aminopeptidase Y
preferentially release basic amino acids while glutamate
carboxypeptidase II preferentially releases C-terminal
glutamates. Glutamate carbxypeptidase II and plasma
glutamate carboxypeptidase hydrolyze dipeptides.
Peptidase families M18 and M42 contain
metalloaminopeptidases. M18 is widely distributed in
bacteria and eukaryotes. However, only yeast
aminopeptidase I and mammalian aspartyl aminopeptidase
have been characterized in detail. Some of M42 (also
known as glutamyl aminopeptidase) enzymes exhibit
aminopeptidase specificity while others also have
acylaminoacylpeptidase activity (i.e. hydrolysis of
acylated N-terminal residues).
Length = 237
Score = 25.5 bits (56), Expect = 9.6
Identities = 7/20 (35%), Positives = 13/20 (65%)
Query: 73 AHTPHDHVERKSLQNARQQL 92
H+P++ V +SL+ A + L
Sbjct: 218 YHSPNETVSLESLEKAIKVL 237
>gnl|CDD|219609 pfam07856, Orai-1, Mediator of CRAC channel activity. ORAI-1 is
a protein homologue of Drosophila Orai and human Orai1,
Orai2 and Orai3. ORAI-1 GFP reporters are co- expressed
with STIM-1 (ER CA(2+) sensors) in the gonad and
intestine. The protein has four predicted transmembrane
domains with a highly conserved region between TM2 ad
TM3. This conserved domain is thought to function in
channel regulation. ORAI1- related proteins are
required for the production of the calcium channel,
CRAC, along with STIM1-related proteins.
Length = 175
Score = 25.4 bits (56), Expect = 9.9
Identities = 7/22 (31%), Positives = 14/22 (63%)
Query: 77 HDHVERKSLQNARQQLEDLSRQ 98
+ +E++ L+ +R QL+ SR
Sbjct: 5 LEDLEQRHLELSRAQLKASSRT 26
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
0.324 0.137 0.399
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: 6,842,296
Number of extensions: 595201
Number of successful extensions: 1110
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1103
Number of HSP's successfully gapped: 58
Length of query: 136
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 49
Effective length of database: 7,078,804
Effective search space: 346861396
Effective search space used: 346861396
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (24.6 bits)