RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11458
(159 letters)
>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 = 51.4 bits (124), Expect = 9e-09
Identities = 22/59 (37%), Positives = 32/59 (54%)
Query: 70 EAFQRAAATFCSRQQIALESLRERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLR 128
F + +T+CS ALE L++ R+K+ R FL E E +PLCR L L + + R
Sbjct: 80 APFFKVYSTYCSNYPRALELLKKLRKKNPRFAKFLKECEASPLCRGLDLNSFLIKPVQR 138
>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 = 43.4 bits (103), Expect = 7e-06
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 72 FQRAAATFCSRQQIALESLRERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLR 128
F + + +CS ALE L ++ +K+ R FL E E +P CRRL L+ ++ + R
Sbjct: 84 FFKIYSEYCSNHPDALE-LLKKLKKNPRFQKFLKEIESSPQCRRLTLESLLLKPVQR 139
>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 = 37.7 bits (88), Expect = 8e-04
Identities = 16/59 (27%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 70 EAFQRAAATFCSRQQIALESLRERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLR 128
F + + +CS ALE L++ ++ + FL +AE C RL+L+ ++ + R
Sbjct: 85 APFFKIYSEYCSNHPDALELLKKLKKFNKFFQEFLEKAESE--CGRLKLESLLLKPVQR 141
>gnl|CDD|221243 pfam11817, Foie-gras_1, Foie gras liver health family 1. Mutating
the gene foie gras in zebrafish has been shown to affect
development; the mutants develop large, lipid-filled
hepatocytes in the liver, resembling those in
individuals with fatty liver disease. Foie-gras protein
is long and has several well-defined domains though none
of them has a known function. We have annotated this one
as the first. The C-terminus of this region contains TPR
repeats.
Length = 215
Score = 30.8 bits (70), Expect = 0.19
Identities = 8/70 (11%), Positives = 19/70 (27%)
Query: 15 SESDYTYIDIVSQNDIYAGNDCRWSPGYWKICNEYCEYQNQEYQMNMEYFDGAAGEAFQR 74
++ + + + PGY+ + + + E +
Sbjct: 72 DKAGIPGLTPLQTQFGLQYLELLHHPGYYYYKAADHLMRRRALAEQIPEGQSPIIELLSK 131
Query: 75 AAATFCSRQQ 84
A F R+Q
Sbjct: 132 AYEEFKKRKQ 141
>gnl|CDD|225461 COG2909, MalT, ATP-dependent transcriptional regulator
[Transcription].
Length = 894
Score = 30.8 bits (70), Expect = 0.31
Identities = 16/53 (30%), Positives = 21/53 (39%), Gaps = 4/53 (7%)
Query: 66 GAAGEAFQRAAATFCSRQQIALESLRERRRKDSRLNAFLTEAELNPLCRRLQL 118
A F + +R+QI L L E L + LTE L R L+L
Sbjct: 689 DKANAHFPQLQWRLIAREQILLGILLEAELALDELASRLTED----LNRNLRL 737
>gnl|CDD|187725 cd08823, FMT_core_like_5, Formyl transferase catalytic core domain
found in a group of proteins with unknown functions.
Formyl transferase catalytic core domain found in a
group of proteins with unknown functions. Formyl
transferase catalyzes the transfer of one-carbon groups,
specifically the formyl- or hydroxymethyl- group. This
domain contains a Rossmann fold and it is the catalytic
domain of the enzyme.
Length = 177
Score = 29.0 bits (65), Expect = 0.73
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 114 RRLQLKDIIPTGMLREQTS--YSSLHVQKILTFIFPWRL 150
RRL K + T L+EQ + +L ++ F FP+R+
Sbjct: 46 RRLVSKQRVDTANLKEQLAEWLRALAADTVVVFTFPYRI 84
>gnl|CDD|215948 pfam00494, SQS_PSY, Squalene/phytoene synthase.
Length = 262
Score = 28.8 bits (65), Expect = 1.2
Identities = 13/57 (22%), Positives = 18/57 (31%), Gaps = 3/57 (5%)
Query: 62 EYFDGAAGEAFQRAAATFCSRQQIALESLR---ERRRKDSRLNAFLTEAELNPLCRR 115
G + RA A R + E + D + + T AEL C R
Sbjct: 63 GRRLGPSTHPVLRALADTVRRYGLPREPFLELIDGMEMDLEKDRYETLAELEEYCYR 119
>gnl|CDD|222568 pfam14136, DUF4303, Domain of unknown function (DUF4303). This
family of proteins is functionally uncharacterized.
This family of proteins is found in bacteria. Proteins
in this family are typically between 169 and 192 amino
acids in length.
Length = 155
Score = 27.3 bits (61), Expect = 2.4
Identities = 12/75 (16%), Positives = 20/75 (26%), Gaps = 19/75 (25%)
Query: 1 MTPPPVVNGGRRSYSESDYTYIDIVSQNDIYAGNDCRWSPGYWKICNEYCEYQN------ 54
MT N +E +D +WSP W + E +
Sbjct: 33 MTVGLAAN------TEEALEREASDYPDDDS---YYKWSPAEWPYEDFGDELFDEINKLL 83
Query: 55 ----QEYQMNMEYFD 65
+ Y + F+
Sbjct: 84 AERSERYDNEDDDFE 98
>gnl|CDD|233598 TIGR01851, argC_other, N-acetyl-gamma-glutamyl-phosphate reductase,
uncommon form. This model represents the less common of
two related families of
N-acetyl-gamma-glutamyl-phosphate reductase, an enzyme
catalyzing the third step or Arg biosynthesis from Glu.
The two families differ by phylogeny, similarity
clustering, and gap architecture in a multiple sequence
alignment [Amino acid biosynthesis, Glutamate family].
Length = 310
Score = 27.9 bits (62), Expect = 2.5
Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 63 YFDGAAGEAFQRAAATFCSRQQIALESLRERRRKDSRLNA-FLTEAELNPLC 113
+ DG AG + R I L S+ RRKD+ A L A++ LC
Sbjct: 5 FIDGEAGTTGLQIRERLSGRDDIELLSIAPDRRKDAAERAKLLNAADVAILC 56
>gnl|CDD|237004 PRK11863, PRK11863, N-acetyl-gamma-glutamyl-phosphate reductase;
Provisional.
Length = 313
Score = 27.8 bits (63), Expect = 2.5
Identities = 18/54 (33%), Positives = 25/54 (46%), Gaps = 9/54 (16%)
Query: 65 DGAAG----EAFQRAAATFCSRQQIALESLRERRRKDSRLNA-FLTEAELNPLC 113
DG AG + +R A R I L S+ E +RKD+ L A++ LC
Sbjct: 8 DGEAGTTGLQIRERLAG----RSDIELLSIPEAKRKDAAARRELLNAADVAILC 57
>gnl|CDD|182619 PRK10651, PRK10651, transcriptional regulator NarL; Provisional.
Length = 216
Score = 27.3 bits (61), Expect = 2.8
Identities = 15/47 (31%), Positives = 19/47 (40%), Gaps = 4/47 (8%)
Query: 70 EAFQRAAA--TFCSRQ--QIALESLRERRRKDSRLNAFLTEAELNPL 112
+A Q+AAA S + SLR R R LT E + L
Sbjct: 118 KALQQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRERDIL 164
>gnl|CDD|205321 pfam13140, DUF3980, Domain of unknown function (DUF3980). This
presumed domain is functionally uncharacterized. This
domain family is found in bacteria, and is approximately
90 amino acids in length.
Length = 87
Score = 26.3 bits (58), Expect = 3.4
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 126 MLREQTSYSSLHVQKILTFIF 146
M +EQTSY S+ + KI++ I+
Sbjct: 1 MEQEQTSYLSIKILKIMSVIY 21
>gnl|CDD|223860 COG0789, SoxR, Predicted transcriptional regulators
[Transcription].
Length = 124
Score = 26.2 bits (58), Expect = 4.9
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 1 MTPPPVVNGGRRSYSESDYTYIDIV 25
++P GG R Y+ D + I+
Sbjct: 26 LSPERRDEGGYRYYTPEDLELLQII 50
>gnl|CDD|227032 COG4688, COG4688, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 665
Score = 26.5 bits (58), Expect = 7.0
Identities = 19/61 (31%), Positives = 25/61 (40%), Gaps = 1/61 (1%)
Query: 74 RAAATFCSRQQI-ALESLRERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLREQTS 132
RAAA S +I E +R+R K AF L R L L + T +L Q +
Sbjct: 117 RAAAFLKSEDEIRDSEEIRKRAEKLPERRAFRIGMTEPKLSRFLCLNSMTVTAVLLWQRN 176
Query: 133 Y 133
Sbjct: 177 R 177
>gnl|CDD|222892 PHA02586, 68, prohead core protein; Provisional.
Length = 140
Score = 25.9 bits (57), Expect = 7.4
Identities = 8/28 (28%), Positives = 15/28 (53%)
Query: 71 AFQRAAATFCSRQQIALESLRERRRKDS 98
A+Q + R+QIA ++ + +R S
Sbjct: 92 AYQTTGLSKAKRRQIARKAAKTKRANPS 119
>gnl|CDD|198066 smart00998, ADSL_C, Adenylosuccinate lyase C-terminus.
Adenylosuccinate lyase catalyses two steps in the
synthesis of purine nucleotides: the conversion of
succinylaminoimidazole-carboxamide ribotide into
aminoimidazole-carboxamide ribotide (the fifth step of
de novo IMP biosynthesis); the formation of adenosine
monophosphate (AMP) from adenylosuccinate (the final
step in the synthesis of AMP from IMP). This entry
represents the C-terminal, seven alpha-helical, domain
of adenylosuccinate lyase.
Length = 81
Score = 25.1 bits (56), Expect = 7.7
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 6/37 (16%)
Query: 83 QQIALE------SLRERRRKDSRLNAFLTEAELNPLC 113
Q+ A++ LRE D + A+L+E EL L
Sbjct: 28 QRAAMKAWEEGKDLRELLLADPEVTAYLSEEELEELF 64
>gnl|CDD|224478 COG1562, ERG9, Phytoene/squalene synthetase [Lipid metabolism].
Length = 288
Score = 26.2 bits (58), Expect = 7.9
Identities = 10/45 (22%), Positives = 15/45 (33%), Gaps = 1/45 (2%)
Query: 71 AFQRAAATFCSRQQIALESLRERRRKDSRLNAFLTEAELNPLCRR 115
A A F ++ +L + R D +L EL C
Sbjct: 90 ALVEVARRFGLPREA-FPALIDAMRMDLDRTRYLDFEELEEYCYG 133
>gnl|CDD|236231 PRK08308, PRK08308, acyl-CoA synthetase; Validated.
Length = 414
Score = 26.2 bits (58), Expect = 8.6
Identities = 11/28 (39%), Positives = 13/28 (46%), Gaps = 3/28 (10%)
Query: 65 DGAAGEAFQRAAATFCSRQQIALESLRE 92
D AGE R A S ++I LRE
Sbjct: 349 DPVAGE---RVKAKVISHEEIDPVQLRE 373
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 0.135 0.425
Gapped
Lambda K H
0.267 0.0865 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,230,509
Number of extensions: 717701
Number of successful extensions: 615
Number of sequences better than 10.0: 1
Number of HSP's gapped: 613
Number of HSP's successfully gapped: 29
Length of query: 159
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 70
Effective length of database: 6,990,096
Effective search space: 489306720
Effective search space used: 489306720
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 (21.9 bits)
S2: 55 (24.7 bits)