RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15078
(70 letters)
>gnl|CDD|238024 cd00068, GGL, G protein gamma subunit-like motifs, the
alpha-helical G-gamma chain dimerizes with the G-beta
propeller subunit as part of the heterotrimeric
G-protein complex; involved in signal transduction via
G-protein-coupled receptors.
Length = 57
Score = 59.6 bits (145), Expect = 4e-14
Identities = 23/57 (40%), Positives = 36/57 (63%), Gaps = 1/57 (1%)
Query: 8 LQQQKQITEQLRREANLKRINVSQAIQDIIKYINEHQHEDCLLVGFSSQKSNPFKEK 64
+ Q K+ EQLR+E + +R+ VS+A +++KY ++ D LL G S SNP+ EK
Sbjct: 1 VDQLKKEVEQLRKELSRERLKVSKAAAELLKYCEQNAENDPLLTGPPS-PSNPWIEK 56
>gnl|CDD|216034 pfam00631, G-gamma, GGL domain. G-protein gamma like domains
(GGL) are found in the gamma subunit of the
heterotrimeric G protein complex and in regulators of G
protein signaling (RGS) proteins. It is also found
fused to an inactive Galpha in the Dictyostelium
protein gbqA. G-gamma likely shares a common origin
with the helical N-terminal unit of G-beta. All
organisms that posses a G-beta possess a G-gamma.
Length = 69
Score = 57.3 bits (139), Expect = 4e-13
Identities = 23/67 (34%), Positives = 34/67 (50%), Gaps = 1/67 (1%)
Query: 4 MITNLQQQKQITEQLRREANLKRINVSQAIQDIIKYINEHQHEDCLLVGFS-SQKSNPFK 62
M + K+ EQL+ E +RI VS+A +++I Y + +D LL G K NP+
Sbjct: 1 MSQLKLRLKREIEQLKEELERERIKVSKACKELIDYCEQRSTKDPLLPGVWPPNKENPWI 60
Query: 63 EKTSCMI 69
EK C
Sbjct: 61 EKDGCCW 67
>gnl|CDD|128520 smart00224, GGL, G protein gamma subunit-like motifs.
Length = 63
Score = 55.7 bits (135), Expect = 1e-12
Identities = 29/64 (45%), Positives = 40/64 (62%), Gaps = 2/64 (3%)
Query: 8 LQQQKQITEQLRREANLKRINVSQAIQDIIKYINEHQHEDCLLVGFSSQKSNPFKE-KTS 66
Q ++ EQLR+E + +RI VS+A ++++ Y +H ED LL G K NPF E KTS
Sbjct: 1 KDQLRKEVEQLRKELSRERIKVSKAAEELLAYCEQHAEEDPLLTGPPPSK-NPFIEDKTS 59
Query: 67 CMIL 70
C IL
Sbjct: 60 CWIL 63
>gnl|CDD|220479 pfam09936, Methyltrn_RNA_4, SAM-dependent RNA methyltransferase.
This family has a Rossmanoid fold, with a deep trefoil
knot in its C-terminal region. It has structural
similarity to RNA methyltransferases, and is likely to
function as an S-adenosyl-L-methionine (SAM)-dependent
RNA 2'-O methyltransferase.
Length = 185
Score = 28.3 bits (64), Expect = 0.19
Identities = 15/69 (21%), Positives = 33/69 (47%), Gaps = 16/69 (23%)
Query: 5 ITNLQQQKQITEQL---------------RREANLKRINVSQAIQDIIKYINEHQHEDCL 49
+T L+ Q+ + E++ R+EA L + V ++++ I+ I + + L
Sbjct: 48 VTPLEAQQALVERILAHWQEGYGGEYNPDRKEA-LSLVKVVSSLEEAIEDIEKRTGQRPL 106
Query: 50 LVGFSSQKS 58
+V S++K
Sbjct: 107 IVATSARKR 115
>gnl|CDD|222842 PHA01972, PHA01972, structural protein.
Length = 828
Score = 28.3 bits (63), Expect = 0.24
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 3/37 (8%)
Query: 14 ITEQLRREANLKRINVSQAI---QDIIKYINEHQHED 47
++L +A K+ V+ AI + K INE D
Sbjct: 61 ARQELVHDAIKKKKRVALAIAKQAEATKKINEVLTAD 97
>gnl|CDD|236686 PRK10416, PRK10416, signal recognition particle-docking protein
FtsY; Provisional.
Length = 318
Score = 27.8 bits (63), Expect = 0.38
Identities = 6/26 (23%), Positives = 15/26 (57%)
Query: 13 QITEQLRREANLKRINVSQAIQDIIK 38
+I E+LR K + + +++++K
Sbjct: 68 EIIEELRERVKRKNLKDPEELKELLK 93
>gnl|CDD|235828 PRK06556, PRK06556, vitamin B12-dependent ribonucleotide reductase;
Validated.
Length = 953
Score = 27.2 bits (61), Expect = 0.65
Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 13 QITEQLRREANLKRINVSQ-AIQDIIKYINEHQH 45
+I Q A LK++ S+ I+ I++YI EH H
Sbjct: 576 KIVNQTVPRA-LKKLGYSEEQIEAIVEYIAEHGH 608
>gnl|CDD|217913 pfam04127, DFP, DNA / pantothenate metabolism flavoprotein. The
DNA/pantothenate metabolism flavoprotein (EC:4.1.1.36)
affects synthesis of DNA, and pantothenate metabolism.
Length = 184
Score = 26.6 bits (60), Expect = 0.86
Identities = 6/20 (30%), Positives = 11/20 (55%)
Query: 35 DIIKYINEHQHEDCLLVGFS 54
DI+ + + + LVGF+
Sbjct: 121 DILAELGKLKKPGQFLVGFA 140
>gnl|CDD|234317 TIGR03703, plsB, glycerol-3-phosphate O-acyltransferase. Members
of this protein family are PlsB, glycerol-3-phosphate
O-acyltransferase, present in E. coli and numerous
related species. In many bacteria, PlsB is not found,
and appears to be replaced by a two enzyme system for
1-acyl-glycerol-3-phosphate biosynthesis, the PlsX/Y
system [Fatty acid and phospholipid metabolism,
Biosynthesis].
Length = 799
Score = 26.4 bits (59), Expect = 1.1
Identities = 10/39 (25%), Positives = 21/39 (53%)
Query: 4 MITNLQQQKQITEQLRREANLKRINVSQAIQDIIKYINE 42
+ L + + +R EA K+I+ +A + +KY++E
Sbjct: 210 LFNKLLASPSVRKAIRDEAKSKKISEEKARKRALKYLDE 248
>gnl|CDD|182986 PRK11131, PRK11131, ATP-dependent RNA helicase HrpA; Provisional.
Length = 1294
Score = 26.2 bits (58), Expect = 1.3
Identities = 15/43 (34%), Positives = 19/43 (44%), Gaps = 8/43 (18%)
Query: 8 LQQQKQITEQLRREANLKRIN------VSQAIQDIIKYINEHQ 44
+ Q Q REA I VSQ QDI++ I +HQ
Sbjct: 50 IAQAAQRVLL--REAARPEITYPENLPVSQKKQDILEAIRDHQ 90
>gnl|CDD|233967 TIGR02666, moaA, molybdenum cofactor biosynthesis protein A,
bacterial. The model for this family describes
molybdenum cofactor biosynthesis protein A, or MoaA, as
found in bacteria. It does not include the family of
probable functional equivalent proteins from the
archaea. MoaA works together with MoaC to synthesize
precursor Z from guanine [Biosynthesis of cofactors,
prosthetic groups, and carriers, Molybdopterin].
Length = 334
Score = 26.0 bits (58), Expect = 1.7
Identities = 8/11 (72%), Positives = 10/11 (90%)
Query: 20 REANLKRINVS 30
+EA LKR+NVS
Sbjct: 109 KEAGLKRVNVS 119
>gnl|CDD|218645 pfam05577, Peptidase_S28, Serine carboxypeptidase S28. These
serine proteases include several eukaryotic enzymes such
as lysosomal Pro-X carboxypeptidase,
dipeptidyl-peptidase II, and thymus-specific serine
peptidase.
Length = 433
Score = 25.8 bits (57), Expect = 1.7
Identities = 7/20 (35%), Positives = 13/20 (65%)
Query: 22 ANLKRINVSQAIQDIIKYIN 41
ANL+ ++ QA+ D+ +I
Sbjct: 82 ANLRYLSSLQALADVASFIK 101
>gnl|CDD|129286 TIGR00182, plsX, fatty acid/phospholipid synthesis protein PlsX.
This protein of fatty acid/phospholipid biosynthesis,
called PlsX after the member in Streptococcus
pneumoniae, is proposed to be a phosphate
acyltransferase that partners with PlsY (TIGR00023) in
a two-step 1-acylglycerol-3-phosphate biosynthesis
pathway alternative to the one-step PlsB (EC 2.3.1.15)
pathway [Fatty acid and phospholipid metabolism,
Biosynthesis].
Length = 322
Score = 25.9 bits (57), Expect = 1.8
Identities = 10/38 (26%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 29 VSQAIQDIIKYINEHQHEDCLLVGFSSQKSNPFKEKTS 66
S+ I ++KY + +Q +LVG P +K
Sbjct: 6 PSEVIDGVLKYASANQDLHIILVG-DKDAIEPHLDKLP 42
>gnl|CDD|232804 TIGR00064, ftsY, signal recognition particle-docking protein
FtsY. There is a weak division between FtsY and SRP54;
both are GTPases. In E.coli, ftsY is an essential gene
located in an operon with cell division genes ftsE and
ftsX, but its apparent function is as the signal
recognition particle docking protein [Protein fate,
Protein and peptide secretion and trafficking].
Length = 272
Score = 25.7 bits (57), Expect = 1.8
Identities = 7/25 (28%), Positives = 17/25 (68%)
Query: 14 ITEQLRREANLKRINVSQAIQDIIK 38
I E L++E K++ ++ +++I+K
Sbjct: 27 IIEALKKELKGKKVKDAELLKEILK 51
>gnl|CDD|217266 pfam02881, SRP54_N, SRP54-type protein, helical bundle domain.
Length = 77
Score = 24.9 bits (55), Expect = 2.0
Identities = 6/27 (22%), Positives = 15/27 (55%)
Query: 12 KQITEQLRREANLKRINVSQAIQDIIK 38
++I E+L+ K ++ + I+ +K
Sbjct: 48 EKIIERLKELVGRKGLSDPEEIKKALK 74
>gnl|CDD|236567 PRK09559, PRK09559, putative global regulator; Reviewed.
Length = 327
Score = 25.4 bits (56), Expect = 2.6
Identities = 11/29 (37%), Positives = 17/29 (58%), Gaps = 3/29 (10%)
Query: 3 MMITNLQQQKQITEQLRREANLKRINVSQ 31
+++T+ +TE+LR EA L N SQ
Sbjct: 162 LLVTDEATANMLTEKLRGEAQL---NNSQ 187
>gnl|CDD|115749 pfam07115, DUF1371, Protein of unknown function (DUF1371). This
family consists of several hypothetical bacterial
proteins of around 110 residues in length. The function
of this family is unknown but members seem to be
specific to Borrelia burgdorferi (Lyme disease
spirochete).
Length = 110
Score = 24.8 bits (54), Expect = 3.2
Identities = 14/31 (45%), Positives = 19/31 (61%)
Query: 5 ITNLQQQKQITEQLRREANLKRINVSQAIQD 35
I NL+ K ++ +E NL INVS +IQD
Sbjct: 60 INNLEAVKNYFLEISKELNLDLINVSPSIQD 90
>gnl|CDD|183880 PRK13184, pknD, serine/threonine-protein kinase; Reviewed.
Length = 932
Score = 25.1 bits (55), Expect = 3.5
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 29 VSQAIQDIIKYINEHQHEDCLLV 51
+ Q +Q I Y++E + D LLV
Sbjct: 786 IIQLLQLIYDYVSEEERHDHLLV 808
>gnl|CDD|233618 TIGR01887, dipeptidaselike, dipeptidase, putative. This model
represents a clade of probable zinc dipeptidases,
closely related to the characterized non-specific
dipeptidase, PepV. Many enzymes in this clade have been
given names including the terms "Xaa-His" and
"carnosinase" due to the early mis-characterization of
the Lactobacillus delbrueckii PepV enzyme. These names
are likely too specific.
Length = 447
Score = 25.0 bits (55), Expect = 3.5
Identities = 6/24 (25%), Positives = 16/24 (66%)
Query: 24 LKRINVSQAIQDIIKYINEHQHED 47
L ++N++ + ++++ E+ HED
Sbjct: 273 LAQLNLAGGAKAFLQFLAEYLHED 296
>gnl|CDD|131423 TIGR02370, pyl_corrinoid, methyltransferase cognate corrinoid
proteins, Methanosarcina family. This model describes a
subfamily of the B12 binding domain (pfam02607,
pfam02310) proteins. Members of the seed alignment
include corrinoid proteins specific to four different,
mutally non-homologous enzymes of the genus
Methanosarcina. Three of the four cognate enzymes
(trimethylamine, dimethylamine, and monomethylamine
methyltransferases) all have the unusual, ribosomally
incorporated amino acid pyrrolysine at the active site.
All act in systems in which a methyl group is
transferred to the corrinoid protein to create
methylcobalamin, from which the methyl group is later
transferred elsewhere.
Length = 197
Score = 24.8 bits (54), Expect = 3.6
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 3 MMITNLQQQKQITEQLRRE 21
+M T + QK I ++L+ E
Sbjct: 144 LMTTTMYGQKDINDKLKEE 162
>gnl|CDD|203795 pfam07889, DUF1664, Protein of unknown function (DUF1664). The
members of this family are hypothetical plant proteins
of unknown function. The region featured in this family
is approximately 100 amino acids long.
Length = 125
Score = 24.7 bits (54), Expect = 3.6
Identities = 12/41 (29%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 2 DMMITNLQQQKQITEQLRREANLKRINVSQAIQDIIKYINE 42
D + L +QK+I+E R E R ++S I + +K +++
Sbjct: 70 DNLDDKLDEQKEISESTRDEVTEIREDLSN-IGEDVKSVHQ 109
>gnl|CDD|177311 PHA01547, PHA01547, putative internal virion protein A.
Length = 206
Score = 25.0 bits (54), Expect = 3.8
Identities = 10/35 (28%), Positives = 20/35 (57%), Gaps = 4/35 (11%)
Query: 7 NLQQQKQITEQ--LRREANLKRINVSQAIQDIIKY 39
N +++ +I Q R++A+L+ N+ A QD+
Sbjct: 21 NKEERNKIKAQNKARKKADLR--NLGAAAQDVSNL 53
>gnl|CDD|234672 PRK00164, moaA, molybdenum cofactor biosynthesis protein A;
Reviewed.
Length = 331
Score = 24.7 bits (55), Expect = 4.2
Identities = 6/11 (54%), Positives = 9/11 (81%)
Query: 20 REANLKRINVS 30
++A L R+NVS
Sbjct: 115 KDAGLDRVNVS 125
>gnl|CDD|200557 cd10931, CE4_u7, Putative catalytic domain of uncharacterized
bacterial proteins from the carbohydrate esterase 4
superfamily. This family corresponds to a group of
uncharacterized bacterial proteins with high sequence
similarity to the catalytic domain of the six-stranded
barrel rhizobial NodB-like proteins, which remove
N-linked or O-linked acetyl groups from cell wall
polysaccharides and belong to the larger carbohydrate
esterase 4 (CE4) superfamily.
Length = 224
Score = 24.5 bits (54), Expect = 4.9
Identities = 9/42 (21%), Positives = 15/42 (35%), Gaps = 3/42 (7%)
Query: 17 QLRREANLKRINVS---QAIQDIIKYINEHQHEDCLLVGFSS 55
+ N S I+ +IK I + E L ++S
Sbjct: 35 LAGDYSPYDDGNYSYNDPKIRSLIKEIADRGWEIGLHGSYNS 76
>gnl|CDD|227345 COG5012, COG5012, Predicted cobalamin binding protein [General
function prediction only].
Length = 227
Score = 24.6 bits (54), Expect = 5.1
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 4 MITNLQQQKQITEQLRRE 21
M T + K + E L+ E
Sbjct: 165 MTTTMIGMKDVIELLKEE 182
>gnl|CDD|235325 PRK04974, PRK04974, glycerol-3-phosphate acyltransferase;
Validated.
Length = 818
Score = 24.4 bits (54), Expect = 5.4
Identities = 11/39 (28%), Positives = 20/39 (51%)
Query: 4 MITNLQQQKQITEQLRREANLKRINVSQAIQDIIKYINE 42
+ L I + + EA K+I+ +A Q+ I Y++E
Sbjct: 220 LFNKLLASPAIKKAIEDEAKSKKISHEKARQNAIAYMDE 258
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 24.6 bits (54), Expect = 5.6
Identities = 7/19 (36%), Positives = 15/19 (78%)
Query: 20 REANLKRINVSQAIQDIIK 38
R+A+LK++ ++ IQ++ K
Sbjct: 475 RDASLKQLMNNKEIQNLFK 493
>gnl|CDD|180749 PRK06920, dnaE, DNA polymerase III DnaE; Reviewed.
Length = 1107
Score = 24.0 bits (52), Expect = 9.3
Identities = 12/39 (30%), Positives = 20/39 (51%)
Query: 21 EANLKRINVSQAIQDIIKYINEHQHEDCLLVGFSSQKSN 59
EA+L R VS+ +DI+ +H + CL G+ +
Sbjct: 674 EADLLRRAVSKKNRDILDQERKHFVQGCLQNGYDETSAE 712
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
0.319 0.130 0.356
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,252,006
Number of extensions: 230600
Number of successful extensions: 489
Number of sequences better than 10.0: 1
Number of HSP's gapped: 485
Number of HSP's successfully gapped: 38
Length of query: 70
Length of database: 10,937,602
Length adjustment: 40
Effective length of query: 30
Effective length of database: 9,163,442
Effective search space: 274903260
Effective search space used: 274903260
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: 53 (24.1 bits)