RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10746
(59 letters)
>gnl|CDD|128645 smart00351, PAX, Paired Box domain.
Length = 125
Score = 69.3 bits (170), Expect = 2e-17
Identities = 29/33 (87%), Positives = 29/33 (87%)
Query: 16 SHGGVNQLGGVFVNGRPLPDVVRQRIVELAHNG 48
HGGVNQLGGVFVNGRPLPD RQRIVELA NG
Sbjct: 1 GHGGVNQLGGVFVNGRPLPDEERQRIVELAQNG 33
>gnl|CDD|238076 cd00131, PAX, Paired Box domain.
Length = 128
Score = 67.4 bits (165), Expect = 1e-16
Identities = 27/32 (84%), Positives = 29/32 (90%)
Query: 17 HGGVNQLGGVFVNGRPLPDVVRQRIVELAHNG 48
GGVNQLGGVFVNGRPLPD +RQRIVELA +G
Sbjct: 2 QGGVNQLGGVFVNGRPLPDSIRQRIVELAQSG 33
>gnl|CDD|109353 pfam00292, PAX, 'Paired box' domain.
Length = 125
Score = 66.4 bits (162), Expect = 3e-16
Identities = 25/33 (75%), Positives = 29/33 (87%)
Query: 16 SHGGVNQLGGVFVNGRPLPDVVRQRIVELAHNG 48
G VNQLGGVFVNGRPLP+ +RQ+IVELAH+G
Sbjct: 1 GQGRVNQLGGVFVNGRPLPNHIRQKIVELAHSG 33
>gnl|CDD|236343 PRK08868, PRK08868, flagellar protein FlaG; Provisional.
Length = 144
Score = 27.5 bits (61), Expect = 0.30
Identities = 13/28 (46%), Positives = 16/28 (57%), Gaps = 4/28 (14%)
Query: 31 RPLPD----VVRQRIVELAHNGGLLSAK 54
R +PD V +R+ E AHN GLL K
Sbjct: 116 RQIPDEEMLEVLRRLAEQAHNSGLLVEK 143
>gnl|CDD|183907 PRK13235, nifH, nitrogenase reductase; Reviewed.
Length = 274
Score = 27.5 bits (61), Expect = 0.36
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 6 NVTSKNIIKWSHGGVNQLGGVFVNGRPLPDVVRQRIVELAHNGG 49
N K I+K++ G +LGG+ N R + D R+ I ELA G
Sbjct: 161 NNICKGILKYADAGGVRLGGLICNSRKV-DNEREMIEELARKIG 203
>gnl|CDD|233343 TIGR01287, nifH, nitrogenase iron protein. This model describes
nitrogenase (EC 1.18.6.1) iron protein, also called
nitrogenase reductase or nitrogenase component II. This
model includes molybdenum-iron nitrogenase reductase
(nifH), vanadium-iron nitrogenase reductase (vnfH), and
iron-iron nitrogenase reductase (anfH). The model
excludes the homologous protein from the
light-independent protochlorophyllide reductase [Central
intermediary metabolism, Nitrogen fixation].
Length = 275
Score = 27.0 bits (60), Expect = 0.52
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 6 NVTSKNIIKWSHGGVNQLGGVFVNGRPLPD 35
N K I+K++ G +LGG+ N R + D
Sbjct: 159 NNICKGILKYAKSGGVRLGGLICNSRNVDD 188
>gnl|CDD|226052 COG3521, COG3521, Predicted component of the type VI protein
secretion system [Intracellular trafficking, secretion,
and vesicular transport].
Length = 159
Score = 26.2 bits (58), Expect = 0.74
Identities = 10/27 (37%), Positives = 13/27 (48%), Gaps = 2/27 (7%)
Query: 29 NGRPLPDVVRQRIVELAHNGGLLSAKY 55
NG P + R+ EL + LSA Y
Sbjct: 47 NGEAAP--LEVRLYELKDDSKFLSADY 71
>gnl|CDD|183906 PRK13234, nifH, nitrogenase reductase; Reviewed.
Length = 295
Score = 26.3 bits (58), Expect = 0.86
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 6 NVTSKNIIKWSHGGVNQLGGVFVNGR 31
N +K I+K+++ G +LGG+ N R
Sbjct: 163 NNIAKGILKYANSGGVRLGGLICNER 188
>gnl|CDD|177388 PHA02554, 13, neck protein; Provisional.
Length = 311
Score = 25.5 bits (56), Expect = 1.5
Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 11 NIIKWSHGGVNQLGGVFVNGRPLPDVVRQRIVEL 44
+ K H G+ GGV ++GR L + RQ +L
Sbjct: 264 ILAK--HQGMQLPGGVTLDGRRLIEEARQEKEKL 295
>gnl|CDD|178664 PLN03117, PLN03117, Branched-chain-amino-acid aminotransferase;
Provisional.
Length = 355
Score = 25.3 bits (55), Expect = 1.8
Identities = 18/47 (38%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 8 TSKNIIKWSHGGVNQLGGVFVNGRP-----LPDVVRQRIVELAHNGG 49
T KNI + S + L G V+ P LP V R+ I ELA + G
Sbjct: 228 TGKNIEELSACNIFILKGNIVSTPPTSGTILPGVTRKSISELARDIG 274
>gnl|CDD|237312 PRK13236, PRK13236, nitrogenase reductase; Reviewed.
Length = 296
Score = 25.0 bits (54), Expect = 2.4
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 6 NVTSKNIIKWSHGGVNQLGGVFVNGR 31
N ++ I+K++H G +LGG+ N R
Sbjct: 165 NNIARGILKYAHTGGVRLGGLICNSR 190
>gnl|CDD|225087 COG2176, PolC, DNA polymerase III, alpha subunit (gram-positive
type) [DNA replication, recombination, and repair].
Length = 1444
Score = 24.6 bits (54), Expect = 3.9
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 30 GRPLPDVVRQRI 41
G PLP++V QRI
Sbjct: 844 GDPLPEIVEQRI 855
>gnl|CDD|233397 TIGR01405, polC_Gram_pos, DNA polymerase III, alpha chain,
Gram-positive type. This model describes a polypeptide
chain of DNA polymerase III. Full-length homologs of
this protein are restricted to the Gram-positive
lineages, including the Mycoplasmas. This protein is
designated alpha chain and given the gene symbol polC,
but is not a full-length homolog of other polC genes.
The N-terminal region of about 200 amino acids is rich
in low-complexity sequence, poorly alignable, and not
included n this model [DNA metabolism, DNA replication,
recombination, and repair].
Length = 1213
Score = 24.3 bits (53), Expect = 4.2
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 30 GRPLPDVVRQRI 41
G PLP++V QRI
Sbjct: 613 GDPLPEIVEQRI 624
>gnl|CDD|234767 PRK00448, polC, DNA polymerase III PolC; Validated.
Length = 1437
Score = 24.4 bits (54), Expect = 4.2
Identities = 7/12 (58%), Positives = 10/12 (83%)
Query: 30 GRPLPDVVRQRI 41
G PLP++V +RI
Sbjct: 838 GEPLPEIVEKRI 849
>gnl|CDD|238798 cd01557, BCAT_beta_family, BCAT_beta_family: Branched-chain
aminotransferase catalyses the transamination of the
branched-chain amino acids leusine, isoleucine and
valine to their respective alpha-keto acids,
alpha-ketoisocaproate, alpha-keto-beta-methylvalerate
and alpha-ketoisovalerate. The enzyme requires pyridoxal
5'-phosphate (PLP) as a cofactor to catalyze the
reaction. It has been found that mammals have two foms
of the enzyme - mitochondrial and cytosolic forms while
bacteria contain only one form of the enzyme. The
mitochondrial form plays a significant role in skeletal
muscle glutamine and alanine synthesis and in interorgan
nitrogen metabolism.Members of this subgroup are widely
distributed in all three forms of life.
Length = 279
Score = 24.1 bits (53), Expect = 4.5
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 29 NGRPLPDVVRQRIVELAHNGGL 50
+G LP + R I+ELA + G+
Sbjct: 196 DGSILPGITRDSILELARDLGI 217
>gnl|CDD|148309 pfam06626, DUF1152, Protein of unknown function (DUF1152). This
family consists of several hypothetical archaeal
proteins of unknown function.
Length = 297
Score = 24.2 bits (53), Expect = 5.0
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 34 PDVVRQRIVELAHNGGLLSAK 54
+ + QRI E+A GGLL
Sbjct: 174 REYLLQRISEIAREGGLLGIV 194
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
0.320 0.138 0.417
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,035,894
Number of extensions: 212324
Number of successful extensions: 241
Number of sequences better than 10.0: 1
Number of HSP's gapped: 241
Number of HSP's successfully gapped: 16
Length of query: 59
Length of database: 10,937,602
Length adjustment: 31
Effective length of query: 28
Effective length of database: 9,562,628
Effective search space: 267753584
Effective search space used: 267753584
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 (24.2 bits)