RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10980
(105 letters)
>gnl|CDD|216324 pfam01139, UPF0027, Uncharacterized protein family UPF0027.
Length = 419
Score = 69.2 bits (170), Expect = 3e-15
Identities = 20/52 (38%), Positives = 33/52 (63%), Gaps = 2/52 (3%)
Query: 1 MKDG--RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
+ G R S K V++EAPE+YK++ +VV+ G+ + +L+P+ VIKG
Sbjct: 368 LAGGIVRCRSRKGVLDEAPEAYKDIDEVVEAQEEAGLVRVVARLKPLGVIKG 419
Score = 59.2 bits (144), Expect = 1e-11
Identities = 19/38 (50%), Positives = 27/38 (71%)
Query: 64 FLRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQIL 101
+L ++S+EGQDYL +MAAAAN+AW NR + R+
Sbjct: 230 YLPLDSEEGQDYLAAMAAAANYAWANRQLIAHRVREAF 267
>gnl|CDD|224604 COG1690, RtcB, Uncharacterized conserved protein [Function
unknown].
Length = 432
Score = 64.7 bits (158), Expect = 1e-13
Identities = 20/46 (43%), Positives = 32/46 (69%)
Query: 5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
R S + V++EAPE+YK++ DV++ H G+ + +LRPV V+KG
Sbjct: 387 RATSERGVIDEAPEAYKDIDDVIEASHQSGLVEVVARLRPVGVVKG 432
Score = 53.1 bits (128), Expect = 1e-09
Identities = 17/34 (50%), Positives = 24/34 (70%)
Query: 68 NSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQIL 101
+S++GQ YL +MAAAAN+A NR +T R+ L
Sbjct: 254 DSEDGQAYLAAMAAAANYARANRQLITERVRRAL 287
>gnl|CDD|213769 TIGR03073, release_rtcB, release factor H-coupled RctB family
protein. Members of this family are related to RctB.
RctB a protein of known structure but unknown function
that often is encoded near RNA cyclase and therefore is
suggested to be a tRNA or mRNA processing enzyme. This
family of RctB-like proteins in encoded upstream of, and
apparently is translationally coupled to, the putative
peptide chain release factor RF-H (TIGR03072), product
of the prfH gene. Note that a large deletion at the
junction between this gene and the prfH gene in
Escherichia coli K-12 marks both as probable pseudogenes
[Protein synthesis, Other].
Length = 356
Score = 37.0 bits (86), Expect = 7e-04
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 11 LVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRP 44
L+ EEAPE+YK++ VV G+ K +L+P
Sbjct: 323 LIYEEAPEAYKSIDSVVGALLQAGLIKVVARLKP 356
>gnl|CDD|181972 PRK09588, PRK09588, hypothetical protein; Reviewed.
Length = 376
Score = 36.5 bits (85), Expect = 0.001
Identities = 15/41 (36%), Positives = 23/41 (56%)
Query: 10 KLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
+L+ EEAPE+YK++ V+ G+ +LRPV K
Sbjct: 333 QLIFEEAPEAYKSIESVIQDLVQAGLITPVARLRPVLTYKT 373
>gnl|CDD|240623 cd05199, SDH_like, Saccharopine Dehydrogenase like proteins.
Saccharopine Dehydrogenase (SDH) and related proteins,
including bifunctional lysine ketoglutarate
reductase/SDH enzymes and N(5)-(carboxyethyl)ornithine
synthases. SDH catalyzes the final step in the
reversible NAD-dependent oxidative deamination of
saccharopine to alpha-ketoglutarate and lysine, in the
alpha-aminoadipate pathway of L-lysine biosynthesis. SDH
is structurally related to formate dehydrogenase and
similar enzymes, having a 2-domain structure in which a
Rossmann-fold NAD(P)-binding domain is inserted within
the linear sequence of a catalytic domain of related
structure. Bifunctional lysine ketoglutarate
reductase/SDH protein is a pair of enzymes linked on a
single polypeptide chain that catalyze the initial,
consecutive steps of lysine degradation. These proteins
are related to the 2-domain saccharopine dehydrogenases.
Length = 319
Score = 26.8 bits (60), Expect = 1.9
Identities = 15/61 (24%), Positives = 23/61 (37%), Gaps = 18/61 (29%)
Query: 4 GRVAS-PKLVMEEA------PESYKNVTDVVDTCHAVG-----------ISKKTFKLRPV 45
GRV S V++ PE + V D++ H + K FK+R +
Sbjct: 185 GRVGSGAAEVLKALGIKEVSPEDFLTVADILINGHYWDKRAPRLFTKEDLKKPDFKIRVI 244
Query: 46 A 46
A
Sbjct: 245 A 245
>gnl|CDD|240380 PTZ00362, PTZ00362, hypothetical protein; Provisional.
Length = 479
Score = 27.0 bits (60), Expect = 2.1
Identities = 14/37 (37%), Positives = 20/37 (54%)
Query: 68 NSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQILTSN 104
NS+E QD L+S A +N S F+ + +LTS
Sbjct: 207 NSEEQQDNLESNNEAIYINDINISGPVFINKSLLTSF 243
>gnl|CDD|180701 PRK06801, PRK06801, hypothetical protein; Provisional.
Length = 286
Score = 26.6 bits (59), Expect = 2.2
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 18 ESYKNVTDVVDTCHAVGIS 36
E+ + +VV CHAVG+S
Sbjct: 112 ENVRQTREVVKMCHAVGVS 130
>gnl|CDD|236071 PRK07638, PRK07638, acyl-CoA synthetase; Validated.
Length = 487
Score = 26.3 bits (58), Expect = 3.8
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 5/49 (10%)
Query: 12 VMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG-----QIKSW 55
+ E ES + VD +G+ + +PVA+IKG Q+KS+
Sbjct: 394 IFPEEIESVLHEHPAVDEIVVIGVPDSYWGEKPVAIIKGSATKQQLKSF 442
>gnl|CDD|177916 PLN02277, PLN02277, H(+) -translocating inorganic pyrophosphatase.
Length = 730
Score = 25.5 bits (56), Expect = 6.5
Identities = 13/30 (43%), Positives = 19/30 (63%), Gaps = 4/30 (13%)
Query: 13 MEEAPESYKNVTDVVDTCHAVG-ISKKTFK 41
M + PES + +TD++D AVG +K T K
Sbjct: 477 MSQQPESVREITDLLD---AVGNTTKATTK 503
>gnl|CDD|153073 cd03603, CLECT_VCBS, A bacterial subgroup of the C-type
lectin-like (CTLD) domain; a subgroup of bacterial
protein domains homologous to the
carbohydrate-recognition domains (CRDs) of the C-type
lectins. CLECT_VCBS: A bacterial subgroup of the
C-type lectin-like (CTLD) domain; a subgroup of
bacterial protein domains homologous to the
carbohydrate-recognition domains (CRDs) of the C-type
lectins. Many CTLDs are calcium-dependent carbohydrate
binding modules; other CTLDs bind protein ligands,
lipids, and inorganic surfaces including CaCO3 and ice.
Bacterial CTLDs within this group are functionally
uncharacterized. Animal C-type lectins are involved in
such functions as extracellular matrix organization,
endocytosis, complement activation, pathogen
recognition, and cell-cell interactions. CTLDs may
bind a variety of carbohydrate ligands including
mannose, N-acetylglucosamine, galactose,
N-acetylgalactosamine, and fucose. CTLDs associate
with each other through several different surfaces to
form dimers, trimers, or tetramers from which
ligand-binding sites project in different orientations.
In some CTLDs a loop extends to the adjoining domain
to form a loop-swapped dimer.
Length = 118
Score = 24.7 bits (54), Expect = 7.2
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 67 INSKEGQDYLKSMAAAANFAW 87
INS E D+L S +W
Sbjct: 29 INSAEENDWLLSNFGGYGASW 49
>gnl|CDD|232847 TIGR00155, pqiA_fam, integral membrane protein, PqiA family. This
family consists of uncharacterized predicted integral
membrane proteins found, so far, only in the
Proteobacteria. Of two members in E. coli, one is
induced by paraquat and is designated PqiA,
paraquat-inducible protein A [Unknown function,
General].
Length = 403
Score = 25.2 bits (55), Expect = 9.2
Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 10/53 (18%)
Query: 41 KLRPVAVIKGQIKSW-----YLCGKAESFLRINSKEGQDYLKSMAAAANFAWV 88
+LR V ++ Q+K+W YL G SF+++ Y ++ +
Sbjct: 133 RLREVLLVLFQLKTWVMADIYLVGVGVSFVKV-----MAYASIGVGSSLLPFC 180
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 0.129 0.384
Gapped
Lambda K H
0.267 0.0618 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,046,645
Number of extensions: 398283
Number of successful extensions: 338
Number of sequences better than 10.0: 1
Number of HSP's gapped: 338
Number of HSP's successfully gapped: 20
Length of query: 105
Length of database: 10,937,602
Length adjustment: 70
Effective length of query: 35
Effective length of database: 7,832,822
Effective search space: 274148770
Effective search space used: 274148770
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 (24.4 bits)