RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9348
(308 letters)
>gnl|CDD|222296 pfam13660, DUF4147, Domain of unknown function (DUF4147). This
domain is frequently found at the N-terminus of proteins
carrying the glycerate kinase-like domain MOFRL,
pfam05161.
Length = 227
Score = 247 bits (633), Expect = 3e-82
Identities = 94/240 (39%), Positives = 137/240 (57%), Gaps = 18/240 (7%)
Query: 7 IYEAAVSAVNGQNLIQANVRLEKNKLIIRDQTVLIKNNVYLIGFGKAVLGMAVEIEAMFR 66
I++AAV+A + + ++ + L+ L + ++G GKA MA E
Sbjct: 6 IFDAAVAAADPERAVRRALPLDPAGLSKYG-------RIVVVGAGKAAAAMAAAAEEAL- 57
Query: 67 PQRLKGILSVPFGSVGILKPQFNKNSEIEIRECARNNLPDEASCQNTQLIQNFVKHCTKD 126
RL+G++ +G L IE+ E A + +PDEA + + I V T+D
Sbjct: 58 GDRLEGLVVTRYGHAVPLPR-------IEVLE-AGHPVPDEAGVRAARRILELVSGLTED 109
Query: 127 DVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVRKKLSDVKGGQLA 186
D+VLVLISGGGSA L +P ++LEDK + L+ SGA+I+E+N VRK LS +KGG+LA
Sbjct: 110 DLVLVLISGGGSALLPAPAEGITLEDKQAVTRALLASGADIQEINAVRKHLSRIKGGRLA 169
Query: 187 EIVYPATLVSLIISDIVGDPLQDIASGPTVLNEDLWSDARDIVIKYGLQNKVSKSVMTIL 246
PA +VSLIISD+ GD L IASGPTV + ++DA I+ +YGL+ + +SV L
Sbjct: 170 RAAAPARVVSLIISDVPGDDLSVIASGPTVPDPTTFADALAILERYGLE--LPESVRAHL 227
>gnl|CDD|225254 COG2379, GckA, Putative glycerate kinase [Carbohydrate transport
and metabolism].
Length = 422
Score = 220 bits (562), Expect = 5e-69
Identities = 114/305 (37%), Positives = 166/305 (54%), Gaps = 25/305 (8%)
Query: 7 IYEAAVSAVNGQNLIQANVRLEKNKLIIRDQTVLIKNNVYLIGFGKAVLGMAVEIEAMFR 66
+++AAV+A + + A++ + K +IG GKA MA E ++
Sbjct: 13 LFDAAVAAADPYRALAAHLPVLP-----------PKGRTIVIGAGKASAEMARAFEEHWK 61
Query: 67 PQRLKGILSVPFGSVGILKPQFNKNSEIEIRECARNNLPDEASCQNTQLIQNFVKHCTKD 126
L G++ P+G G IE+ E A + +PDEAS + ++ + V T+D
Sbjct: 62 GP-LAGVVVTPYGYGGPCP-------RIEVIE-AGHPVPDEASLKASRRLLELVSGLTED 112
Query: 127 DVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVRKKLSDVKGGQLA 186
D+V+VLISGGGSA L P ++LED + + L++SGA I E+N VRK LS VKGG+LA
Sbjct: 113 DLVIVLISGGGSALLELPAEGITLEDLIAVNRALLKSGAPISEMNTVRKHLSRVKGGRLA 172
Query: 187 EIVYPATLVSLIISDIVGDPLQDIASGPTVLNEDLWSDARDIVIKYGLQNKVSKSVMTIL 246
PA +VSLIISD+ GD IASGPTV + DA ++ +YG+ + +SV L
Sbjct: 173 AAAKPAKVVSLIISDVPGDDPSVIASGPTVPDPTTREDALAVLERYGIA--LPESVRAHL 230
Query: 247 ---SHETPHQDTKYFENVHNHIIGNNRAALLGAKWKAESLGFQTVILSSDIEGLGDDICR 303
ETP + F NV N II +NR +L A +A +LGF+ VIL IEG ++ R
Sbjct: 231 ESERAETPKPGDERFANVENRIIASNRLSLEAAASEARALGFKAVILGDTIEGEAREVGR 290
Query: 304 GYVDL 308
+ +
Sbjct: 291 VHASI 295
>gnl|CDD|237654 PRK14278, PRK14278, chaperone protein DnaJ; Provisional.
Length = 378
Score = 30.8 bits (70), Expect = 0.83
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 3/60 (5%)
Query: 206 PLQDIASGPTVLNEDLWSDARDIVIKYGLQNKVSKSVMTILSHETPHQDTKYFENVHNHI 265
P+ D A G TV E + +I I G Q SV+T+ PH + ++H H+
Sbjct: 272 PMVDAALGTTVTVEAILDGPSEITIPPGTQ---PGSVITLRGRGMPHLRSGGRGDLHAHV 328
>gnl|CDD|237506 PRK13785, PRK13785, adenylosuccinate synthetase; Provisional.
Length = 454
Score = 30.5 bits (69), Expect = 1.2
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 202 IVGDPLQDIASGPTVLNEDLWSDARDIVIKY 232
IVG L D G V DL+ DA D+V++Y
Sbjct: 5 IVGSQLGDEGKGGVV---DLYGDAADVVVRY 32
>gnl|CDD|218293 pfam04855, SNF5, SNF5 / SMARCB1 / INI1. SNF5 is a component of the
yeast SWI/SNF complex, which is an ATP-dependent
nucleosome-remodelling complex that regulates the
transcription of a subset of yeast genes. SNF5 is a key
component of all SWI/SNF-class complexes characterized
so far. This family consists of the conserved region of
SNF5, including a direct repeat motif. SNF5 is essential
for the assembly promoter targeting and chromatin
remodelling activity of the SWI-SNF complex. SNF5 is
also known as SMARCB1, for SWI/SNF-related,
matrix-associated, actin-dependent regulator of
chromatin, subfamily b, member 1, and also INI1 for
integrase interactor 1. Loss-of function mutations in
SNF5 are thought to contribute to oncogenesis in
malignant rhabdoid tumours (MRTs).
Length = 228
Score = 30.0 bits (68), Expect = 1.4
Identities = 20/70 (28%), Positives = 29/70 (41%), Gaps = 7/70 (10%)
Query: 34 IRDQTVLIKNNVYLIGF---GKAVLGMAVEIEAMFRPQRLKGILSVPFGSVGILKPQFNK 90
IR+Q + K ++ +G G + EI A F P L G P P+ +
Sbjct: 153 IREQLLKFKKSLCELGHLFDGSPIED--DEIRAAFLPGPLAGTRRDPDQLADEWTPRLEE 210
Query: 91 NS--EIEIRE 98
+ EIE RE
Sbjct: 211 LTDAEIERRE 220
>gnl|CDD|129467 TIGR00370, TIGR00370, sensor histidine kinase inhibitor, KipI
family. [Hypothetical proteins, Conserved].
Length = 202
Score = 29.4 bits (66), Expect = 1.7
Identities = 16/43 (37%), Positives = 21/43 (48%)
Query: 45 VYLIGFGKAVLGMAVEIEAMFRPQRLKGILSVPFGSVGILKPQ 87
VY++GF + E + P+R SVP GSVGI Q
Sbjct: 118 VYMLGFQPGFPYLGGLPERLHTPRRASPRPSVPAGSVGIGGLQ 160
>gnl|CDD|204184 pfam09265, Cytokin-bind, Cytokinin dehydrogenase 1, FAD and
cytokinin binding. Members of this family adopt an
alpha+beta sandwich structure with an antiparallel
beta-sheet, in a ferredoxin-like fold. They are
predominantly found in plant cytokinin dehydrogenase 1,
where they are capable of binding both FAD and cytokinin
substrates. The substrate displays a 'plug-into-socket'
binding mode that seals the catalytic site and precisely
positions the carbon atom undergoing oxidation in close
contact with the reactive locus of the flavin.
Length = 280
Score = 29.2 bits (66), Expect = 2.4
Identities = 18/75 (24%), Positives = 24/75 (32%), Gaps = 8/75 (10%)
Query: 208 QDIASGPT---VLNEDLWSDARDIVIKYGLQNKVSKSVMTILSHETP--HQDTKYFENVH 262
SGP +N W D VI V V + S D + EN +
Sbjct: 166 NTNNSGPILVYPMNRSKWDDRMSAVIPDE---DVFYLVGLLRSAVPSAGPSDLEALENQN 222
Query: 263 NHIIGNNRAALLGAK 277
I+ A +G K
Sbjct: 223 RRILEFCEGAGIGYK 237
>gnl|CDD|151999 pfam11563, Protoglobin, Protoglobin. Protoglobin is from
Methanosarcina acetivorans C2A. The protein is part of
the haemoglobin superfamily. Protoglobin has specific
loops and an amino-terminal extension which leads to the
burying of the haem within the matrix of the protein.
Protoglobin-specific apolar tunnels allow the access of
O2, CO and NO to the haem distal site.
Length = 196
Score = 28.2 bits (63), Expect = 3.8
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 4/46 (8%)
Query: 144 PKSPLSLEDKLKTIKLLVQSGANIKELNKVRKKLSDVKGGQLAEIV 189
KSP+SLED +LL ++ +E K + +V Q+ EI+
Sbjct: 17 AKSPISLED----FELLKKTVMFTEEDEKYLRMAGEVLEDQVEEIL 58
>gnl|CDD|224960 COG2049, DUR1, Allophanate hydrolase subunit 1 [Amino acid
transport and metabolism].
Length = 223
Score = 28.0 bits (63), Expect = 5.2
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 6/42 (14%)
Query: 45 VYLIGF--GKAVL-GMAVEIEAMFRPQRLKGILSVPFGSVGI 83
VY++GF G L G+ E + P+R + S+P GSVGI
Sbjct: 125 VYMLGFAPGFPYLGGLD---ERLATPRRAEPRTSIPAGSVGI 163
>gnl|CDD|149827 pfam08886, GshA, Glutamate-cysteine ligase. This is a rare family
of glutamate--cysteine ligases, EC:6.3.2.2, demonstrated
first in Thiobacillus ferrooxidans and present in a few
other Proteobacteria. It is the first of two enzymes for
glutathione biosynthesis. It is also called
gamma-glutamylcysteine synthetase. The structure of this
family has been solved, and is similar to that of human
glutathione synthetase and very different to
gamma-glutamylcysteine synthetase from Escherichia coli.
Length = 404
Score = 28.4 bits (64), Expect = 5.7
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 161 VQSGANIKELN-KVRKKLSDVKGGQLAEIV 189
V+SG + LN K R K+S +K G V
Sbjct: 279 VRSGDEVLALNRKQRNKMSVIKEGLEVSEV 308
>gnl|CDD|240223 cd05797, Ribosomal_L10, Ribosomal protein L10 family, L10
subfamily; composed of bacterial 50S ribosomal protein
and eukaryotic mitochondrial 39S ribosomal protein, L10.
L10 occupies the L7/L12 stalk of the ribosome. The
N-terminal domain (NTD) of L10 interacts with L11
protein and forms the base of the L7/L12 stalk, while
the extended C-terminal helix binds to two or three
dimers of the NTD of L7/L12 (L7 and L12 are identical
except for an acetylated N-terminus). The L7/L12 stalk
is known to contain the binding site for elongation
factors G and Tu (EF-G and EF-Tu, respectively);
however, there is disagreement as to whether or not L10
is involved in forming the binding site. The stalk is
believed to be associated with GTPase activities in
protein synthesis. In a neuroblastoma cell line, L10 has
been shown to interact with the SH3 domain of Src and to
activate the binding of the Nck1 adaptor protein with
skeletal proteins such as the Wiskott-Aldrich Syndrome
Protein (WASP) and the WASP-interacting protein (WIP).
These bacteria and eukaryotic sequences have no
additional C-terminal domain, present in other
eukaryotic and archaeal orthologs.
Length = 157
Score = 27.1 bits (61), Expect = 7.6
Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 6/72 (8%)
Query: 149 SLEDKLKTIKLLVQ---SGANIKELNKVRKKLSDVKGGQLAEIVYPATLVSLIISDIVGD 205
L++KLK K +V G + +L ++RK+L + G +L V TL + +
Sbjct: 11 ELKEKLKEAKSVVVADYRGLTVAQLTELRKELRE-AGVKL--KVVKNTLAKRALEGTGFE 67
Query: 206 PLQDIASGPTVL 217
L D+ GPT +
Sbjct: 68 DLDDLLKGPTAI 79
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
0.317 0.136 0.381
Gapped
Lambda K H
0.267 0.0867 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,424,166
Number of extensions: 1487679
Number of successful extensions: 1264
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1258
Number of HSP's successfully gapped: 17
Length of query: 308
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 211
Effective length of database: 6,635,264
Effective search space: 1400040704
Effective search space used: 1400040704
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 59 (26.3 bits)