RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254781214|ref|YP_003065627.1| hypothetical protein
CLIBASIA_05605 [Candidatus Liberibacter asiaticus str. psy62]
(110 letters)
>gnl|CDD|36350 KOG1135, KOG1135, KOG1135, mRNA cleavage and polyadenylation factor
II complex, subunit CFT2 (CPSF subunit) [RNA processing
and modification].
Length = 764
Score = 30.3 bits (68), Expect = 0.12
Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 46 DTIGGFFGSSQKEGKKEEEGVR---PLEGDELAEVRRQESLRAYEMNR 90
T+ S + K+ E VR LEG+EL E E LR + R
Sbjct: 359 GTLARELISMPERAKRIELKVRKRVKLEGEELLEYLEGERLRNEDALR 406
>gnl|CDD|144263 pfam00606, Glycoprotein_B, Herpesvirus Glycoprotein B. This family
of proteins contains a transmembrane region.
Length = 711
Score = 27.9 bits (63), Expect = 0.67
Identities = 10/37 (27%), Positives = 14/37 (37%), Gaps = 5/37 (13%)
Query: 20 LGSIF---GPVGGVIGGLMGGAAGLYSEWDTIGGFFG 53
L F G VG +G ++ G AG + G
Sbjct: 625 LDDFFQGLGAVGKAVGNVVSGVAGAVG--SIVSGVVS 659
>gnl|CDD|109790 pfam00747, Viral_DNA_bp, ssDNA binding protein. This protein is
found in herpesviruses and is needed for replication.
Length = 1111
Score = 26.6 bits (59), Expect = 1.8
Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 1/48 (2%)
Query: 33 GLMGGAAGLYSEWDTIGGFFGSSQKEGKKEEEGVRPLEGDEL-AEVRR 79
G+ + Y++ D +G F E K + E + D A V R
Sbjct: 507 GVFTTMSRAYNDCDVLGNFARRYALEKKDDGEAAKADMQDTYRASVER 554
>gnl|CDD|133006 cd02513, CMP-NeuAc_Synthase, CMP-NeuAc_Synthase activates
N-acetylneuraminic acid by adding CMP moiety.
CMP-N-acetylneuraminic acid synthetase (CMP-NeuAc
synthetase) or acylneuraminate cytidylyltransferase
catalyzes the transfer the CMP moiety of CTP to the
anomeric hydroxyl group of NeuAc in the presence of
Mg++. It is the second to last step in the sialylation
of the oligosaccharide component of glycoconjugates by
providing the activated sugar-nucleotide cytidine
5'-monophosphate N-acetylneuraminic acid (CMP-Neu5Ac),
the substrate for sialyltransferases. Eukaryotic
CMP-NeuAc synthetases are predominantly located in the
nucleus. The activated CMP-Neu5Ac diffuses from the
nucleus into the cytoplasm.
Length = 223
Score = 26.0 bits (58), Expect = 2.3
Identities = 9/34 (26%), Positives = 15/34 (44%)
Query: 56 QKEGKKEEEGVRPLEGDELAEVRRQESLRAYEMN 89
+ ++ G+ P+ E RRQ+ AY N
Sbjct: 142 WRALGLDDNGLEPVNYPEDKRTRRQDLPPAYHEN 175
>gnl|CDD|34102 COG4395, COG4395, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 281
Score = 26.1 bits (57), Expect = 2.4
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 28 GGVIGGLMGGAAGLYSEWDTIGGFFG 53
G++GGL GG S G FFG
Sbjct: 30 SGMLGGLAGGLLMGLSGMFFGGLFFG 55
>gnl|CDD|145626 pfam02585, PIG-L, GlcNAc-PI de-N-acetylase. Members of this
family are related to PIG-L an
N-acetylglucosaminylphosphatidylinositol de-N-acetylase
(EC:3.5.1.89) that catalyses the second step in GPI
biosynthesis.
Length = 111
Score = 26.1 bits (58), Expect = 2.4
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 68 PLEGDELAEVRRQESLRA 85
L +EL +RR+E+ A
Sbjct: 40 GLSPEELGAIRRREARAA 57
>gnl|CDD|29406 cd02111, eukary_SO_Moco, molybdopterin binding domain of sulfite
oxidase (SO). SO catalyzes the terminal reaction in the
oxidative degradation of the sulfur-containing amino
acids cysteine and methionine. Common features of all
known members of the sulfite oxidase (SO) family of
molybdopterin binding domains are that they contain one
single pterin cofactor and part of the coordination of
the metal (Mo) is a cysteine ligand of the protein and
that they catalyze the transfer of an oxygen to or from
a lone pair of electrons on the substrate..
Length = 365
Score = 26.1 bits (57), Expect = 2.5
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 79 RQESLRAYEMNRIPIPAR 96
+ L AYEMN P+P
Sbjct: 161 EADVLLAYEMNGTPLPRD 178
>gnl|CDD|146831 pfam04391, DUF533, Protein of unknown function (DUF533). Some
family members may be secreted or integral membrane
proteins.
Length = 187
Score = 25.6 bits (57), Expect = 2.7
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 17 GFKLGSIFGPVGGVIGGLMGGAAG 40
G LG G +GG++G L+GG G
Sbjct: 1 GDLLGGGGGGLGGLLGALLGGKKG 24
>gnl|CDD|133122 cd06591, GH31_xylosidase_XylS, XylS is a glycosyl hydrolase family
31 (GH31) alpha-xylosidase found in prokaryotes,
eukaryotes, and archaea, that catalyzes the release of
alpha-xylose from the non-reducing terminal side of the
alpha-xyloside substrate. XylS has been characterized in
Sulfolobus solfataricus where it hydrolyzes
isoprimeverose, the p-nitrophenyl-beta derivative of
isoprimeverose, and xyloglucan oligosaccharides, and has
transxylosidic activity. All GH31 enzymes cleave a
terminal carbohydrate moiety from a substrate that
varies considerably in size, depending on the enzyme,
and may be either a starch or a glycoprotein. The XylS
family corresponds to subgroup 3 in the Ernst et al
classification of GH31 enzymes.
Length = 319
Score = 25.7 bits (57), Expect = 3.0
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 4/37 (10%)
Query: 30 VIGGLMGGAAGL-YSEWDT-IGGFFGSSQKEGKKEEE 64
+ GL G +G+ + W T IGGFF + G + E
Sbjct: 241 IAAGLNMGLSGIPW--WTTDIGGFFVGNPPAGLDDPE 275
>gnl|CDD|177107 MTH00028, COX3, cytochrome c oxidase subunit III; Provisional.
Length = 297
Score = 25.4 bits (55), Expect = 3.6
Identities = 20/75 (26%), Positives = 30/75 (40%), Gaps = 12/75 (16%)
Query: 10 FGSSLSSGFKLGSIFGPVG------------GVIGGLMGGAAGLYSEWDTIGGFFGSSQK 57
F SSL+ +LGS++ P G L GA ++ IG +S +
Sbjct: 102 FHSSLAPSVELGSVWPPKGIEALDPFAVPLLNTTILLSSGATVTWAHHAIIGTGNPASLE 161
Query: 58 EGKKEEEGVRPLEGD 72
+G + EG P G
Sbjct: 162 KGTQGIEGPNPSNGA 176
>gnl|CDD|39042 KOG3838, KOG3838, KOG3838, Mannose lectin ERGIC-53, involved in
glycoprotein traffic [Intracellular trafficking,
secretion, and vesicular transport].
Length = 497
Score = 25.3 bits (55), Expect = 4.2
Identities = 14/44 (31%), Positives = 20/44 (45%), Gaps = 4/44 (9%)
Query: 29 GVIGGLMGGAAGLYSEWDTIGGFFGSSQKEGKKEEEGVRPLEGD 72
G +G + GG W+ IG FF S +G+K + L D
Sbjct: 121 GHVGPVFGGLD----SWNGIGIFFDSFDNDGQKNNPAISVLLND 160
>gnl|CDD|145952 pfam03073, TspO_MBR, TspO/MBR family. Tryptophan-rich sensory
protein (TspO) is an integral membrane protein that
acts as a negative regulator of the expression of
specific photosynthesis genes in response to
oxygen/light. It is involved in the efflux of porphyrin
intermediates from the cell. This reduces the activity
of coproporphyrinogen III oxidase, which is thought to
lead to the accumulation of a putative repressor
molecule that inhibits the expression of specific
photosynthesis genes. Several conserved aromatic
residues are necessary for TspO function: they are
thought to be involved in binding porphyrin
intermediates. In, the rat mitochondrial peripheral
benzodiazepine receptor (MBR) was shown to not only
retain its structure within a bacterial outer membrane,
but also to be able to functionally substitute for TspO
in TspO- mutants, and to act in a similar manner to
TspO in its in situ location: the outer mitochondrial
membrane. The biological significance of MBR remains
unclear, however. It is thought to be involved in a
variety of cellular functions, including cholesterol
transport in steroidogenic tissues.
Length = 144
Score = 24.8 bits (55), Expect = 5.2
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 21 GSIFGPVGGVIGGLMGGAAGL 41
+FGPV V+ LMG AA L
Sbjct: 36 NWVFGPVWTVLYILMGIAAYL 56
>gnl|CDD|32224 COG2041, COG2041, Sulfite oxidase and related enzymes [General
function prediction only].
Length = 271
Score = 24.6 bits (53), Expect = 6.3
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 70 EGDELAEVRRQESLRAYEMNRIPIP 94
G L + +L AY MN P+P
Sbjct: 172 TGLPLDDALHPLTLLAYGMNGEPLP 196
>gnl|CDD|146715 pfam04226, Transgly_assoc, Transglycosylase associated protein.
Bacterial protein, predicted to be an integral membrane
protein. Some family members have been annotated as
transglycosylase associated proteins, but no
experimental evidence is provided. This family was
annotated based on the information in Eschericha coli
ymge.
Length = 48
Score = 24.3 bits (54), Expect = 7.1
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 23 IFGPVGGVIGGLMGGAAGLYSEWDTIGGFFGS 54
I G VG +GG + G G Y + +GG +
Sbjct: 2 ILGIVGAFVGGFLFGLLGPYGGGE-LGGLIPA 32
>gnl|CDD|32559 COG2431, COG2431, Predicted membrane protein [Function unknown].
Length = 297
Score = 24.4 bits (53), Expect = 7.8
Identities = 10/42 (23%), Positives = 19/42 (45%)
Query: 3 FLDSSVKFGSSLSSGFKLGSIFGPVGGVIGGLMGGAAGLYSE 44
LD + G +++SGF S+ G + G + G+ +
Sbjct: 186 LLDLPLTTGLAMASGFGWYSLSGILLTEAYGPVLGSIAFLNN 227
>gnl|CDD|145216 pfam01925, TauE, Sulfite exporter TauE/SafE. This is a family of
integral membrane proteins where the alignment appears
to contain two duplicated modules of three transmembrane
helices. The proteins are involved in the transport of
anions across the cytoplasmic membrane during taurine
metabolism as an exporter of sulfoacetate. This family
used to be known as DUF81.
Length = 236
Score = 24.1 bits (53), Expect = 8.0
Identities = 9/40 (22%), Positives = 12/40 (30%)
Query: 1 MSFLDSSVKFGSSLSSGFKLGSIFGPVGGVIGGLMGGAAG 40
M S G + G + G + GL G G
Sbjct: 108 MLLRPRLAAAASRRPPGALALLLAGGLIGFLSGLFGIGGG 147
>gnl|CDD|35045 COG5486, COG5486, Predicted metal-binding integral membrane protein
[Function unknown].
Length = 283
Score = 24.2 bits (52), Expect = 8.2
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 14 LSSGFKLGSIFGPVGGVIGGLMGGAAGLYSEWDTI 48
L + LG I P+ G+ GGL AGLY ++ T+
Sbjct: 150 LHAFALLGPILSPLSGLAGGLTLLVAGLY-QFTTL 183
>gnl|CDD|36750 KOG1537, KOG1537, KOG1537, Homoserine kinase [Amino acid transport
and metabolism].
Length = 355
Score = 24.3 bits (52), Expect = 8.2
Identities = 14/70 (20%), Positives = 27/70 (38%), Gaps = 5/70 (7%)
Query: 11 GSSLSSGFKLGSIFGPVGGVIGGLMGGAAGLYSEWDTI-----GGFFGSSQKEGKKEEEG 65
G++ +G +L + +G G ++ + + D GGF GS + + E
Sbjct: 113 GTAKMAGVRLVNESADLGLSKGSMLDYSLMIERHPDNAVAEMMGGFLGSFLRALLESEAK 172
Query: 66 VRPLEGDELA 75
V D +
Sbjct: 173 VSGYHADNIL 182
>gnl|CDD|147783 pfam05818, TraT, Enterobacterial TraT complement resistance
protein. The traT gene is one of the F factor transfer
genes and encodes an outer membrane protein which is
involved in interactions between an Escherichia coli and
its surroundings.
Length = 215
Score = 24.3 bits (53), Expect = 8.7
Identities = 12/42 (28%), Positives = 18/42 (42%)
Query: 12 SSLSSGFKLGSIFGPVGGVIGGLMGGAAGLYSEWDTIGGFFG 53
S+LS+G+ + +G +G G AG GG G
Sbjct: 81 SALSTGYGGAAAGAALGAAVGAYNSGGAGAALGVGLAGGLVG 122
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.315 0.137 0.390
Gapped
Lambda K H
0.267 0.0700 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,325,756
Number of extensions: 64043
Number of successful extensions: 255
Number of sequences better than 10.0: 1
Number of HSP's gapped: 250
Number of HSP's successfully gapped: 43
Length of query: 110
Length of database: 6,263,737
Length adjustment: 76
Effective length of query: 34
Effective length of database: 4,621,453
Effective search space: 157129402
Effective search space used: 157129402
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: 42 (22.0 bits)
S2: 51 (23.5 bits)