RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780758|ref|YP_003065171.1| hypothetical protein
CLIBASIA_03225 [Candidatus Liberibacter asiaticus str. psy62]
(216 letters)
>gnl|CDD|163252 TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase. Members of
this protein family are hydroxyacylglutathione
hydrolase, a detoxification enzyme known as glyoxalase
II. It follows lactoylglutathione lyase, or glyoxalase
I, and acts to remove the toxic metabolite methylglyoxal
and related compounds. This protein belongs to the
broader metallo-beta-lactamase family (pfam00753).
Length = 248
Score = 111 bits (280), Expect = 1e-25
Identities = 64/244 (26%), Positives = 103/244 (42%), Gaps = 61/244 (25%)
Query: 8 IVQVTPFKQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFHVKQIWITHGHVDHVGG 67
I+ + N +L + +A VVDPG + + + D +++R + I +TH H DHVGG
Sbjct: 1 IIPIPALSDNYIWLLHDPDGQAAVVDPG-EAEPVLDALEARGLTLTAILLTHHHHDHVGG 59
Query: 68 AAQLKEDLSLTIIGPHKDDAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHI 127
A+L E + GP ++ R ++DGDT+ LG
Sbjct: 60 VAELLEAFPAPVYGPAEE---------------------RIPGITHPVKDGDTVTLGGLE 98
Query: 128 FKVFHCPGHSPGHVIYVNFENNFAHLGDTLFRSSIGRTDILHGDYQQLINSINNKILPLG 187
F+V PGH+ GH+ Y ++ GDTLF + GR + G +Q+ +S+ ++ L
Sbjct: 99 FEVLAVPGHTLGHIAYYLPDSPALFCGDTLFSAGCGR--LFEGTPEQMYDSL-QRLAALP 155
Query: 188 DEISFVCGH-------------GPN-----------------------STIGRERRLNPF 211
D+ C H P+ ST+G ER NPF
Sbjct: 156 DDTLVYCAHEYTLSNLRFALTVEPDNPALQERLKEVEALRAQGQPTLPSTLGLERATNPF 215
Query: 212 LKSN 215
L+++
Sbjct: 216 LRAD 219
>gnl|CDD|129082 smart00849, Lactamase_B, Metallo-beta-lactamase superfamily. Apart
from the beta-lactamases a number of other proteins
contain this domain PUBMED:7588620. These proteins
include thiolesterases, members of the glyoxalase II
family, that catalyse the hydrolysis of
S-D-lactoyl-glutathione to form glutathione and D-lactic
acid and a competence protein that is essential for
natural transformation in Neisseria gonorrhoeae and
could be a transporter involved in DNA uptake. Except
for the competence protein these proteins bind two zinc
ions per molecule as cofactor.
Length = 183
Score = 106 bits (266), Expect = 5e-24
Identities = 50/190 (26%), Positives = 80/190 (42%), Gaps = 11/190 (5%)
Query: 11 VTPFKQNCTFLFDEESLEAVVVDPGGD--LDIIKDVIQSRNFHVKQIWITHGHVDHVGGA 68
+ N + + A+++D G D++ ++ + + I +THGH DH+GG
Sbjct: 1 LGGVGVNSYLVEGDG--GAILIDTGPGEAEDLLAELKKLGPKDIDAIILTHGHPDHIGGL 58
Query: 69 AQLKEDLSLTIIGPHKDDAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIF 128
+L E + P + D ++ A DR L+DG+ L LG
Sbjct: 59 PELLEAPGAPVYAPEGTAELL---KDLLKLGGALGAEAPPPPPDRTLKDGEELDLGGLEL 115
Query: 129 KVFHCPGHSPGHVIYVNFENNFAHLGDTLFRSSIGRTDILHGDYQ--QLINSINNKILPL 186
+V H PGH+PG ++ E GD LF IGRTD GD + S+ +
Sbjct: 116 EVIHTPGHTPGSIVLYLPEGKILFTGDLLFSGGIGRTDDDGGDASASDSLESLLKLLALD 175
Query: 187 GDEISFVCGH 196
+ + V GH
Sbjct: 176 PELV--VPGH 183
>gnl|CDD|178020 PLN02398, PLN02398, hydroxyacylglutathione hydrolase.
Length = 329
Score = 82.2 bits (203), Expect = 1e-16
Identities = 67/247 (27%), Positives = 100/247 (40%), Gaps = 60/247 (24%)
Query: 5 SFHIVQVTPFKQNCTFLFDEESLEAV-VVDPGGDLDIIKDVIQSRNFHVKQIWITHGHVD 63
S I V K N +L +E V VVDP + +I D + +N ++ I TH H D
Sbjct: 75 SLQIELVPCLKDNYAYLLHDEDTGTVGVVDPSEAVPVI-DALSRKNRNLTYILNTHHHYD 133
Query: 64 HVGGAAQLKEDLSLTIIGPHKDDAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLL 123
H GG +LK +IG D + R+ I D L+DGD +
Sbjct: 134 HTGGNLELKARYGAKVIGSAVD----------KDRIPGI---------DIVLKDGDKWMF 174
Query: 124 GTHIFKVFHCPGHSPGHVIYVNFENNFAHLGDTLFRSSIGRTDILHGDYQQLINSINNKI 183
H V PGH+ GH+ + + GDTLF S G+ + G +Q+++S+ KI
Sbjct: 175 AGHEVLVMETPGHTRGHISFYFPGSGAIFTGDTLFSLSCGK--LFEGTPEQMLSSL-QKI 231
Query: 184 LPLGDEISFVCGH-------------GPN-----------------------STIGRERR 207
+ L D+ + CGH PN +T+ E+
Sbjct: 232 ISLPDDTNIYCGHEYTLSNSKFALSIEPNNEVLQSYAAHVAHLRSKGLPTIPTTVKMEKA 291
Query: 208 LNPFLKS 214
NPFL++
Sbjct: 292 CNPFLRT 298
>gnl|CDD|182327 PRK10241, PRK10241, hydroxyacylglutathione hydrolase; Provisional.
Length = 251
Score = 75.6 bits (186), Expect = 9e-15
Identities = 52/184 (28%), Positives = 84/184 (45%), Gaps = 28/184 (15%)
Query: 14 FKQNCTFLFDEESLEAVVVDPGGDLDIIKDVIQSRNFHVKQIWITHGHVDHVGGAAQLKE 73
F N ++ ++E+ ++VDPG ++ I N+ + I++TH H DHVGG +L E
Sbjct: 9 FDDNYIWVLNDEAGRCLIVDPGEAEPVLN-AIAENNWQPEAIFLTHHHHDHVGGVKELVE 67
Query: 74 DL-SLTIIGPHKDDAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFH 132
+ + GP + ++ + + ++DG+T + H F VF
Sbjct: 68 KFPQIVVYGPQE---------------------TQDKGTTQVVKDGETAFVLGHEFSVFA 106
Query: 133 CPGHSPGHVIYVNFENNFAHLGDTLFRSSIGRTDILHGDYQQLINSINNKILPLGDEISF 192
PGH+ GH+ Y F + GDTLF GR + G Q+ S+ KI L D+
Sbjct: 107 TPGHTLGHICY--FSKPYLFCGDTLFSGGCGR--LFEGTASQMYQSL-KKINALPDDTLI 161
Query: 193 VCGH 196
C H
Sbjct: 162 CCAH 165
>gnl|CDD|178088 PLN02469, PLN02469, hydroxyacylglutathione hydrolase.
Length = 258
Score = 70.6 bits (173), Expect = 3e-13
Identities = 57/251 (22%), Positives = 90/251 (35%), Gaps = 67/251 (26%)
Query: 8 IVQVTPFKQNCTFL-FDEESLEAVVVDPGGDLDIIKDVIQSRNFHVKQIWITHGHVDHVG 66
I+ V + N +L DE + +A VVDP D + + +K + TH H DH G
Sbjct: 3 IIPVPCLEDNYAYLIIDESTKDAAVVDPV-DPEKVLQAAHEHGAKIKLVLTTHHHWDHAG 61
Query: 67 GAAQLKEDLS-LTIIGPHKDDAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGT 125
G ++K+ + + + G D+ G +++GD L LG
Sbjct: 62 GNEKIKKLVPGIKVYGGSLDNVK--GCTHP-------------------VENGDKLSLGK 100
Query: 126 HI-FKVFHCPGHSPGHVIY--VNFENNFAHL--GDTLFRSSIGRTDILHGDYQQLINSIN 180
+ H P H+ GH+ Y E + GDTLF + G+ G +Q+ S+
Sbjct: 101 DVNILALHTPCHTKGHISYYVTGKEGEDPAVFTGDTLFIAGCGK--FFEGTAEQMYQSLC 158
Query: 181 NKILPLGDEISFVCGH-------------GPN-----------------------STIGR 204
+ L CGH P+ STI
Sbjct: 159 VTLGSLPKPTQVYCGHEYTVKNLKFALTVEPDNEKLKQKLEWAEKQRQAGLPTVPSTIEE 218
Query: 205 ERRLNPFLKSN 215
E NPF++ +
Sbjct: 219 ELETNPFMRVD 229
>gnl|CDD|178547 PLN02962, PLN02962, hydroxyacylglutathione hydrolase.
Length = 251
Score = 60.2 bits (146), Expect = 4e-10
Identities = 55/199 (27%), Positives = 80/199 (40%), Gaps = 34/199 (17%)
Query: 29 AVVVDPGGDLDIIKDVIQSRNFHVKQIWI--THGHVDHVGGAAQLKEDLSLTIIGPHKDD 86
A+++DP D + +D+ + +K I+ TH H DHV G LK L
Sbjct: 38 ALLIDPV-DKTVDRDLSLVKELGLKLIYAMNTHVHADHVTGTGLLKTKL----------- 85
Query: 87 AAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHIFKVFHCPGHSPGHVIYVNF 146
+ SI A + +D +++ GD + G +V PGH+ G V YV
Sbjct: 86 ----------PGVKSIISKASGSKADLFVEPGDKIYFGDLYLEVRATPGHTAGCVTYVTG 135
Query: 147 EN------NFAHLGDTLFRSSIGRTDILHGDYQQLINSINNKILPLGDEISFVCGHGPN- 199
E A GD L GRTD G QL S++++I L + H
Sbjct: 136 EGPDQPQPRMAFTGDALLIRGCGRTDFQGGSSDQLYKSVHSQIFTLPKDTLIYPAHDYKG 195
Query: 200 ---STIGRERRLNPFLKSN 215
ST+G E NP L +
Sbjct: 196 FTVSTVGEEMLYNPRLTKD 214
>gnl|CDD|161977 TIGR00649, MG423, conserved hypothetical protein. Contains an
ATP-binding domain at the N-terminal end of the
protein. Possibly part of a superfamily of
beta-lactmases.
Length = 422
Score = 34.6 bits (80), Expect = 0.018
Identities = 18/64 (28%), Positives = 25/64 (39%), Gaps = 11/64 (17%)
Query: 28 EAVVVDPGGDLD---------IIKD--VIQSRNFHVKQIWITHGHVDHVGGAAQLKEDLS 76
+ + D G +I D +Q VK I+ITHGH DH+G L +
Sbjct: 24 DVFIFDAGILFPEDAMLGVDGVIPDFSYLQENQDKVKGIFITHGHEDHIGAVPYLFHTVG 83
Query: 77 LTII 80
I
Sbjct: 84 FPPI 87
>gnl|CDD|179087 PRK00685, PRK00685, metal-dependent hydrolase; Provisional.
Length = 228
Score = 32.9 bits (76), Expect = 0.066
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 55 IWITHGHVDHVGGAAQLKEDLSLTIIGPH 83
I +THGH DH+G ++ + T+I
Sbjct: 44 ILLTHGHGDHLGDTVEIAKRTGATVIANA 72
>gnl|CDD|163218 TIGR03336, IOR_alpha, indolepyruvate ferredoxin oxidoreductase,
alpha subunit. Indolepyruvate ferredoxin oxidoreductase
(IOR) is an alpha 2/beta 2 tetramer related to ketoacid
oxidoreductases for pyruvate (1.2.7.1, POR),
2-ketoglutarate (1.2.7.3, KOR), and 2-oxoisovalerate
(1.2.7.7, VOR). These multi-subunit enzymes typically
are found in anaerobes and are inactiviated by oxygen.
IOR in Pyrococcus acts in fermentation of all three
aromatic amino acids, following removal of the amino
group by transamination. In Methanococcus maripaludis,
by contrast, IOR acts in the opposite direction, in
pathways of amino acid biosynthesis from phenylacetate,
indoleacetate, and p-hydroxyphenylacetate. In M.
maripaludis and many other species, iorA and iorB are
found next to an apparent phenylacetate-CoA ligase.
Length = 595
Score = 31.6 bits (72), Expect = 0.16
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 160 SSIGRTDILHGDYQQLINSINNK----ILPLGDEISFVCGHGPNSTIG 203
+ IG + H LIN++ NK ++ L + I+ + GH PN G
Sbjct: 426 AFIGDSTFFHTGIPGLINAVYNKANITVVILDNRITAMTGHQPNPGTG 473
>gnl|CDD|183185 PRK11539, PRK11539, ComEC family competence protein; Provisional.
Length = 755
Score = 29.6 bits (67), Expect = 0.59
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 48 RNFHVKQIWITHGHVDHVGGAAQL 71
+ I ++H H+DH GG A L
Sbjct: 548 HGLTPEGIILSHEHLDHRGGLASL 571
>gnl|CDD|162962 TIGR02651, RNase_Z, ribonuclease Z. Processing of the 3-prime
end of tRNA precursors may be the result of
endonuclease or exonuclease activity, and differs in
different species. Member of this family are
ribonuclease Z, a tRNA 3-prime endonuclease that
processes tRNAs to prepare for addition of CCA. In
species where all tRNA sequences already have the CCA
tail, such as E. coli, the need for such an enzyme is
unclear. Protein similar to the E. coli enzyme, matched
by TIGR02649, are designated ribonuclease BN.
Length = 299
Score = 29.5 bits (67), Expect = 0.63
Identities = 15/39 (38%), Positives = 20/39 (51%), Gaps = 7/39 (17%)
Query: 52 VKQIWITHGHVDHVGGAAQLKEDLS-------LTIIGPH 83
+ +I+ITH H DH+ G L +S LTI GP
Sbjct: 52 IDRIFITHLHGDHILGLPGLLSTMSFQGRKEPLTIYGPP 90
>gnl|CDD|184491 PRK14079, recF, recombination protein F; Provisional.
Length = 349
Score = 27.4 bits (61), Expect = 2.6
Identities = 9/24 (37%), Positives = 16/24 (66%), Gaps = 2/24 (8%)
Query: 68 AAQLKEDLS--LTIIGPHKDDAAM 89
A+ E+L+ T++GPH+DD +
Sbjct: 230 EARRAEELARGATVVGPHRDDLVL 253
>gnl|CDD|184159 PRK13578, PRK13578, ornithine decarboxylase; Provisional.
Length = 720
Score = 26.9 bits (60), Expect = 3.9
Identities = 15/46 (32%), Positives = 20/46 (43%), Gaps = 8/46 (17%)
Query: 131 FHCPGHSPG-----HVIYVNFENNFAHLGDTLFRSSIGRTDILHGD 171
F CPGH G H F + G+ LFR+ + D+ GD
Sbjct: 126 FDCPGHQGGQFFRKHPAGRQF---YDFFGENLFRADMCNADVKLGD 168
>gnl|CDD|179371 PRK02113, PRK02113, putative hydrolase; Provisional.
Length = 252
Score = 26.7 bits (59), Expect = 4.3
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 51 HVKQIWITHGHVDHVGGAAQLK 72
+ + ITH H DHVGG L+
Sbjct: 66 KIDAVLITHEHYDHVGGLDDLR 87
>gnl|CDD|173553 PTZ00360, PTZ00360, sexual stage antigen; Provisional.
Length = 543
Score = 26.6 bits (59), Expect = 4.6
Identities = 13/34 (38%), Positives = 17/34 (50%)
Query: 170 GDYQQLINSINNKILPLGDEISFVCGHGPNSTIG 203
D+ S+N IL GDE+ F CG+G G
Sbjct: 48 EDFTPEDESVNEVILAPGDELKFTCGNGARDEDG 81
>gnl|CDD|179375 PRK02126, PRK02126, ribonuclease Z; Provisional.
Length = 334
Score = 26.4 bits (59), Expect = 5.7
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 5/33 (15%)
Query: 36 GDLD-IIKDVIQSRNFHVKQIWITHGHVDHVGG 67
GDL + + + I+++H H+DH G
Sbjct: 35 GDLHHLPPRELLR----ISHIFVSHTHMDHFIG 63
>gnl|CDD|171527 PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional.
Length = 612
Score = 26.2 bits (58), Expect = 5.9
Identities = 27/103 (26%), Positives = 41/103 (39%), Gaps = 26/103 (25%)
Query: 26 SLEAVVVDPGGDLDIIKDVIQSRNFHVKQIWITHGHVDHVG-GAAQLKEDLSLTIIGPHK 84
S AV+VDP ++ + V +IW+ HG D++G G E+ T
Sbjct: 410 SQWAVIVDPDTGAEL-------PDGEVGEIWL-HG--DNIGRGYWGRPEETERTF----- 454
Query: 85 DDAAMMGKVDEQARLLSIRMNARNASSDRWLQDGDTLLLGTHI 127
A + Q+RL A WL+ GD LG ++
Sbjct: 455 -GAKL------QSRLAEGSHADGAADDGTWLRTGD---LGVYL 487
>gnl|CDD|132714 TIGR03675, arCOG00543, arCOG00543 universal archaeal
KH-domain/beta-lactamase-domain protein. This family of
proteins is universal in the archaea and consistsof an
N-terminal type-1 KH-domain (pfam00013) a central
beta-lactamase-domain (pfam00753) with a C-terminal
motif associated with RNA metabolism (pfam07521).
KH-domains are associated with RNA-binding, so taken
together, this protein is a likely metal-dependent
RNAase. This family was defined in as arCOG01782.
Length = 630
Score = 26.1 bits (58), Expect = 8.0
Identities = 7/10 (70%), Positives = 8/10 (80%)
Query: 57 ITHGHVDHVG 66
ITH H+DH G
Sbjct: 234 ITHAHLDHSG 243
>gnl|CDD|163466 TIGR03754, conj_TOL_TraD, conjugative coupling factor TraD, TOL
family. Members of this protein are assigned by
homology to the TraD family of conjugative coupling
factor. This particular clade serves as a marker for an
extended gene region that occurs occasionally on
plasmids, including the toluene catabolism TOL plasmid.
More commonly, the gene region is chromosomal, flanked
by various markers of conjugative transfer and
insertion.
Length = 643
Score = 25.8 bits (57), Expect = 8.1
Identities = 7/15 (46%), Positives = 11/15 (73%)
Query: 30 VVVDPGGDLDIIKDV 44
+V DP GD D++K +
Sbjct: 212 IVFDPKGDADLLKRM 226
>gnl|CDD|162688 TIGR02079, THD1, threonine dehydratase. This model represents
threonine dehydratase, the first step in the pathway
converting threonine into isoleucine. At least two other
clades of biosynthetic threonine dehydratases have been
characterized by models TIGR01124 and TIGR01127. Those
sequences described by this model are exclusively found
in species containg the rest of the isoleucine pathway
and which are generally lacking in members of the those
other two clades of threonine dehydratases. Members of
this clade are also often gene clustered with other
elements of the isoleucine pathway.
Length = 409
Score = 25.9 bits (57), Expect = 8.6
Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 7/44 (15%)
Query: 4 LSFHIVQ-----VTPFKQN--CTFLFDEESLEAVVVDPGGDLDI 40
L+F ++ VT + CT + D +LE +V +P G L I
Sbjct: 239 LNFKALKDVPDEVTLVPEGAVCTTILDLYNLEGIVAEPAGALSI 282
>gnl|CDD|172614 PRK14124, PRK14124, tRNA pseudouridine synthase B; Provisional.
Length = 308
Score = 25.8 bits (57), Expect = 9.2
Identities = 18/90 (20%), Positives = 37/90 (41%), Gaps = 3/90 (3%)
Query: 28 EAVVVDPGGDLDIIKDVIQ-SRNFHVKQIWITHGHVDHVGGAAQLKEDLSLTIIGPHKDD 86
+++ V +I +I + ++ I + + +Q+ ++ KDD
Sbjct: 203 DSINVFEVSPEEIENRIIPMEEILDLPKVVIHQESTEKILNGSQIYLEMVKEWDNFKKDD 262
Query: 87 AAMMGKVDEQARLLSIRMNARNASSDRWLQ 116
+ DE+ RLL+I RN+S L+
Sbjct: 263 VVRV--FDEEGRLLAIARAERNSSFLETLK 290
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.322 0.140 0.427
Gapped
Lambda K H
0.267 0.0702 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,593,387
Number of extensions: 223563
Number of successful extensions: 470
Number of sequences better than 10.0: 1
Number of HSP's gapped: 458
Number of HSP's successfully gapped: 31
Length of query: 216
Length of database: 5,994,473
Length adjustment: 89
Effective length of query: 127
Effective length of database: 4,071,361
Effective search space: 517062847
Effective search space used: 517062847
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 (21.9 bits)
S2: 55 (25.0 bits)