RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780869|ref|YP_003065282.1| beta-lactamase
domain-containing protein [Candidatus Liberibacter asiaticus str.
psy62]
(559 letters)
>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 = 314 bits (806), Expect = 4e-86
Identities = 148/429 (34%), Positives = 245/429 (57%), Gaps = 16/429 (3%)
Query: 8 FLPLGGVGEIGMNMALYGYGSPSSRKWIMIDCGVSFPKDDLPGVDLVFPDITFIMKERKN 67
LGG+GEIG NM + + D G+ FP+D + GVD V PD +++ + +
Sbjct: 3 IFALGGLGEIGKNMYVVEIDDDV----FIFDAGILFPEDAMLGVDGVIPDFSYLQENQDK 58
Query: 68 LMAIFITHAHEDHYGALHDLW-SFLHVPVYASPFAIGLLEAKRVYERVSKKIPCISFQAG 126
+ IFITH HEDH GA+ L+ + P+Y +P I L+++K +++ + + G
Sbjct: 59 VKGIFITHGHEDHIGAVPYLFHTVGFPPIYGTPLTIALIKSKIKENKLNVRTDLLEIHEG 118
Query: 127 DKVDVG-AFSIESVRVNHSIPETMALVIRSPVGNIVHTGDWKLDDDAILGDVTDKDSLCA 185
+ ++ G +IE +R+ HSIP+++ + +P+G IV+TGD+K D+ ++G+ D + +
Sbjct: 119 EPIETGENHTIEFIRITHSIPDSVGFALHTPLGYIVYTGDFKFDNTPVIGEPPDLNRIAE 178
Query: 186 IGNEGILALMCDSTNAMREGTCISEKGIKKNIYDIMKNAKGCVLVTTFSSSVSRIRSIID 245
G +G+L L+ DSTN G SE + + + DI KNAKG V+V TF+S++ R++ +I
Sbjct: 179 YGKKGVLLLISDSTNVENPGFTPSEAKVLEQLNDIFKNAKGRVIVATFASNIHRVQQLIQ 238
Query: 246 IAEQIGRKIVLLGSSLKRVVSVAIDVGIIK-KDQLFLSDESFGLYPREQLIVIATGSQGE 304
IA + GRK + G S++ + +A +G+IK F+S + P E ++I TGSQGE
Sbjct: 239 IARKQGRKFAVYGRSMEHLFGIARRLGLIKNPHNNFISLKEVNNSPDENYLIITTGSQGE 298
Query: 305 PRSALAQLSRGEMRNVKLAEKDTVIFSSRAIPGNEVAIGH--IKNRLVEQGVRVIAEDAE 362
P +AL +++ E +++ + DTV+FS+ IPGNE + RL E G RVI
Sbjct: 299 PYAALTRIANNEHEQIRIRKGDTVVFSAPPIPGNENIAVSILLDIRLNEVGARVIKR--- 355
Query: 363 CPVHVSGHPYPNDLKRMYQWIRPQVLVAIHGEPLHLVAHKELALQEGI--ACVPPVRNGK 420
+HVSGH D K + + ++P+ ++ +HGE L+ H +LA +EG + +RNG
Sbjct: 356 --IHVSGHASQEDHKLLLRLLKPKYIIPVHGEYRMLINHTKLAEEEGYPGENIFILRNGD 413
Query: 421 MLRLFPDPI 429
+L + I
Sbjct: 414 VLEINGKFI 422
>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 = 82.2 bits (203), Expect = 3e-16
Identities = 44/196 (22%), Positives = 73/196 (37%), Gaps = 31/196 (15%)
Query: 14 VGEIGMNMALYGYGSPSSRKWIMIDCGVSFPKDDLPGVDLVFPDITFIMKERKNLMAIFI 73
+G +G+N L I+ID G +D L + + P K++ AI +
Sbjct: 1 LGGVGVNSYLVEGD----GGAILIDTGPGEAEDLLAELKKLGP---------KDIDAIIL 47
Query: 74 THAHEDHYGALHDLWSFLHVPVYASPFAIGLLEAKRVYERVS-----KKIPCISFQAGDK 128
TH H DH G L +L PVYA LL+ P + + G++
Sbjct: 48 THGHPDHIGGLPELLEAPGAPVYAPEGTAELLKDLLKLGGALGAEAPPPPPDRTLKDGEE 107
Query: 129 VDVGAFSIESVRVNHSIPETMALVIRSPVGNIVHTGDWKLDDDAILGDVTDKDSLCAIGN 188
+D+G +E + P ++ L + G I+ TGD +
Sbjct: 108 LDLGGLELEVIHTPGHTPGSIVLYLPE--GKILFTGDLLFSGGI-----------GRTDD 154
Query: 189 EGILALMCDSTNAMRE 204
+G A DS ++ +
Sbjct: 155 DGGDASASDSLESLLK 170
>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 = 44.5 bits (106), Expect = 7e-05
Identities = 44/147 (29%), Positives = 66/147 (44%), Gaps = 36/147 (24%)
Query: 11 LGGVGEIGMNMALYGYGSPSSRKWIMIDCGVS---FPKDDLPGVDLVFPDITFIMKERKN 67
LGG E+G + AL +P SR I++DCGV+ + P +D+ P+
Sbjct: 180 LGGFREVGRS-ALL-LSTPESR--ILLDCGVNVGANGDNAYPYLDV--PEFQL-----DE 228
Query: 68 LMAIFITHAHEDHYGALHDLWSF-LHVPVYASP-----FAIGLLEAKRVYERVSKKIPCI 121
L A+ ITHAH DH G + L+ + PVY +P + L+ V +R KK P
Sbjct: 229 LDAVVITHAHLDHSGLVPLLFKYGYDGPVYCTPPTRDLMTLLQLDYIDVAQREGKKPP-- 286
Query: 122 SFQAGDKVDVGAFSIESVR--VNHSIP 146
+S + VR + H+I
Sbjct: 287 ------------YSSKDVREALKHTIT 301
>gnl|CDD|148882 pfam07521, RMMBL, RNA-metabolising metallo-beta-lactamase. The
metallo-beta-lactamase fold contains five sequence
motifs. The first four motifs are found in pfam00753 and
are common to all metallo-beta-lactamases. The fifth
motif appears to be specific to function. This entry
represents the fifth motif from metallo-beta-lactamases
involved in RNA metabolism.
Length = 43
Score = 43.6 bits (104), Expect = 1e-04
Identities = 10/31 (32%), Positives = 20/31 (64%)
Query: 365 VHVSGHPYPNDLKRMYQWIRPQVLVAIHGEP 395
+H SGH +L + + ++P+ ++ +HGEP
Sbjct: 12 LHFSGHADQEELLELLKLLKPKKVILVHGEP 42
>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 = 43.7 bits (104), Expect = 1e-04
Identities = 22/84 (26%), Positives = 31/84 (36%), Gaps = 17/84 (20%)
Query: 56 PDITFIMKERKNLMAIFITHAHEDHYGALHDLWSFLHVPVYASPFAIGLLEAKRVYERVS 115
P + + L AI +TH H DH G + +L PVY
Sbjct: 32 PVLDALEARGLTLTAILLTHHHHDHVGGVAELLEAFPAPVYGP---------------AE 76
Query: 116 KKIPCI--SFQAGDKVDVGAFSIE 137
++IP I + GD V +G E
Sbjct: 77 ERIPGITHPVKDGDTVTLGGLEFE 100
>gnl|CDD|179371 PRK02113, PRK02113, putative hydrolase; Provisional.
Length = 252
Score = 37.5 bits (87), Expect = 0.010
Identities = 26/90 (28%), Positives = 37/90 (41%), Gaps = 25/90 (27%)
Query: 33 KWIMIDCGVSFPKDDLPGVDLVFPDITFIMKERKNLMAIFITHAHEDHYGALHDLWSFLH 92
I+IDCG F + ++ + A+ ITH H DH G L DL F
Sbjct: 45 ARILIDCGPDFREQ------MLRLPF-------GKIDAVLITHEHYDHVGGLDDLRPFCR 91
Query: 93 ---VPVYASPFAIGLLEAKRVYERVSKKIP 119
VP+YA + V ER+ ++P
Sbjct: 92 FGEVPIYAEQY---------VAERLRSRMP 112
>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 = 32.2 bits (74), Expect = 0.38
Identities = 25/94 (26%), Positives = 36/94 (38%), Gaps = 16/94 (17%)
Query: 66 KNLMAIFITHAHEDHY----GALHDLWSF--------LHVPVYASPFAIGLLEAKRVYER 113
+ IFITH H DH G L SF ++ P F L Y
Sbjct: 50 MKIDRIFITHLHGDHILGLPGLLS-TMSFQGRKEPLTIYGPPGIKEFIETSLRV--SYTY 106
Query: 114 VSKKIPCISFQAGDKV-DVGAFSIESVRVNHSIP 146
++ I + G V + F +E+ ++HSIP
Sbjct: 107 LNYPIKIHEIEEGGLVFEDDGFKVEAFPLDHSIP 140
>gnl|CDD|182327 PRK10241, PRK10241, hydroxyacylglutathione hydrolase;
Provisional.
Length = 251
Score = 31.7 bits (72), Expect = 0.54
Identities = 13/28 (46%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 70 AIFITHAHEDHYGALHDLWS-FLHVPVY 96
AIF+TH H DH G + +L F + VY
Sbjct: 48 AIFLTHHHHDHVGGVKELVEKFPQIVVY 75
>gnl|CDD|161839 TIGR00361, ComEC_Rec2, DNA internalization-related competence
protein ComEC/Rec2. The role for this protein in
species that are not naturally transformable is unknown.
Length = 662
Score = 30.6 bits (69), Expect = 1.1
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 4/52 (7%)
Query: 33 KWIMIDCGVSFPKDDLPGVDLVFPDITFIMKERKNLMAIFITHAHEDHYGAL 84
K I+ D G + + L G ++ P F+ + L A+ ++HA +DH G
Sbjct: 460 KGILYDTGEPWREGSL-GEKVIIP---FLTAKGIKLEALILSHADQDHIGGA 507
>gnl|CDD|180093 PRK05452, PRK05452, anaerobic nitric oxide reductase
flavorubredoxin; Provisional.
Length = 479
Score = 30.5 bits (69), Expect = 1.2
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 71 IFITHAHEDHYGALHDLWSFL-HVPVYASPFAI 102
I I HA EDH GAL +L + + P+Y + AI
Sbjct: 75 IVINHAEEDHAGALTELMAQIPDTPIYCTANAI 107
>gnl|CDD|178829 PRK00055, PRK00055, ribonuclease Z; Reviewed.
Length = 270
Score = 29.8 bits (68), Expect = 2.1
Identities = 14/54 (25%), Positives = 16/54 (29%), Gaps = 19/54 (35%)
Query: 35 IMIDCG----VSFPKDDLPGVDLVFPDITFIMKERKNLMAIFITHAHEDHYGAL 84
+ DCG K + I IFITH H DH L
Sbjct: 32 FLFDCGEGTQRQLLKTGIK-----PRKID----------KIFITHLHGDHIFGL 70
>gnl|CDD|180832 PRK07090, PRK07090, class II aldolase/adducin domain protein;
Provisional.
Length = 260
Score = 29.6 bits (67), Expect = 2.1
Identities = 14/37 (37%), Positives = 17/37 (45%), Gaps = 3/37 (8%)
Query: 367 VSGHPYPNDLKRMYQWI---RPQVLVAIHGEPLHLVA 400
+ G PN R + WI RP V IH P H+ A
Sbjct: 92 LDGEGMPNPANRFHSWIYRARPDVNCIIHTHPPHVAA 128
>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230;
Provisional.
Length = 2849
Score = 29.2 bits (65), Expect = 3.2
Identities = 15/64 (23%), Positives = 25/64 (39%), Gaps = 3/64 (4%)
Query: 178 TDKDSLCAIGNEGILALMCDSTNAMREGTCISEKGIKKNI--YDIMKNAKGCVLVTTFSS 235
K C NEGI+ + + + + +K I K+I YD K C ++ S
Sbjct: 2510 LKKHFACTCDNEGIIHMKIE-KITLDKIKIDEDKRIDKDICKYDSTKKVATCEIIDFIDS 2568
Query: 236 SVSR 239
+
Sbjct: 2569 LALK 2572
>gnl|CDD|173184 PRK14721, flhF, flagellar biosynthesis regulator FlhF; Provisional.
Length = 420
Score = 28.4 bits (63), Expect = 5.2
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 306 RSALAQLSRGEMRNVKLA-EKDTVIFSSRAIPG 337
R LA S +R VK D VI S++ +PG
Sbjct: 4 RKFLAATSHEVLRKVKEELGPDAVILSNKQVPG 36
>gnl|CDD|181927 PRK09522, PRK09522, bifunctional glutamine
amidotransferase/anthranilate phosphoribosyltransferase;
Provisional.
Length = 531
Score = 28.1 bits (62), Expect = 6.1
Identities = 17/45 (37%), Positives = 22/45 (48%), Gaps = 3/45 (6%)
Query: 272 GIIKKDQLFLSDESFGLYPREQLIVIATGSQGEPRSALAQLSRGE 316
G IK QL D Y +EQL A G+ E R L +L +G+
Sbjct: 438 GEIKSYQLTAEDFGLTPYHQEQL---AGGTPEENRDILTRLLQGK 479
>gnl|CDD|179375 PRK02126, PRK02126, ribonuclease Z; Provisional.
Length = 334
Score = 28.0 bits (63), Expect = 6.5
Identities = 6/12 (50%), Positives = 9/12 (75%)
Query: 70 AIFITHAHEDHY 81
IF++H H DH+
Sbjct: 50 HIFVSHTHMDHF 61
>gnl|CDD|178929 PRK00208, thiG, thiazole synthase; Reviewed.
Length = 250
Score = 28.1 bits (64), Expect = 6.7
Identities = 29/88 (32%), Positives = 39/88 (44%), Gaps = 29/88 (32%)
Query: 424 LFPDPIEIID--EVVHGLFLKDGFLIGKF----ADLGIAKRRQLSFVGHLSVNVL----- 472
L PDPIE + E++ +K+GF++ D +AKR L G +V L
Sbjct: 105 LLPDPIETLKAAEIL----VKEGFVV--LPYCTDDPVLAKR--LEEAGCAAVMPLGAPIG 156
Query: 473 ----LDNHYNI------FGVPEIVDIGI 490
L N YN+ VP IVD GI
Sbjct: 157 SGLGLLNPYNLRIIIEQADVPVIVDAGI 184
>gnl|CDD|130908 TIGR01849, PHB_depoly_PhaZ, polyhydroxyalkanoate depolymerase,
intracellular. This model represents an intracellular
depolymerase for polyhydroxyalkanoate (PHA), a carbon
and energy storing polyester that accumulates in
granules in many bacterial species when carbon sources
are abundant but other nutrients are limiting. This
family is named for PHAs generally, rather than
polyhydroxybutyrate (PHB) specificially as in Ralstonia
eutropha H16, to avoid overcalling chemical specificity
in other species. Note that this family lacks the
classic GXSXG lipase motif and instead shows weak
similarity to some.
Length = 406
Score = 27.4 bits (61), Expect = 8.9
Identities = 15/81 (18%), Positives = 32/81 (39%), Gaps = 12/81 (14%)
Query: 83 ALHDLWSFLHVPVYASPFAIGLLEAKRVYERVSKKIPCISFQAGDKVDVGAFSIESVRVN 142
A+ +S+ P+ PFA + ++ER ++ + + I+ V V+
Sbjct: 21 AMASYFSWPPNPLADHPFARRMHAGLELFERFTR-----------RYGKPEWGIDEVEVD 69
Query: 143 -HSIPETMALVIRSPVGNIVH 162
+P +V P ++H
Sbjct: 70 GKDVPIRERVVWDKPFCRLIH 90
>gnl|CDD|150558 pfam09899, DUF2126, Putative amidoligase enzyme (DUF2126). Members
of this family of bacterial domains are predominantly
found in transglutaminase and transglutaminase-like
proteins. Their exact function is, as yet, unknown, but
they are likely to act as amidoligase enzymes Protein in
this family are found in conserved gene neighborhoods
encoding a glutamine amidotransferase-like thiol
peptidase (in proteobacteria) or an Aig2 family
cyclotransferase protein (in firmicutes).
Length = 817
Score = 27.6 bits (62), Expect = 9.0
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 358 AEDAECPVHVSGHPYPND 375
AE+ PVH+ G+P P D
Sbjct: 356 AEELGLPVHIEGYPPPRD 373
>gnl|CDD|183052 PRK11244, phnP, carbon-phosphorus lyase complex accessory protein;
Provisional.
Length = 250
Score = 27.6 bits (62), Expect = 9.7
Identities = 23/96 (23%), Positives = 37/96 (38%), Gaps = 16/96 (16%)
Query: 68 LMAIFITHAHEDHY-GALHDLWSF-LHVPVYASPFAIGLLEAKRVYERVSKKIPCI---- 121
L I +TH H DH G W +PVY P G + ++ K P I
Sbjct: 67 LQQILLTHYHMDHVQGLFPLRWGVGDPIPVYGPPDPEGCDD---LF-----KHPGILDFS 118
Query: 122 -SFQAGDKVDVGAFSIESVRVNHSIPETMALVIRSP 156
+ + D+G + + +NHS T ++ +
Sbjct: 119 HPLEPFEPFDLGGLQVTPLPLNHSKL-TFGYLLETA 153
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 0.141 0.415
Gapped
Lambda K H
0.267 0.0763 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 9,446,512
Number of extensions: 649986
Number of successful extensions: 1242
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1234
Number of HSP's successfully gapped: 26
Length of query: 559
Length of database: 5,994,473
Length adjustment: 98
Effective length of query: 461
Effective length of database: 3,876,889
Effective search space: 1787245829
Effective search space used: 1787245829
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: 60 (26.8 bits)