RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780847|ref|YP_003065260.1| hypothetical protein
CLIBASIA_03710 [Candidatus Liberibacter asiaticus str. psy62]
(282 letters)
>gnl|CDD|162373 TIGR01460, HAD-SF-IIA, Haloacid Dehalogenase Superfamily Class
(subfamily) IIA. Many of the genes in this subfamily
have been annotated as "pNPPase" "4-nitrophenyl
phosphatase" or "NPPase". These all refer to the same
activity versus a common lab test compound used to
determine phosphatase activity. There is no evidence
that this activity is physiologically relevant.
Length = 236
Score = 146 bits (370), Expect = 7e-36
Identities = 70/240 (29%), Positives = 102/240 (42%), Gaps = 15/240 (6%)
Query: 18 ILCDVWGVLHNGQKFLPGTIPALKEARENGLKVILFTNSP-RPSASVISQIQSLGSSSQF 76
L D+ GVL G K +PG AL R G V+ TN+ R ++ SL
Sbjct: 1 FLFDIDGVLWLGHKPIPGAAEALNRLRAKGKPVVFLTNNSSRSEEDYAEKLSSLLGVDVS 60
Query: 77 WDDIITSGDLTHHLLVEESHN--IFFIGPQRDYALLEKLNIK-----IVNEQHAETILCT 129
D IITSG +T LL + ++ IG LE L + ++ E I
Sbjct: 61 PDQIITSGSVTKDLLRQRFEGEKVYVIGVGELRESLEGLGFRNDFFDDIDHLAIEKIPAA 120
Query: 130 GLYDDEKDKTEDYRMLLERFAHR-HIPLICAN-PDIVANRGNKIIPCAGALALIYQQLNG 187
+ + D + D +P I AN D+V + P AGA+A ++L+G
Sbjct: 121 VIVGEPSDFSYDELAKAAYLLAEGDVPFIAANRDDLVRLGDGRFRPGAGAIAAGIKELSG 180
Query: 188 IVKMI-GKPHLPIYEMAFKKISSLCNSFNKKRILAIGDGMDTDIKGALQSGIDALYVSDG 246
+ GKP IY A +L + ++R + +GD + TDI GA +G D L V G
Sbjct: 181 REPTVVGKPSPAIYRAA----LNLLQARPERRDVMVGDNLRTDILGAKNAGFDTLLVLTG 236
>gnl|CDD|130526 TIGR01459, HAD-SF-IIA-hyp4, HAD-superfamily class IIA hydrolase,
TIGR01459. This hypothetical equivalog is a member of
the Class IIA subfamily of the haloacid dehalogenase
superfamily of aspartate-nucleophile hydrolases. The
sequences modelled by this equivalog are all gram
negative and primarily alpha proteobacteria. Only one
sequence hase been annotated as other than
"hypothetical." That one, from Brucella, is annotated as
related to NagD, but only by sequence similarity and
should be treated with some skepticism. (See comments
for Class IIA subfamily).
Length = 242
Score = 136 bits (343), Expect = 7e-33
Identities = 78/239 (32%), Positives = 109/239 (45%), Gaps = 16/239 (6%)
Query: 15 YDVILCDVWGVLHNGQKFLPGTIPALKEARENGLKVILFTNSPRPSASVISQIQSLGSSS 74
YDV L D+WGV+ +G PG + L + G V +NSPR S+ ++SLG ++
Sbjct: 8 YDVFLLDLWGVIIDGNHTYPGAVQNLNKIIAQGKPVYFVSNSPRNIFSLHKTLKSLGINA 67
Query: 75 QFWDDIITSGDLTHHLLVEESHNIFFIGPQRDYALLEKLNIKI----------VNEQHAE 124
+ II+SG++ ++ ES F I Y L N I N+ +A
Sbjct: 68 DLPEMIISSGEIA-VQMILESKKRFDIRNGIIYLLGHLENDIINLMQCYTTDDENKANAS 126
Query: 125 TILCTGLYDDEKDKTEDYRMLLERFAHRHIPLICANPDIVANRGNKIIPCAGALALIYQQ 184
I +++ D E + L R IP ICANPD N+ AG A + +Q
Sbjct: 127 LITIYRSENEKLDLDE-FDELFAPIVARKIPNICANPDRGINQHGIYRYGAGYYAELIKQ 185
Query: 185 LNGIVKMIGKPHLPIYEMAFKKISSLCNSFNKKRILAIGDGMDTDIKGALQSGIDALYV 243
L G V GKP Y F K C++ K R+L +GD TDI GA + GID V
Sbjct: 186 LGGKVIYSGKP----YPAIFHKALKECSNIPKNRMLMVGDSFYTDILGANRLGIDTALV 240
>gnl|CDD|162369 TIGR01452, PGP_euk, phosphoglycolate/pyridoxal phosphate
phosphatase family. This model is closely related to a
family of bacterial sequences including the E. coli NagD
and B. subtilus AraL genes which are characterized by
the ability to hydrolyze para-nitrophenylphosphate
(pNPPases or NPPases). The chlamydomonas PGPase does not
catalyze this reaction and so presumably these two
groups have different functions and substrate
specificities. Many of the genes in this alignment have
been annotated as pNPPases due to this association.
Length = 279
Score = 53.3 bits (128), Expect = 7e-08
Identities = 60/290 (20%), Positives = 105/290 (36%), Gaps = 40/290 (13%)
Query: 16 DVILCDVWGVLHNGQKFLPGTIPALKEARENGLKVILFTNSPRPS-ASVISQIQSLG--- 71
+ D GVL G++ +PG L G + TN+ S A + LG
Sbjct: 3 QGFIFDCDGVLWLGERVVPGAPELLDRLARAGKAALFVTNNSTKSRAEYALKFARLGFNG 62
Query: 72 SSSQFWDDIITSGDLTHHLLVEESHNIFFIGPQRDYALLEKLNIKIVNE----QHAETIL 127
+ Q + + + L + ++ IG + A L+ I++ + A
Sbjct: 63 LAEQLFSSALCAARLLRQP-PDAPKAVYVIGEEGLRAELDAAGIRLAGDPSAGDGAAPRG 121
Query: 128 CTGLYDDEK---------DKTEDYRMLLERFAHRHIP---LICANPDIVANRGN-KIIPC 174
E+ D+ Y L E AH P + N D + P
Sbjct: 122 SGAFMKLEENVGAVVVGYDEHFSYAKLREACAHLREPGCLFVATNRDPWHPLSDGSRTPG 181
Query: 175 AGALALIYQQLNG---IVKMIGKPHLPIYEMAFKKISSLCNSFNKKRILAIGDGMDTDIK 231
G+L + +G +V +GKP F+ I+ + + R L +GD ++TDI
Sbjct: 182 TGSLVAAIETASGRQPLV--VGKPSPY----MFECITENFS-IDPARTLMVGDRLETDIL 234
Query: 232 GALQSGIDALYVSDGIHRHEYLFNDNIDAQMLQNFFTKKNLYPHWWIQQL 281
+ G+ + V G+ R E +AQ + +L P + ++ L
Sbjct: 235 FGHRCGMTTVLVLSGVSRLE-------EAQEYLA-AGQHDLVPDYVVESL 276
>gnl|CDD|130524 TIGR01457, HAD-SF-IIA-hyp2, HAD-superfamily subfamily IIA
hydrolase, TIGR01457. This hypothetical equivalog is a
member of the Class IIA subfamily of the haloacid
dehalogenase superfamily of aspartate-nucleophile
hydrolases. The sequences modelled by this equivalog are
all gram positive (low-GC) bacteria. Sequences found in
this model are annotated variously as related to NagD or
4-nitrophenyl phosphatase, and this hypothetical
equivalog, of all of those within the Class IIA
subfamily, is most closely related to the E. coli NagD
enzyme and the PGP_euk equivalog (TIGR01452). However,
there is presently no evidence that this hypothetical
equivalog has the same function of either those.
Length = 249
Score = 52.9 bits (127), Expect = 8e-08
Identities = 53/255 (20%), Positives = 109/255 (42%), Gaps = 29/255 (11%)
Query: 15 YDVILCDVWGVLHNGQKFLPGTIPALKEARENGLKVILFTN----SPRPSASVISQIQSL 70
Y L D+ G ++ G++ +P + E ++ + + TN +P A +++
Sbjct: 1 YKGYLIDLDGTMYKGKERIPEAETFVHELQKRDIPYLFVTNNSTRTPESVAEMLASFDIP 60
Query: 71 GSSSQFWDDIITSGDLTHHLLVEESHNIFFIGPQRDYALLEKLNIKIVNEQHAETILCTG 130
+ + + + D + L +E++ ++ IG + +++ E+ ++ G
Sbjct: 61 ATLETVFTASMATADYMNDLKLEKT--VYVIGEEGLKEAIKEAGYVEDKEKPDYVVV--G 116
Query: 131 LYDDEKDKTEDYRMLLERFA------HRHIPLICANPDIVANRGNKIIPCAGALALIYQQ 184
L D+ DY E+FA + I N D+ ++P G+L + +
Sbjct: 117 L-----DRQIDY----EKFATATLAIRKGAHFIGTNGDLAIPTERGLLPGNGSLITVLEV 167
Query: 185 LNGIVKM-IGKPHLPIYEMAFKKISSLCNSFNKKRILAIGDGMDTDIKGALQSGIDALYV 243
G+ + IGKP+ I E A + + + ++ L +GD TDI+ + +GID L V
Sbjct: 168 ATGVKPVYIGKPNAIIMEKAVEHLGT-----EREETLMVGDNYLTDIRAGIDAGIDTLLV 222
Query: 244 SDGIHRHEYLFNDNI 258
G+ + E + I
Sbjct: 223 HTGVTKAEEVAGLPI 237
>gnl|CDD|182466 PRK10444, PRK10444, UMP phosphatase; Provisional.
Length = 248
Score = 44.0 bits (104), Expect = 4e-05
Identities = 55/247 (22%), Positives = 101/247 (40%), Gaps = 45/247 (18%)
Query: 18 ILCDVWGVLHNGQKFLPGTIPALKEARENGLKVILFTNSPRPSA-SVISQIQSLG---SS 73
++CD+ GVL + +PG L + GL ++L TN P + + ++ + G
Sbjct: 4 VICDIDGVLMHDNVAVPGAAEFLHRILDKGLPLVLLTNYPSQTGQDLANRFATAGVDVPD 63
Query: 74 SQFWDDIITSGDLTHHLLVEESHNIFFIGPQRDYALLEKL-----NIKIVNEQH---AET 125
S F+ + + D +E + IG + AL+ +L I +N ET
Sbjct: 64 SVFYTSAMATADFLRR---QEGKKAYVIG---EGALIHELYKAGFTITDINPDFVIVGET 117
Query: 126 ILCTGLYDDEKDKTEDYRMLLE--RFAHRHIPLICANPDIVANRGNKIIPCAGALALIYQ 183
++ ++ M+ + F I NPD G P GAL +
Sbjct: 118 ------------RSYNWDMMHKAAYFVANGARFIATNPD---THGRGFYPACGALCAGIE 162
Query: 184 QLNGIVKM---IGKPHLPIYEMAFKKISSLCNSFNKKRILAIGDGMDTDIKGALQSGIDA 240
+++G + +GKP I A K+ + + + + +GD + TDI Q+G++
Sbjct: 163 KISG--RKPFYVGKPSPWIIRAALNKMQA-----HSEETVIVGDNLRTDILAGFQAGLET 215
Query: 241 LYVSDGI 247
+ V G+
Sbjct: 216 ILVLSGV 222
>gnl|CDD|178475 PLN02887, PLN02887, hydrolase family protein.
Length = 580
Score = 41.0 bits (96), Expect = 3e-04
Identities = 23/60 (38%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 3 KEITSLRTILPYYDVILCDVWGVLHNGQKFLPGT-IPALKEARENGLKVILFTNSPRPSA 61
K+ SLR P + I CD+ G L N + + T ALKEA G+KV++ T RP+
Sbjct: 296 KKEGSLRFYKPKFSYIFCDMDGTLLNSKSQISETNAKALKEALSRGVKVVIATGKARPAV 355
>gnl|CDD|181865 PRK09449, PRK09449, dUMP phosphatase; Provisional.
Length = 224
Score = 39.9 bits (94), Expect = 8e-04
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 4/48 (8%)
Query: 192 IGKPHLPIYEMAFKKISSLCNSFNKKRILAIGDGMDTDIKGALQSGID 239
+ KP + I++ A + ++ R+L +GD + +DI G + +GID
Sbjct: 148 VAKPDVAIFDYAL----EQMGNPDRSRVLMVGDNLHSDILGGINAGID 191
>gnl|CDD|162787 TIGR02253, CTE7, HAD superfamily (subfamily IA) hydrolase,
TIGR02253. This family is a member of the haloacid
dehalogenase (HAD) superfamily of hydrolases which are
characterized by three conserved sequence motifs. By
virtue of an alpha helical domain in-between the first
and second conserved motif, this family is a member of
subfamily IA (TIGR01549).
Length = 221
Score = 39.3 bits (92), Expect = 0.001
Identities = 24/88 (27%), Positives = 39/88 (44%), Gaps = 17/88 (19%)
Query: 31 KFLPGTIPALKEARENGLKVILFTNSPRPSASVISQIQSLGSSS--QFWDDIITSGDLTH 88
+ PG L E RE+G ++ + T+ + Q + L F+D +ITS +
Sbjct: 94 RVYPGVRDTLMELRESGYRLGIITDGLP-----VKQWEKLERLGVRDFFDAVITSEEEG- 147
Query: 89 HLLVEESHNIFFIGPQRDYALLEKLNIK 116
VE+ H F YA L++L +K
Sbjct: 148 ---VEKPHPKIF------YAALKRLGVK 166
Score = 32.4 bits (74), Expect = 0.14
Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 9/48 (18%)
Query: 193 GKPHLPIYEMAFKKISSLCNSFNKK--RILAIGDGMDTDIKGALQSGI 238
KPH I+ A K + +GD +D DIKGA G+
Sbjct: 149 EKPHPKIFYAA-------LKRLGVKPEEAVMVGDRLDKDIKGAKNLGM 189
>gnl|CDD|162395 TIGR01509, HAD-SF-IA-v3, haloacid dehalogenase superfamily,
subfamily IA, variant 3 with third motif having DD or
ED. HAD subfamilies caused by an overly broad single
model.
Length = 183
Score = 39.0 bits (91), Expect = 0.002
Identities = 25/59 (42%), Positives = 31/59 (52%), Gaps = 4/59 (6%)
Query: 31 KFLPGTIPALKEARENGLKVILFTNSPRPSASVISQIQSLGSSSQFWDDIITSGDLTHH 89
K LPG P L+ R G K+ L TNSPR A + +Q LG F D +I SGD+
Sbjct: 85 KPLPGVEPLLEALRARGKKLALLTNSPRDHAVL---VQELGLRDLF-DVVIFSGDVGRG 139
>gnl|CDD|162788 TIGR02254, YjjG/YfnB, HAD superfamily (subfamily IA) hydrolase,
TIGR02254. This family is a member of the haloacid
dehalogenase (HAD) superfamily of hydrolases which are
characterized by three conserved sequence motifs. By
virtue of an alpha helical domain in-between the first
and second conserved motif, this family is a member of
subfamily IA (TIGR01549). Most likely, these enzymes are
phosphatases.
Length = 224
Score = 37.9 bits (88), Expect = 0.003
Identities = 18/59 (30%), Positives = 31/59 (52%), Gaps = 6/59 (10%)
Query: 192 IGKPHLPIYEMAFKKISSLCNSFNKKRILAIGDGMDTDIKGALQSGIDALYVSDGIHRH 250
I KP I+ A +++ F+K+ +L IGD + DIKG +G+D +++ H
Sbjct: 150 IQKPDKEIFNYALERMPK----FSKEEVLMIGDSLTADIKGGQNAGLDTCWMN--PDMH 202
>gnl|CDD|182523 PRK10530, PRK10530, pyridoxal phosphate (PLP) phosphatase;
Provisional.
Length = 272
Score = 37.7 bits (88), Expect = 0.003
Identities = 19/41 (46%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 15 YDVILCDVWGVLHNGQK-FLPGTIPALKEARENGLKVILFT 54
Y VI D+ G L +K LP ++ AL ARE G KVI+ T
Sbjct: 3 YRVIALDLDGTLLTPKKTILPESLEALARAREAGYKVIIVT 43
>gnl|CDD|162372 TIGR01458, HAD-SF-IIA-hyp3, HAD-superfamily subfamily IIA
hydrolase, TIGR01458. This hypothetical equivalog is a
member of the IIA subfamily (TIGR01460) of the haloacid
dehalogenase superfamily of aspartate-nucleophile
hydrolases. One sequence (GP|10716807) has been
annotated as a "phospholysine phosphohistidine
inorganic pyrophosphatase," probably in reference to
studies on similarly described (but unsequenced)
enzymes from bovine and rat tissues. However, the
supporting information for this annotation has never
been published.
Length = 257
Score = 34.5 bits (79), Expect = 0.036
Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 6/81 (7%)
Query: 18 ILCDVWGVLHN----GQKFLPGTIPALKEARENGLKVILFTNSPRPS-ASVISQIQSLGS 72
+L D+ GVL+ +PG+ A+K R +KV TN+ + S ++ ++Q LG
Sbjct: 4 VLLDISGVLYISDAKSGVAVPGSQEAVKRLRGASVKVRFVTNTTKESKQDLLERLQRLGF 63
Query: 73 SSQFWDDIITSGDLTHHLLVE 93
D++ T LL E
Sbjct: 64 DIS-EDEVFTPAPAARQLLEE 83
>gnl|CDD|182696 PRK10748, PRK10748, flavin mononucleotide phosphatase; Provisional.
Length = 238
Score = 32.4 bits (74), Expect = 0.12
Identities = 10/29 (34%), Positives = 19/29 (65%)
Query: 217 KRILAIGDGMDTDIKGALQSGIDALYVSD 245
IL +GD + TD+ GA++ G+ A +++
Sbjct: 181 GEILHVGDDLTTDVAGAIRCGMQACWINP 209
>gnl|CDD|161707 TIGR00099, Cof-subfamily, Cof subfamily of IIB subfamily of
haloacid dehalogenase superfamily. The members of this
subfamily are restricted almost exclusively to bacteria
(one sequences from S. pombe scores above trusted,
while another is between trusted and noise). It is
notable that no archaea are found in this group, the
closest relations to the archaea found here being two
Deinococcus sequences.
Length = 256
Score = 31.9 bits (73), Expect = 0.19
Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 3/56 (5%)
Query: 17 VILCDVWG-VLHNGQKFLPGTIPALKEARENGLKVILFTNSPRPSASVISQIQSLG 71
+I D+ G +L++ P T AL + RE G+KV+L T RP V + ++ LG
Sbjct: 1 LIFIDLDGTLLNDDHTISPSTKEALAKLREKGIKVVLATG--RPYKEVKNILKELG 54
>gnl|CDD|130231 TIGR01163, rpe, ribulose-phosphate 3-epimerase. This family
consists of Ribulose-phosphate 3-epimerase, also known
as pentose-5-phosphate 3-epimerase (PPE). PPE converts
D-ribulose 5-phosphate into D-xylulose 5-phosphate in
Calvin's reductive pentose phosphate cycle. It has been
found in a wide range of bacteria, archebacteria, fungi
and plants.
Length = 210
Score = 31.9 bits (73), Expect = 0.19
Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 12/57 (21%)
Query: 5 ITSLRTILPYYDVILCDVWGVLHN----GQKFLPGTIPALKEAR----ENGLKVILF 53
+ L +LP D++L + V N GQKF+P T+ ++E R ENGL +++
Sbjct: 117 LEFLEYVLPDVDLVL--LMSV--NPGFGGQKFIPDTLEKIREVRKMIDENGLSILIE 169
>gnl|CDD|162371 TIGR01456, CECR5, HAD-superfamily class IIA hydrolase, TIGR01456,
CECR5. The Schizosaccharomyces pombe sequence
(EGAD|138276) is annotated as "phosphatidyl synthase,"
however this is due entirely to a C-terminal region of
the protein (outside the region of similarity of this
model) which is highly homologous to a family of
CDP-alcohol phosphatidyltransferases. (Thus, the
annotation of GP|4226073 from C. elegans as similar to
phosphatidyl synthase, is a mistake as this gene does
not contain the C-terminal portion). The physical
connection of the phosphatidyl synthase and the
HAD-superfamily hydrolase domain in S. pombe may,
however, be an important clue to the substrate for the
hydrolases in this equivalog.
Length = 321
Score = 31.4 bits (71), Expect = 0.27
Identities = 27/119 (22%), Positives = 45/119 (37%), Gaps = 18/119 (15%)
Query: 147 ERFAHRHIPLICANPDIVANRGNKIIPCAG------ALALIYQQLNGI---VKMIGKPHL 197
E+ IP+ +N D++ K+ G L IY +LNG +GKP
Sbjct: 178 EKSGKPSIPIYFSNQDLLWANEYKL-NRFGQGAFRLLLERIYLELNGKPLQYYTLGKPTK 236
Query: 198 PIYEMAFKKISSLCNSFNKKR--------ILAIGDGMDTDIKGALQSGIDALYVSDGIH 248
Y+ A + + + + +GD +DI GA G + V G++
Sbjct: 237 LTYDFAEDVLIDWEKRLSGTKPSTSPFHALYMVGDNPASDIIGAQNYGWFSCLVKTGVY 295
>gnl|CDD|178251 PLN02645, PLN02645, phosphoglycolate phosphatase.
Length = 311
Score = 30.5 bits (69), Expect = 0.52
Identities = 15/40 (37%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 210 LCNSFN--KKRILAIGDGMDTDIKGALQSGIDALYVSDGI 247
L N F K +I +GD +DTDI G L V G+
Sbjct: 239 LANKFGIEKSQICMVGDRLDTDILFGQNGGCKTLLVLSGV 278
Score = 30.1 bits (68), Expect = 0.59
Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 1/64 (1%)
Query: 9 RTILPYYDVILCDVWGVLHNGQKFLPGTIPALKEARENGLKVILFTNSPRPS-ASVISQI 67
++ + + D GV+ G K + G L R G K++ TN+ S A +
Sbjct: 22 DELIDSVETFIFDCDGVIWKGDKLIEGVPETLDMLRSMGKKLVFVTNNSTKSRAQYGKKF 81
Query: 68 QSLG 71
+SLG
Sbjct: 82 ESLG 85
>gnl|CDD|116866 pfam08282, Hydrolase_3, haloacid dehalogenase-like hydrolase. This
family contains haloacid dehalogenase-like hydrolase
enzymes.
Length = 254
Score = 30.3 bits (69), Expect = 0.64
Identities = 47/227 (20%), Positives = 92/227 (40%), Gaps = 33/227 (14%)
Query: 18 ILCDVWG-VLHNGQKFLPGTIPALKEARENGLKVILFTNSPRPSASVISQIQSLGSSSQF 76
I D+ G +L++ +K T A+K+ +E G+KV++ T RP + ++ LG
Sbjct: 1 IASDLDGTLLNSDKKISERTKEAIKKLQEKGIKVVIATG--RPYRGALPVLEELG----L 54
Query: 77 WDDIITS-GDLTHHLLVEESHNIFFIGPQRDYALLEKLNIKIVNEQHAETILCT--GLYD 133
+I G + E+ I + P ++++ I+ + E + +L T G Y
Sbjct: 55 DLPVICFNGAYIYD----ENGKILYKNPI-SKEDVKEI-IEYLKENNLSILLYTDDGAY- 107
Query: 134 DEKDKTEDYRMLLERFAHRHIPLICANPDIVANRG-NKIIPCA-----GALALIYQQLNG 187
D +E + E + L+ + +++ + NKI+ L ++L G
Sbjct: 108 ILNDVSEKI--VREERYVKSFVLVIDDFELLEDEDINKILIVTDPEDLDELEKELKELFG 165
Query: 188 IVKMIGKPHLPIYEMAFKKIS------SLCNSFN--KKRILAIGDGM 226
+ I E+ K +S +L + ++A GDG
Sbjct: 166 SLITITSSGPGYLEIMPKGVSKGTALKALAKHLGIDLEEVIAFGDGE 212
>gnl|CDD|180083 PRK05441, murQ, N-acetylmuramic acid-6-phosphate etherase;
Reviewed.
Length = 299
Score = 29.4 bits (67), Expect = 1.0
Identities = 12/34 (35%), Positives = 16/34 (47%)
Query: 34 PGTIPALKEARENGLKVILFTNSPRPSASVISQI 67
P I AL+ ARE G I + +P S + I
Sbjct: 145 PYVIGALEYARERGALTIGISCNPGSPLSKEADI 178
>gnl|CDD|183089 PRK11337, PRK11337, DNA-binding transcriptional repressor RpiR;
Provisional.
Length = 292
Score = 29.3 bits (66), Expect = 1.1
Identities = 30/107 (28%), Positives = 44/107 (41%), Gaps = 28/107 (26%)
Query: 16 DVILCDVWGVLHNGQKFLPGTIPALKEARENGLKVILFTNSPRPSASVISQIQSLGSSSQ 75
DV+L V H+G+ I A++ A++NG K+I TN S S I ++
Sbjct: 189 DVVL----VVSHSGRT--SDVIEAVELAKKNGAKIICITN------SYHSPI------AK 230
Query: 76 FWDDIITSGDLTHHLLVEESH------NI---FFIG-PQRDYALLEK 112
D +I S LL E + NI FF+ Q + E
Sbjct: 231 LADYVICSTAQGSPLLGENAAARIAQLNILDAFFVSVAQLNIEQAEI 277
>gnl|CDD|162473 TIGR01662, HAD-SF-IIIA, HAD-superfamily hydrolase, subfamily
IIIA. In the case of histidinol phosphatase and
PNK-3'-phosphatase, this model represents a domain of a
bifunctional system. In the histidinol phosphatase
HisB, a C-terminal domain is an
imidazoleglycerol-phosphate dehydratase which catalyzes
a related step in histidine biosynthesis. In
PNK-3'-phosphatase, N- and C-terminal domains
constitute the polynucleotide kinase and DNA-binding
components of the enzyme.
Length = 132
Score = 29.3 bits (66), Expect = 1.2
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 31 KFLPGTIPALKEARENGLKVILFTNS 56
P AL E +E G KV++ TN
Sbjct: 25 ILYPEVPDALAELKEAGYKVVIVTNQ 50
>gnl|CDD|182760 PRK10826, PRK10826, 2-deoxyglucose-6-phosphatase; Provisional.
Length = 222
Score = 29.1 bits (66), Expect = 1.2
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 33 LPGTIPALKEARENGLKVILFTNSP 57
LPG AL + GLK+ L + SP
Sbjct: 94 LPGVREALALCKAQGLKIGLASASP 118
>gnl|CDD|182512 PRK10518, PRK10518, alkaline phosphatase; Provisional.
Length = 476
Score = 28.5 bits (64), Expect = 1.8
Identities = 20/44 (45%), Positives = 23/44 (52%), Gaps = 10/44 (22%)
Query: 208 SSLCNSFNKKRILAIGDGM-DTDI-------KGA--LQSGIDAL 241
SL N K IL IGDGM D++I +GA GIDAL
Sbjct: 62 DSLSNKPAKNVILLIGDGMGDSEITAARNYAEGAGGFFKGIDAL 105
>gnl|CDD|163226 TIGR03351, PhnX-like, phosphonatase-like hydrolase. This clade of
sequences are the closest homologs to the PhnX enzyme,
phosphonoacetaldehyde (Pald) hydrolase (phosphonatase,
TIGR01422). This phosphonatase-like enzyme and PhnX
itself are members of the haloacid dehalogenase (HAD)
superfamily (pfam00702) having a a number of distinctive
features that set them apart from typical HAD enzymes.
The typical HAD N-terminal motif DxDx(T/V) here is DxAGT
and the usual conserved lysine prior to the C-terminal
motif is instead an arginine. Also distinctive of
phosphonatase, and particular to its bi-catalytic
mechanism is a conserved lysine in the variable "cap"
domain. This lysine forms a Schiff base with the
aldehyde of phosphonoacetaldehyde, providing, through
the resulting positive charge, a polarization of the C-P
bond necesary for cleavage as well as a route to the
initial product of cleavage, an ene-amine. The
conservation of these elements in this
phosphonatase-like enzyme suggests that the substrate is
also, like Pald, a 2-oxo-ethylphosphonate. Despite this,
the genomic context of members of this family are quite
distinct from PhnX, which is almost invariably
associated with the 2-aminoethylphosphonate transaminase
PhnW (TIGR02326), the source of the substrate Pald.
Members of this clade are never associated with PhnW,
but rather associate with families of FAD-dependent
oxidoreductases related to deaminating amino acid
oxidases (pfam01266) as well as zinc-dependent
dehydrogenases (pfam00107). Notably, family members from
Arthrobacter aurescens TC1 and Nocardia farcinica IFM
10152 are adjacent to the PhnCDE ABC cassette
phosphonates transporter (GenProp0236) typically found
in association with the phosphonates C-P lyase system
(GenProp0232). These observations suggest two
possibilities. First, the substrate for this enzyme
family is also Pald, the non-association with PhnW not
withstanding. Alternatively, the substrate is something
very closely related such as
hydroxyphosphonoacetaldehyde (Hpald). Hpald could come
from oxidative deamination of
1-hydroxy-2-aminoethylphosphonate (HAEP) by the
associated oxidase. HAEP would not be a substrate for
PhnW due to its high specificity for AEP. HAEP has been
shown to be a constituent of the sphingophosphonolipid
of Bacteriovorax stolpii, and presumably has other
natural sources. If Hpald is the substrate, the product
would be glycoaldehyde (hydroxyacetaldehyde), and the
associated alcohol dehydrogenase may serve to convert
this to glycol.
Length = 220
Score = 28.6 bits (64), Expect = 1.9
Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 33 LPGTIPALKEARENGLKVILFTNSPRPSASVISQIQSLG-SSSQFWDDIITSGD 85
LPG A + R +G+KV L T R +A + ++ LG + D ++ D
Sbjct: 89 LPGAEEAFRSLRSSGIKVALTTGFDRDTAERL--LEKLGWTVGDDVDAVVCPSD 140
>gnl|CDD|182991 PRK11142, PRK11142, ribokinase; Provisional.
Length = 306
Score = 28.3 bits (64), Expect = 2.5
Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 10/50 (20%)
Query: 33 LPGTIPALKEARENGLKVILFTNSPRPSASVISQIQSLGSSSQFWDDIIT 82
L + A K A+++G KVIL +P P+ + L DIIT
Sbjct: 144 LETVLAAAKIAKQHGTKVIL---NPAPA-------RELPDELLALVDIIT 183
>gnl|CDD|162385 TIGR01484, HAD-SF-IIB, HAD-superfamily hydrolase, subfamily IIB.
The IIB subfamily consists of Trehalose-6-phosphatase
(TIGR00685), plant and cyanobacterial
Sucrose-phosphatase and a closely related group of
bacterial and archaeal sequences, eukaryotic
phosphomannomutase (pfam03332), a large subfamily
("Cof-like hydrolases", TIGR00099) containing many
closely related bacterial sequences, a hypothetical
equivalog containing the E. coli YedP protein, as well
as two small clusters containing sequences whose
relationship to the other groups is unclear.
Length = 204
Score = 28.1 bits (63), Expect = 2.6
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 4/59 (6%)
Query: 17 VILCDVWGVL--HNGQKFLPGTIPALKEARENGLKVILFTNSPRPSASVISQIQSLGSS 73
++ D+ G L N + P TI AL+ RE G+KV+L T R A + ++ L
Sbjct: 1 LLFFDLDGTLLDPNAHELSPETIEALERLREAGVKVVLVTG--RSLAEIKELLKQLPLP 57
>gnl|CDD|178528 PLN02940, PLN02940, riboflavin kinase.
Length = 382
Score = 27.9 bits (62), Expect = 2.8
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 9/58 (15%)
Query: 31 KFLPGTIPALKEARENGLKVILFTNSPRPSASVISQIQSLGSSSQFWDD---IITSGD 85
K LPG +K + +G+ + L +NSPR + I++ S Q W + +I GD
Sbjct: 93 KALPGANRLIKHLKSHGVPMALASNSPR------ANIEAKISCHQGWKESFSVIVGGD 144
>gnl|CDD|180145 PRK05581, PRK05581, ribulose-phosphate 3-epimerase; Validated.
Length = 220
Score = 27.8 bits (63), Expect = 2.9
Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 12/50 (24%)
Query: 11 ILPYYDVILCDVWGVLHN----GQKFLPGTIPALKEAR----ENGLKVIL 52
+L D++L + V N GQKF+P + ++E R E GL +++
Sbjct: 128 VLDLLDLVL--LMSV--NPGFGGQKFIPEVLEKIRELRKLIDERGLDILI 173
>gnl|CDD|130205 TIGR01135, glmS, glucosamine--fructose-6-phosphate aminotransferase
(isomerizing). The member from Methanococcus jannaschii
contains an intein.
Length = 607
Score = 28.0 bits (63), Expect = 2.9
Identities = 10/31 (32%), Positives = 15/31 (48%)
Query: 36 TIPALKEARENGLKVILFTNSPRPSASVISQ 66
T+ AL+ A+E G K + N P + S
Sbjct: 354 TLAALRLAKELGAKTLGICNVPGSTLVRESD 384
>gnl|CDD|162475 TIGR01668, YqeG_hyp_ppase, HAD superfamily (subfamily IIIA)
phosphatase, TIGR01668. This family consists of
sequences from fungi, plants, cyanobacteria,
gram-positive bacteria and Deinococcus. There is
presently no characterization of any sequence in this
family.
Length = 170
Score = 27.8 bits (62), Expect = 3.2
Identities = 8/38 (21%), Positives = 20/38 (52%)
Query: 216 KKRILAIGDGMDTDIKGALQSGIDALYVSDGIHRHEYL 253
+++ +GD + TD+ G ++G + V +H ++
Sbjct: 108 SEQVAVVGDRLFTDVMGGNRNGSYTILVEPLVHPDQWF 145
>gnl|CDD|183060 PRK11259, solA, N-methyltryptophan oxidase; Provisional.
Length = 376
Score = 27.9 bits (63), Expect = 3.2
Identities = 9/43 (20%), Positives = 14/43 (32%), Gaps = 1/43 (2%)
Query: 115 IKIVNEQHAETILCTGLYDDEKDKTEDYRMLLERFAHRHIPLI 157
+KI + I D ED L F ++P +
Sbjct: 261 LKIGKHNGGQEITSPDERDRFVTVAEDGAE-LRPFLRNYLPGV 302
>gnl|CDD|179153 PRK00884, PRK00884, Maf-like protein; Reviewed.
Length = 194
Score = 28.0 bits (63), Expect = 3.2
Identities = 8/21 (38%), Positives = 12/21 (57%), Gaps = 3/21 (14%)
Query: 143 RMLLERFAHRHIPLICANPDI 163
R LLE+ +P CA P++
Sbjct: 14 RALLEKL---QLPFECAAPEV 31
>gnl|CDD|178369 PLN02770, PLN02770, haloacid dehalogenase-like hydrolase family
protein.
Length = 248
Score = 27.5 bits (61), Expect = 3.8
Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 3/58 (5%)
Query: 31 KFLPGTIPALKEARENGLKVILFTNSPRPSASVISQIQSLGSSSQFWDDIITSGDLTH 88
K L G K + GLK TN+PR +A ++ I LG S F+ +I + H
Sbjct: 108 KPLNGLYKLKKWIEDRGLKRAAVTNAPRENAELM--ISLLGLSD-FFQAVIIGSECEH 162
>gnl|CDD|184408 PRK13937, PRK13937, phosphoheptose isomerase; Provisional.
Length = 188
Score = 27.5 bits (62), Expect = 4.4
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 34 PGTIPALKEARENGLKVILFT 54
P + AL++ARE G+K I T
Sbjct: 120 PNVLAALEKARELGMKTIGLT 140
>gnl|CDD|185541 PTZ00292, PTZ00292, ribokinase; Provisional.
Length = 326
Score = 27.4 bits (61), Expect = 4.8
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 33 LPGTIPALKEARENGLKVILFTNSPRPSASVISQI 67
L T+ ALKEA+E G + F +P P + + I
Sbjct: 159 LETTLDALKEAKERGCYTV-FNPAPAPKLAEVEII 192
>gnl|CDD|177968 PLN02334, PLN02334, ribulose-phosphate 3-epimerase.
Length = 229
Score = 27.3 bits (61), Expect = 4.8
Identities = 10/45 (22%), Positives = 20/45 (44%), Gaps = 5/45 (11%)
Query: 6 TSLRTILPYYDVILCDVWGVL-----HNGQKFLPGTIPALKEARE 45
T + + P + L D+ V+ GQ F+P + ++ R+
Sbjct: 126 TPVEAVEPVVEKGLVDMVLVMSVEPGFGGQSFIPSMMDKVRALRK 170
>gnl|CDD|129317 TIGR00213, GmhB_yaeD, D,D-heptose 1,7-bisphosphate phosphatase.
This family of proteins formerly designated yaeD
resembles the histidinol phosphatase domain of the
bifunctional protein HisB. The member from E. coli has
been characterized as D,D-heptose 1,7-bisphosphate
phosphatase, GmhB, involved in inner core LPS assembly
(PubMed:11751812).
Length = 176
Score = 27.2 bits (60), Expect = 4.9
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 31 KFLPGTIPALKEARENGLKVILFTN 55
+F+ G I AL+E ++ G ++L TN
Sbjct: 26 EFIDGVIDALRELKKMGYALVLVTN 50
>gnl|CDD|131685 TIGR02637, RhaS, rhamnose ABC transporter, rhamnose-binding
protein. This sugar-binding component of ABC
transporter complexes is found in rhamnose catabolism
operon contexts. Mutation of this gene in Rhizobium
leguminosarum abolishes rhamnose transport and prevents
growth on rhamnose as a carbon source.
Length = 302
Score = 27.1 bits (60), Expect = 5.8
Identities = 9/23 (39%), Positives = 16/23 (69%)
Query: 37 IPALKEARENGLKVILFTNSPRP 59
+PALK+A + G+KV+ + + P
Sbjct: 71 VPALKKAMKRGIKVVTWDSGVAP 93
>gnl|CDD|115244 pfam06574, FAD_syn, FAD synthetase. This family corresponds to
the N terminal domain of the bifunctional enzyme
riboflavin kinase / FAD synthetase. These enzymes have
both ATP:riboflavin 5'-phospho transferase and
ATP:FMN-adenylyltransferase activity. They catalyse the
5'-phosphorylation of riboflavin to FMN and the
adenylylation of FMN to FAD. This domain is thought to
have the flavin mononucleotide (FMN)
adenylyltransferase activity.
Length = 158
Score = 26.7 bits (60), Expect = 6.3
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 39 ALKEARENGLKVILFTNSPRPS 60
A + ARE GL ++ T P P
Sbjct: 29 AKEIARELGLPSVVVTFEPHPR 50
>gnl|CDD|130561 TIGR01497, kdpB, K+-transporting ATPase, B subunit. One sequence
is apparently mis-annotated in the primary literature,
but properly annotated by TIGR.
Length = 675
Score = 26.8 bits (59), Expect = 6.8
Identities = 11/45 (24%), Positives = 22/45 (48%)
Query: 22 VWGVLHNGQKFLPGTIPALKEARENGLKVILFTNSPRPSASVISQ 66
++GV++ G + R+ G+K I+ T R +A+ I+
Sbjct: 437 IYGVIYLKDIVKGGIKERFAQLRKMGIKTIMITGDNRLTAAAIAA 481
>gnl|CDD|181350 PRK08279, PRK08279, long-chain-acyl-CoA synthetase; Validated.
Length = 600
Score = 26.8 bits (60), Expect = 7.3
Identities = 6/13 (46%), Positives = 9/13 (69%)
Query: 72 SSSQFWDDIITSG 84
S+S+FWDD+
Sbjct: 276 SASRFWDDVRRYR 288
>gnl|CDD|180171 PRK05627, PRK05627, bifunctional riboflavin kinase/FMN
adenylyltransferase; Reviewed.
Length = 305
Score = 26.7 bits (60), Expect = 7.4
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 39 ALKEARENGLKVILFTNSPRPSA 61
A + ARE GL ++ T P P
Sbjct: 36 AREIARERGLPSVVMTFEPHPRE 58
>gnl|CDD|183990 PRK13351, PRK13351, elongation factor G; Reviewed.
Length = 687
Score = 26.5 bits (59), Expect = 8.3
Identities = 10/36 (27%), Positives = 14/36 (38%), Gaps = 1/36 (2%)
Query: 131 LYDDEKDKTEDYRMLLERFAHRHIPLICANP-DIVA 165
LY+ K E L ++ + A DIVA
Sbjct: 338 LYNGTGGKREKVGRLFRLQGNKREEVDRAKAGDIVA 373
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 0.425
Gapped
Lambda K H
0.267 0.0642 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,708,244
Number of extensions: 302344
Number of successful extensions: 731
Number of sequences better than 10.0: 1
Number of HSP's gapped: 718
Number of HSP's successfully gapped: 53
Length of query: 282
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 190
Effective length of database: 4,006,537
Effective search space: 761242030
Effective search space used: 761242030
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: 57 (25.9 bits)