RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 020306
(328 letters)
>gnl|CDD|215297 PLN02541, PLN02541, uracil phosphoribosyltransferase.
Length = 244
Score = 418 bits (1077), Expect = e-149
Identities = 174/240 (72%), Positives = 203/240 (84%), Gaps = 2/240 (0%)
Query: 91 SYTPRRSYVTVRSH--MATEEKSISGDRMLVFVPPHPLIKHWVSILRNEQTPCPIFRNAM 148
S + R + S A+E + +MLVFVPPHPLIKHW+S+LRNEQTP PIFR+AM
Sbjct: 4 SRSSRLTRTVRASADAAASEPSPKAPQQMLVFVPPHPLIKHWLSVLRNEQTPPPIFRSAM 63
Query: 149 AELGRLLMYEASRDWLPTVSGEIQSPMGVASVEFIDPREPVAVIPILRAGLVLVEHASSI 208
AELGRLL+YEASRDWLPT++GE+Q+PMGVA VEFIDPREPVAV+PILRAGLVL+EHASS+
Sbjct: 64 AELGRLLIYEASRDWLPTMTGEVQTPMGVADVEFIDPREPVAVVPILRAGLVLLEHASSV 123
Query: 209 LPAIKTYHLGISRDEETLQPSIYLNKLPEKFPEGSRIFVVDPMLATGGTVVAALNLVKEC 268
LPA KTYHLG RDEETLQPS+YLNKLP+KFPEGSR+ VVDPMLATGGT+VAA++ +
Sbjct: 124 LPATKTYHLGFVRDEETLQPSMYLNKLPDKFPEGSRVLVVDPMLATGGTIVAAIDELVSR 183
Query: 269 GVENKQIKVISAVAAPPALQKLSENFHGLHVYTGIIDPTVNDKGFIVPGLGDAGDRSFGT 328
G +QI+V+ AVAAPPAL+KLSE F GLHVY GIID VN+KG+IVPGLGDAGDRSFGT
Sbjct: 184 GASVEQIRVVCAVAAPPALKKLSEKFPGLHVYAGIIDEEVNEKGYIVPGLGDAGDRSFGT 243
>gnl|CDD|234653 PRK00129, upp, uracil phosphoribosyltransferase; Reviewed.
Length = 209
Score = 278 bits (713), Expect = 3e-94
Identities = 99/213 (46%), Positives = 141/213 (66%), Gaps = 5/213 (2%)
Query: 116 RMLVFVPPHPLIKHWVSILRNEQTPCPIFRNAMAELGRLLMYEASRDWLPTVSGEIQSPM 175
M V V HPLI+H +++LR++ T FR + ELGRLL YEA+RD LP EI++P+
Sbjct: 1 MMKVHVVDHPLIQHKLTLLRDKNTSTKRFRELLEELGRLLAYEATRD-LPLEEVEIETPL 59
Query: 176 GVASVEFIDPREPVAVIPILRAGLVLVEHASSILPAIKTYHLGISRDEETLQPSIYLNKL 235
G + + I + + ++PILRAGL +V+ ++P+ + H+G+ RDEETL+P Y KL
Sbjct: 60 GKTTGKRIA-GKKLVIVPILRAGLGMVDGVLKLIPSARVGHIGLYRDEETLEPVEYYVKL 118
Query: 236 PEKFPEGSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVISAVAAPPALQKLSENFH 295
PE + + VVDPMLATGG+ +AA++L+K+ G K IKV+ VAAP ++ L E
Sbjct: 119 PEDI-DERTVIVVDPMLATGGSAIAAIDLLKKRGA--KNIKVLCLVAAPEGIKALEEAHP 175
Query: 296 GLHVYTGIIDPTVNDKGFIVPGLGDAGDRSFGT 328
+ +YT ID +N+ G+IVPGLGDAGDR FGT
Sbjct: 176 DVEIYTAAIDEKLNEHGYIVPGLGDAGDRLFGT 208
>gnl|CDD|130163 TIGR01091, upp, uracil phosphoribosyltransferase. A fairly deep
split in phylogenetic and UPGMA trees separates this
mostly prokaryotic set of uracil
phosphoribosyltransferases from a mostly eukaryotic set
that includes uracil phosphoribosyltransferase, uridine
kinases, and other, uncharacterized proteins [Purines,
pyrimidines, nucleosides, and nucleotides, Salvage of
nucleosides and nucleotides].
Length = 207
Score = 249 bits (639), Expect = 4e-83
Identities = 99/210 (47%), Positives = 140/210 (66%), Gaps = 5/210 (2%)
Query: 119 VFVPPHPLIKHWVSILRNEQTPCPIFRNAMAELGRLLMYEASRDWLPTVSGEIQSPMGVA 178
V V HPLIKH +++LR++ T FR + ELGRLL YEA+RD L E+++P+G
Sbjct: 2 VVVIEHPLIKHKLTLLRDKNTDTKEFRELLRELGRLLAYEATRD-LELEEVEVETPLGET 60
Query: 179 SVEFIDPREPVAVIPILRAGLVLVEHASSILPAIKTYHLGISRDEETLQPSIYLNKLPEK 238
I + + ++PILRAGL +V+ ++P K H+G R+EETL+P Y +KLPE
Sbjct: 61 EGGRILGK-KIVLVPILRAGLGMVDGVLKLIPEAKVGHVGAYRNEETLKPVPYYSKLPED 119
Query: 239 FPEGSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVISAVAAPPALQKLSENFHGLH 298
E + V+DPMLATGGT++AAL+L+K+ G K+IKV+S VAAP ++ + + +
Sbjct: 120 IDE-RTVIVLDPMLATGGTMIAALDLLKKRGA--KKIKVLSIVAAPEGIEAVEKAHPDVD 176
Query: 299 VYTGIIDPTVNDKGFIVPGLGDAGDRSFGT 328
+YT ID +ND G+IVPGLGDAGDR+FGT
Sbjct: 177 IYTAAIDEKLNDNGYIVPGLGDAGDRAFGT 206
>gnl|CDD|223113 COG0035, Upp, Uracil phosphoribosyltransferase [Nucleotide
transport and metabolism].
Length = 210
Score = 247 bits (632), Expect = 4e-82
Identities = 102/213 (47%), Positives = 143/213 (67%), Gaps = 4/213 (1%)
Query: 116 RMLVFVPPHPLIKHWVSILRNEQTPCPIFRNAMAELGRLLMYEASRDWLPTVSGEIQSPM 175
M V+V HPL+KH ++ILR++ T FR + E+GRLL YEA+RD LP EI++P+
Sbjct: 1 MMNVYVIDHPLVKHKLTILRDKNTGTKEFRELLDEIGRLLAYEATRD-LPLEKVEIETPL 59
Query: 176 GVASVEFIDPREPVAVIPILRAGLVLVEHASSILPAIKTYHLGISRDEETLQPSIYLNKL 235
G I ++ V V PILRAGL +VE ++P+ + H+GI RDEETL+P +Y KL
Sbjct: 60 GPTEGVQIAGKKIVIV-PILRAGLGMVEGLLKLIPSARVGHIGIYRDEETLEPVLYYEKL 118
Query: 236 PEKFPEGSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVISAVAAPPALQKLSENFH 295
PE + + V+DPMLATGG+ +AA++L+K+ G K IKV+S VAAP ++ + +
Sbjct: 119 PE-DIDERTVIVLDPMLATGGSAIAAIDLLKKRGGP-KNIKVVSLVAAPEGIKAVEKAHP 176
Query: 296 GLHVYTGIIDPTVNDKGFIVPGLGDAGDRSFGT 328
+ +YT ID +N+KG+IVPGLGDAGDR FGT
Sbjct: 177 DVEIYTAAIDEGLNEKGYIVPGLGDAGDRLFGT 209
>gnl|CDD|206754 cd06223, PRTases_typeI, Phosphoribosyl transferase (PRT)-type I
domain. Phosphoribosyl transferase (PRT) domain. The
type I PRTases are identified by a conserved PRPP
binding motif which features two adjacent acidic
residues surrounded by one or more hydrophobic residue.
PRTases catalyze the displacement of the
alpha-1'-pyrophosphate of
5-phosphoribosyl-alpha1-pyrpphosphate (PRPP) by a
nitrogen-containing nucleophile. The reaction products
are an alpha-1 substituted ribose-5'-phosphate and a
free pyrophosphate (PP). PRPP, an activated form of
ribose-5-phosphate, is a key metabolite connecting
nucleotide synthesis and salvage pathways. The type I
PRTase family includes a range of diverse phosphoribosyl
transferase enzymes and regulatory proteins of the
nucleotide synthesis and salvage pathways, including
adenine phosphoribosyltransferase EC:2.4.2.7.,
hypoxanthine-guanine-xanthine phosphoribosyltransferase,
hypoxanthine phosphoribosyltransferase EC:2.4.2.8.,
ribose-phosphate pyrophosphokinase EC:2.7.6.1.,
amidophosphoribosyltransferase EC:2.4.2.14., orotate
phosphoribosyltransferase EC:2.4.2.10., uracil
phosphoribosyltransferase EC:2.4.2.9., and
xanthine-guanine phosphoribosyltransferase EC:2.4.2.22.
Length = 130
Score = 70.9 bits (174), Expect = 3e-15
Identities = 34/123 (27%), Positives = 52/123 (42%), Gaps = 6/123 (4%)
Query: 184 DPREPVAVIPILRAGLVLVEHASSILPAIKTYHLGISRDEETLQPSIYLNKLPEKFP--E 241
D EP V+ ILR GL L + L + + R PS +
Sbjct: 12 DLLEPDVVVGILRGGLPLAAALARALG-LPLAFIRKERKGPGRTPSEPYGLELPLGGDVK 70
Query: 242 GSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVISAVAAPPALQKLSENFHGLHVYT 301
G R+ +VD ++ATGGT++AA+ L+KE G + + V + P + G VY+
Sbjct: 71 GKRVLLVDDVIATGGTLLAAIELLKEAGAKV--VGVAVLLDKPEGGARE-LASPGDPVYS 127
Query: 302 GII 304
Sbjct: 128 LFT 130
>gnl|CDD|215757 pfam00156, Pribosyltran, Phosphoribosyl transferase domain. This
family includes a range of diverse phosphoribosyl
transferase enzymes. This family includes: Adenine
phosphoribosyltransferase EC:2.4.2.7.
Hypoxanthine-guanine-xanthine phosphoribosyltransferase.
Hypoxanthine phosphoribosyltransferase EC:2.4.2.8.
Ribose-phosphate pyrophosphokinase i EC:2.7.6.1.
Amidophosphoribosyltransferase EC:2.4.2.14. Orotate
phosphoribosyltransferase EC:2.4.2.10. Uracil
phosphoribosyltransferase EC:2.4.2.9. Xanthine-guanine
phosphoribosyltransferase EC:2.4.2.22. In Arabidopsis,
At the very N-terminus of this domain is the P-Loop
NTPase domain.
Length = 123
Score = 60.1 bits (146), Expect = 2e-11
Identities = 27/96 (28%), Positives = 46/96 (47%), Gaps = 6/96 (6%)
Query: 188 PVAVIPILRAGLVLVEHASSIL-----PAIKTYHLGISRDEETLQPSIYLNKLPEKFPEG 242
P ++ I R G+ L + L K+ S + L++LPE +G
Sbjct: 28 PDVIVGIARGGIPLATALARELGIPLVLVRKSRSYPSSIKSRGGESVTLLSRLPEL-LKG 86
Query: 243 SRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVI 278
R+ +VD +L TGGT+ AA+ L+K+ G + + V+
Sbjct: 87 KRVLIVDDVLDTGGTLRAAVELLKKAGAKVVGVAVL 122
>gnl|CDD|235028 PRK02304, PRK02304, adenine phosphoribosyltransferase; Provisional.
Length = 175
Score = 47.8 bits (115), Expect = 1e-06
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 8/58 (13%)
Query: 214 TYHLGISRDEETLQPSIYLNKLPEKFPEGSRIFVVDPMLATGGTVVAALNLVKECGVE 271
+Y L D + ++K + G R+ +VD +LATGGT+ AA+ L++ G E
Sbjct: 94 SYELEYGTDT------LEIHK--DAIKPGDRVLIVDDLLATGGTLEAAIKLLERLGAE 143
>gnl|CDD|130318 TIGR01251, ribP_PPkin, ribose-phosphate pyrophosphokinase.
Alternate name: phosphoribosylpyrophosphate synthetase
In some systems, close homologs lacking enzymatic
activity exist and perform regulatory functions. The
model is designated subfamily rather than equivalog for
this reason [Purines, pyrimidines, nucleosides, and
nucleotides, Purine ribonucleotide biosynthesis].
Length = 308
Score = 44.2 bits (105), Expect = 4e-05
Identities = 16/58 (27%), Positives = 31/58 (53%), Gaps = 8/58 (13%)
Query: 241 EGSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVISAVAAP----PALQKLSENF 294
EG + +VD ++ TGGT+ A ++K G + +VI+A PA+++++
Sbjct: 209 EGKDVVIVDDIIDTGGTIAKAAEILKSAGAK----RVIAAATHGVFSGPAIERIANAG 262
>gnl|CDD|223577 COG0503, Apt, Adenine/guanine phosphoribosyltransferases and
related PRPP-binding proteins [Nucleotide transport and
metabolism].
Length = 179
Score = 41.9 bits (99), Expect = 1e-04
Identities = 24/107 (22%), Positives = 41/107 (38%), Gaps = 8/107 (7%)
Query: 180 VEFIDPREPVAVIPILRAGLVLVEHASSIL-----PAIKTYHLGIS--RDEETLQPSIYL 232
E ++ I G+ L + L P K L + L+
Sbjct: 46 AERYKDDGIDKIVTIEARGIPLAAAVALELGVPFVPVRKKGKLPEESVVETYYLEYGSET 105
Query: 233 NKLPEKF-PEGSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVI 278
+L + G R+ +VD +LATGGT +A + L+++ G E +
Sbjct: 106 LELHKDALKPGDRVLIVDDLLATGGTALALIELLEQAGAEVVGAAFV 152
>gnl|CDD|233267 TIGR01090, apt, adenine phosphoribosyltransferase. A phylogenetic
analysis suggested omitting the bi-directional best hit
homologs from the spirochetes from the seed for This
model and making only tentative predictions of adenine
phosphoribosyltransferase function for this lineage. The
trusted cutoff score is made high for this reason. Most
proteins scoring between the trusted and noise cutoffs
are likely to act as adenine phosphotransferase
[Purines, pyrimidines, nucleosides, and nucleotides,
Salvage of nucleosides and nucleotides].
Length = 169
Score = 41.5 bits (98), Expect = 1e-04
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 239 FPEGSRIFVVDPMLATGGTVVAALNLVKECGVE 271
G R+ +VD +LATGGT A L+++ G E
Sbjct: 106 IKPGQRVLIVDDLLATGGTAEATDELIRKLGGE 138
>gnl|CDD|234868 PRK00934, PRK00934, ribose-phosphate pyrophosphokinase;
Provisional.
Length = 285
Score = 40.7 bits (96), Expect = 6e-04
Identities = 27/114 (23%), Positives = 51/114 (44%), Gaps = 14/114 (12%)
Query: 184 DPREPVAVIPILRAGLVLVEHASSILPAIKTYHLG---ISRDE-ETLQPSIYLNKLPEKF 239
+P+ + P + L L + A+ IL + +L IS E E ++ +
Sbjct: 152 KLDDPLVLAPD-KGALELAKEAAEIL-GCEYDYLEKTRISPTEVEIAPKNLDVK------ 203
Query: 240 PEGSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVISAVAAPPALQKLSEN 293
G + +VD +++TGGT+ A+ ++KE G + + + V A+ KL
Sbjct: 204 --GKDVLIVDDIISTGGTMATAIKILKEQGAKKVYVACVHPVLVGDAILKLYNA 255
>gnl|CDD|177930 PLN02293, PLN02293, adenine phosphoribosyltransferase.
Length = 187
Score = 38.9 bits (91), Expect = 0.001
Identities = 15/30 (50%), Positives = 22/30 (73%)
Query: 242 GSRIFVVDPMLATGGTVVAALNLVKECGVE 271
G R V+D ++ATGGT+ AA+NL++ G E
Sbjct: 125 GERALVIDDLIATGGTLCAAINLLERAGAE 154
>gnl|CDD|183595 PRK12560, PRK12560, adenine phosphoribosyltransferase; Provisional.
Length = 187
Score = 38.6 bits (90), Expect = 0.002
Identities = 17/48 (35%), Positives = 28/48 (58%), Gaps = 4/48 (8%)
Query: 222 DEETLQPSIYLNKLPEKFPEGSRIFVVDPMLATGGTVVAALNLVKECG 269
E + +YLN + EK G R+ ++D L+TGGTV+A + ++ G
Sbjct: 98 GSEYFEGVVYLNGI-EK---GDRVAIIDDTLSTGGTVIALIKAIENSG 141
>gnl|CDD|223538 COG0462, PrsA, Phosphoribosylpyrophosphate synthetase [Nucleotide
transport and metabolism / Amino acid transport and
metabolism].
Length = 314
Score = 36.4 bits (85), Expect = 0.012
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 4/54 (7%)
Query: 241 EGSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVIS--AVAAPPALQKLSE 292
EG + +VD ++ TGGT+ A +KE G K++ + V + AL++L
Sbjct: 213 EGKDVVIVDDIIDTGGTIAKAAKALKERGA--KKVYAAATHGVFSGAALERLEA 264
>gnl|CDD|179535 PRK03092, PRK03092, ribose-phosphate pyrophosphokinase;
Provisional.
Length = 304
Score = 36.5 bits (85), Expect = 0.014
Identities = 18/52 (34%), Positives = 28/52 (53%)
Query: 241 EGSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVISAVAAPPALQKLSE 292
EG +VD M+ TGGT+ A+ +KE G ++ I V + PA ++L
Sbjct: 200 EGRTCVLVDDMIDTGGTIAGAVRALKEAGAKDVIIAATHGVLSGPAAERLKN 251
>gnl|CDD|225145 COG2236, COG2236, Predicted phosphoribosyltransferases [General
function prediction only].
Length = 192
Score = 35.8 bits (83), Expect = 0.014
Identities = 19/85 (22%), Positives = 36/85 (42%), Gaps = 3/85 (3%)
Query: 187 EPVAVIPILRAGLVLVEHASSILPAIKTYHLGISRDEETLQPSIYL---NKLPEKFPEGS 243
+P ++ I R GL+ S L Y + + +ET + + G
Sbjct: 29 KPDVIVAIARGGLIPARILSDFLGVKPLYSIKVEHYDETAERDGEAKVKYPITIDPLSGK 88
Query: 244 RIFVVDPMLATGGTVVAALNLVKEC 268
++ +VD ++ TG T+ AL +K+
Sbjct: 89 KVLIVDDIVDTGETLELALEELKKL 113
>gnl|CDD|223886 COG0816, COG0816, Predicted endonuclease involved in recombination
(possible Holliday junction resolvase in Mycoplasmas and
B. subtilis) [DNA replication, recombination, and
repair].
Length = 141
Score = 35.3 bits (82), Expect = 0.015
Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 5/45 (11%)
Query: 245 IFVVDPMLATGGTVVAALNLVKECGVENKQIK-VISAVAAPPALQ 288
+ + D L + V A ++ E GV K+ K VI ++AA L+
Sbjct: 91 VVLWDERL----STVEAERMLIEAGVSRKKRKGVIDSLAAVLILE 131
>gnl|CDD|235678 PRK06031, PRK06031, phosphoribosyltransferase; Provisional.
Length = 233
Score = 35.1 bits (81), Expect = 0.027
Identities = 12/31 (38%), Positives = 23/31 (74%)
Query: 241 EGSRIFVVDPMLATGGTVVAALNLVKECGVE 271
EG R+ ++D ++++G ++VA L L+ CG+E
Sbjct: 153 EGRRVALIDDVISSGASIVAGLRLLAACGIE 183
>gnl|CDD|215209 PLN02369, PLN02369, ribose-phosphate pyrophosphokinase.
Length = 302
Score = 35.4 bits (82), Expect = 0.033
Identities = 16/52 (30%), Positives = 26/52 (50%)
Query: 241 EGSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVISAVAAPPALQKLSE 292
+G +VD M+ T GT+ L+ + G AV +PPA+++LS
Sbjct: 201 KGKVAIMVDDMIDTAGTITKGAALLHQEGAREVYACATHAVFSPPAIERLSS 252
>gnl|CDD|235072 PRK02812, PRK02812, ribose-phosphate pyrophosphokinase;
Provisional.
Length = 330
Score = 34.7 bits (80), Expect = 0.059
Identities = 16/47 (34%), Positives = 27/47 (57%)
Query: 247 VVDPMLATGGTVVAALNLVKECGVENKQIKVISAVAAPPALQKLSEN 293
+VD M+ TGGT+ L+++ G + AV +PPA+++LS
Sbjct: 235 LVDDMIDTGGTICEGARLLRKEGAKQVYACATHAVFSPPAIERLSSG 281
>gnl|CDD|220967 pfam11073, NSs, Rift valley fever virus non structural protein
(NSs) like. This family contains several Phlebovirus
non structural proteins which act as a major determinant
of virulence by antagonising interferon beta gene
expression.
Length = 238
Score = 33.5 bits (77), Expect = 0.11
Identities = 11/48 (22%), Positives = 20/48 (41%)
Query: 137 EQTPCPIFRNAMAELGRLLMYEASRDWLPTVSGEIQSPMGVASVEFID 184
+ F + +L R + R LP + + P+G S+EF +
Sbjct: 73 TKPSTKFFDGTIEDLSRFDIESFLRSCLPNIKKALSWPLGYPSLEFFE 120
>gnl|CDD|180714 PRK06827, PRK06827, phosphoribosylpyrophosphate synthetase;
Provisional.
Length = 382
Score = 33.0 bits (76), Expect = 0.22
Identities = 11/32 (34%), Positives = 20/32 (62%)
Query: 241 EGSRIFVVDPMLATGGTVVAALNLVKECGVEN 272
EG + +VD M+A+GG+++ A +K G +
Sbjct: 263 EGKDVLIVDDMIASGGSMIDAAKELKSRGAKK 294
>gnl|CDD|223970 COG1040, ComFC, Predicted amidophosphoribosyltransferases [General
function prediction only].
Length = 225
Score = 32.0 bits (73), Expect = 0.35
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 234 KLPEKFPEGSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVISAVAAPP 285
+L + E + +VD + TG T+ A L++E G + + V++ AP
Sbjct: 176 RLKKGIEEPKNVLLVDDVYTTGATLKEAAKLLREAGAKR--VFVLTLARAPE 225
>gnl|CDD|181705 PRK09219, PRK09219, xanthine phosphoribosyltransferase; Validated.
Length = 189
Score = 31.7 bits (73), Expect = 0.36
Identities = 11/59 (18%), Positives = 27/59 (45%), Gaps = 15/59 (25%)
Query: 213 KTYHLGISRDEETLQPSIYLNKLPEKFPEGSRIFVVDPMLATGGTVVAALNLVKECGVE 271
T + +S+ +L+ EG R+ ++D LA G + ++++++ G +
Sbjct: 103 VTSTVSVSKK--------FLS-------EGDRVLIIDDFLANGQAALGLIDIIEQAGAK 146
>gnl|CDD|163655 cd07412, MPP_YhcR_N, Bacillus subtilis YhcR endonuclease and
related proteins, N-terminal metallophosphatase domain.
YhcR is a Bacillus subtilis sugar-nonspecific
endonuclease. It cleaves endonucleolytically to yield
nucleotide 3'-monophosphate products, similar to
Staphylococcus aureus micrococcal nuclease. YhcR appears
to be located in the cell wall, and is thought to be a
substrate for a Bacillus subtilis sortase. YhcR is the
major calcium-activated nuclease of B. subtilis. The
N-terminal metallophosphatase domain belongs to a large
superfamily of distantly related metallophosphatases
(MPPs) that includes: Mre11/SbcD-like exonucleases,
Dbr1-like RNA lariat debranching enzymes, YfcE-like
phosphodiesterases, purple acid phosphatases (PAPs),
YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 288
Score = 31.1 bits (71), Expect = 0.68
Identities = 16/33 (48%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 169 GEIQSPMGVASVEFIDPREPV-AVIPILRAGLV 200
+ SP GVA +EF D E + AV P L+AG V
Sbjct: 160 PNLVSPDGVAGLEFTDEVEAINAVAPELKAGGV 192
>gnl|CDD|224837 COG1926, COG1926, Predicted phosphoribosyltransferases [General
function prediction only].
Length = 220
Score = 30.7 bits (70), Expect = 0.78
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 236 PEKFPEGSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVISAVAAPPALQKL 290
P +G + +VD +ATG T+ AA+ ++ G K+I + VA A +L
Sbjct: 118 PVPSLKGRTVILVDDGIATGATMKAAVRALRAKGP--KEIVIAVPVAPEDAAAEL 170
>gnl|CDD|236414 PRK09213, PRK09213, pur operon repressor; Provisional.
Length = 271
Score = 30.9 bits (71), Expect = 0.86
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 240 PEGSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVISAVAAPPALQKLSENFHGLHV 299
EGSR+ +VD + GGT+ ++L+KE E I V+ P ++L +++ L
Sbjct: 194 KEGSRVLIVDDFMKAGGTINGMISLLKEFDAEVVGIGVLVETKEPE--ERLVDDYVSLLK 251
Query: 300 YTGI 303
+ +
Sbjct: 252 LSEV 255
>gnl|CDD|119304 pfam10784, Plasmid_stab_B, Plasmid stability protein. This
family is conserved in the Enterobacteriales. It is a
putative plasmid stability protein in that it is
expressed from the operon involved in stability, but
its actual function has not yet been characterized.
Length = 72
Score = 28.5 bits (64), Expect = 0.92
Identities = 13/56 (23%), Positives = 21/56 (37%), Gaps = 2/56 (3%)
Query: 28 PESDTIGCMACNI--NISIRCSTDTPRFAATCQLQLDSRNPRSPLLLKLLPSPALT 81
P++ AC ++ + R A L L +PR P LL L + +
Sbjct: 9 PDAVRADKRACATIDSLPQKERGRLQRAALIAGLALHQLDPRLPYLLAELLTEETS 64
>gnl|CDD|188642 cd00955, Transaldolase_like, Transaldolase-like proteins from
plants and bacteria. Transaldolase-like proteins from
plants and bacteria. Transaldolase is found in the
non-oxidative branch of the pentose phosphate pathway,
that catalyze the reversible transfer of a
dihydroxyacetone group from fructose-6-phosphate to
erythrose-4-phosphate yielding sedoheptulose-7-phosphate
and glyceraldehyde-3-phosphate. They are members of the
class I aldolases, who are characterized by using a
Schiff-base mechanism for stabilization of the reaction
intermediates.
Length = 338
Score = 30.8 bits (70), Expect = 0.93
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 248 VDPMLA--TGGTVVAALNLVKECGVENKQIKVISAVAAPPALQKL 290
V P LA T GT+ A L K G N IK+ + A PA+++L
Sbjct: 97 VSPRLADDTQGTIAEAKRLWKAVGRPNLMIKIPATEAGLPAIEEL 141
>gnl|CDD|226823 COG4388, COG4388, Mu-like prophage I protein [General function
prediction only].
Length = 357
Score = 30.2 bits (68), Expect = 1.3
Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 10/76 (13%)
Query: 152 GRLLMYEASRDWLPTVSGEIQSPMGVASVE-FIDPREPVAVIPILRAGLVLVEHASSILP 210
GRLL A ++ + + GVA++ ID R+PVA + + G V ++ L
Sbjct: 279 GRLL--PAQEEYAKQLGKQD----GVAALSALIDGRQPVAALSKTQTGGKGVADGTAALT 332
Query: 211 AIK---TYHLGISRDE 223
A + LGIS +E
Sbjct: 333 AEEAAAAKLLGISEEE 348
>gnl|CDD|179062 PRK00553, PRK00553, ribose-phosphate pyrophosphokinase;
Provisional.
Length = 332
Score = 30.3 bits (68), Expect = 1.4
Identities = 12/21 (57%), Positives = 17/21 (80%)
Query: 247 VVDPMLATGGTVVAALNLVKE 267
+VD M+ TGGTV+AA L+K+
Sbjct: 223 IVDDMIDTGGTVIAAAKLLKK 243
>gnl|CDD|223537 COG0461, PyrE, Orotate phosphoribosyltransferase [Nucleotide
transport and metabolism].
Length = 201
Score = 29.1 bits (66), Expect = 2.3
Identities = 10/33 (30%), Positives = 22/33 (66%)
Query: 239 FPEGSRIFVVDPMLATGGTVVAALNLVKECGVE 271
+G ++ VV+ ++ TGG+++ A+ ++E G E
Sbjct: 109 EVKGEKVVVVEDVITTGGSILEAVEALREAGAE 141
>gnl|CDD|180928 PRK07322, PRK07322, adenine phosphoribosyltransferase; Provisional.
Length = 178
Score = 28.8 bits (65), Expect = 2.4
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 6/43 (13%)
Query: 241 EGSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVISAVAA 283
+G R+ +VD +++TGGT+ A LV+ G + + A AA
Sbjct: 119 KGKRVAIVDDVVSTGGTLTALERLVERAGGQ------VVAKAA 155
>gnl|CDD|130804 TIGR01743, purR_Bsub, pur operon repressor, Bacillus subtilis type.
This model represents the puring operon repressor PurR
of low-GC Gram-positive bacteria. This homodimeric
repressor contains a large region homologous to
phosphoribosyltransferases and is inhibited by
5-phosphoribosyl 1-pyrophosphate [Purines, pyrimidines,
nucleosides, and nucleotides, Purine ribonucleotide
biosynthesis, Regulatory functions, DNA interactions].
Length = 268
Score = 29.0 bits (65), Expect = 3.4
Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 7/74 (9%)
Query: 242 GSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVISAVAAPPALQKLSENFHGLHVYT 301
GS++ ++D + GGT+ +NL+ E E I V+ +KL +++ L +
Sbjct: 194 GSKVLIIDDFMKAGGTINGMINLLDEFDAEVAGIGVLIDNEGVD--EKLVDDYMSLLTLS 251
Query: 302 GIIDPTVNDKGFIV 315
+N+K +
Sbjct: 252 -----NINEKEKSI 260
>gnl|CDD|129436 TIGR00336, pyrE, orotate phosphoribosyltransferase. Orotate
phosphoribosyltransferase (OPRTase) is involved in the
biosynthesis of pyrimidine nucleotides.
Alpha-D-ribosyldiphosphate 5-phosphate (PRPP) and
orotate are utilized to form pyrophosphate and orotidine
5'-monophosphate (OMP) in the presence of divalent
cations, preferably Mg2+. In a number of eukaryotes,
this protein is fused to a domain that catalyses the
reaction (EC 4.1.1.23). The combined activity of EC
2.4.2.10 and EC 4.1.1.23 is termed uridine
5'-monophosphate synthase. The conserved Lys (K) residue
at position 101 of the seed alignment has been proposed
as the active site for the enzyme [Purines, pyrimidines,
nucleosides, and nucleotides, Pyrimidine ribonucleotide
biosynthesis].
Length = 173
Score = 28.2 bits (63), Expect = 4.6
Identities = 12/41 (29%), Positives = 25/41 (60%), Gaps = 2/41 (4%)
Query: 241 EGSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVISAV 281
EG ++ VV+ ++ TG +++ A+ +++ G + VI AV
Sbjct: 107 EGDKVVVVEDVITTGTSILEAVEIIQAAGGQ--VAGVIIAV 145
>gnl|CDD|165416 PHA03145, PHA03145, helicase-primase primase subunit; Provisional.
Length = 1058
Score = 28.8 bits (64), Expect = 5.3
Identities = 17/54 (31%), Positives = 24/54 (44%)
Query: 138 QTPCPIFRNAMAELGRLLMYEASRDWLPTVSGEIQSPMGVASVEFIDPREPVAV 191
QTP P++R AMA G+ A DW V++ PR+P A+
Sbjct: 523 QTPLPVYRIAMAPRGQAFAALARDDWARITRDARLPAADVSAAAAAAPRDPGAL 576
>gnl|CDD|178100 PLN02482, PLN02482, glutamate-1-semialdehyde 2,1-aminomutase.
Length = 474
Score = 28.2 bits (63), Expect = 6.4
Identities = 24/72 (33%), Positives = 33/72 (45%), Gaps = 7/72 (9%)
Query: 249 DPMLATGGTVVAALNLVKECGVENKQIKVISAVAAP----PALQKLSENFHGLHVYTGII 304
D L G+ VA L L GV + + AP A++KL E G + I+
Sbjct: 196 DSFLVKAGSGVATLGLPDSPGVPKAATS--ATLTAPYNDLEAVKKLFEANKG-EIAAVIL 252
Query: 305 DPTVNDKGFIVP 316
+P V + GFIVP
Sbjct: 253 EPVVGNSGFIVP 264
>gnl|CDD|167353 PRK02269, PRK02269, ribose-phosphate pyrophosphokinase;
Provisional.
Length = 320
Score = 28.2 bits (63), Expect = 6.4
Identities = 13/52 (25%), Positives = 24/52 (46%)
Query: 241 EGSRIFVVDPMLATGGTVVAALNLVKECGVENKQIKVISAVAAPPALQKLSE 292
+G + ++D M+ T GT+ A + + E G V + PAL + +
Sbjct: 216 KGKKCILIDDMIDTAGTICHAADALAEAGATEVYASCTHPVLSGPALDNIQK 267
>gnl|CDD|235365 PRK05205, PRK05205, bifunctional pyrimidine regulatory protein PyrR
uracil phosphoribosyltransferase; Provisional.
Length = 176
Score = 27.4 bits (62), Expect = 7.1
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 241 EGSRIFVVDPMLATGGTVVAALN 263
EG R+ +VD +L TG T+ AAL+
Sbjct: 94 EGKRVILVDDVLYTGRTIRAALD 116
>gnl|CDD|233705 TIGR02068, cya_phycin_syn, cyanophycin synthetase. Cyanophycin is
an insoluble storage polymer for carbon, nitrogen, and
energy, found in most Cyanobacteria. The polymer has a
backbone of L-aspartic acid, with most Asp side chain
carboxyl groups attached to L-arginine. The polymer is
made by this enzyme, cyanophycin synthetase, and
degraded by cyanophycinase. Heterologously expressed
cyanophycin synthetase in E. coli produces a closely
related, water-soluble polymer with some Arg replaced by
Lys. It is unclear whether enzymes that produce soluble
cyanophycin-like polymers in vivo in non-Cyanobacterial
species should be designated as cyanophycin synthetase
itself or as a related enzyme. This model makes the
designation as cyanophycin synthetase. Cyanophycin
synthesis is analogous to polyhydroxyalkanoic acid (PHA)
biosynthesis, except that PHA polymers lack nitrogen and
may be made under nitrogen-limiting conditions [Cellular
processes, Biosynthesis of natural products].
Length = 864
Score = 28.2 bits (63), Expect = 8.5
Identities = 28/107 (26%), Positives = 40/107 (37%), Gaps = 17/107 (15%)
Query: 125 PLIKHWVSILRNEQTPCPIFRNAMAELGRLLMYEASRDWLPTVSGEIQSPMGVASVEFID 184
P+I+ V I E P N + YE +WLP++ SP GV
Sbjct: 18 PVIEMRVDIEDLEDFPS----NEIPGF-----YERLVEWLPSLIEHYCSP-GVRGGFLQR 67
Query: 185 PREPVAVIPILRAGLVLVEHASSILPAIKTYHLGISRDEETLQPSIY 231
RE + I +EH + L + +G R ET P +Y
Sbjct: 68 LREGTYMGHI-------LEHVALELQNLAGMPVGFGRTRETATPGVY 107
>gnl|CDD|238227 cd00386, Heme_Cu_Oxidase_III_like, Heme-copper oxidase subunit III.
Heme-copper oxidases are transmembrane protein
complexes in the respiratory chains of prokaryotes and
mitochondria which couple the reduction of molecular
oxygen to water to, proton pumping across the membrane.
The heme-copper oxidase superfamily is diverse in terms
of electron donors, subunit composition, and heme types.
This superfamily includes cytochrome c and ubiquinol
oxidases. Bacterial oxidases typically contain 3 or 4
subunits in contrast to the 13 subunit bovine cytochrome
c oxidase (CcO). Subunits I, II, and III of mammalian
CcO are encoded within the mitochondrial genome and the
remaining 10 subunits are encoded within the nuclear
genome. Subunits I, II and III of ubiquinol oxidase are
homologous to the corresponding subunits in CcO. This
group additionally contains proteins which are fusions
between subunits I and III, such as Sulfolobus
acidocaldarius SoxM, a subunit of the SoxM terminal
oxidase complex. It also includes NorE which has been
speculated to be a subunit of nitric oxide reductase.
Some archaebacterial cytochrome oxidases lack subunit
III. Although not required for catalytic activity,
subunit III is believed to play a role in assembly of
the multimer complex. Rhodobacter CcO subunit III
stabilizes the integrity of the binuclear center in
subunit I. It has been proposed that archaea acquired
heme-copper oxidases through gene transfer from
gram-positive bacteria.
Length = 183
Score = 27.2 bits (61), Expect = 9.8
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 294 FHGLHVYTGII 304
FHGLHV G+I
Sbjct: 127 FHGLHVIIGLI 137
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
0.319 0.136 0.408
Gapped
Lambda K H
0.267 0.0649 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,878,415
Number of extensions: 1622082
Number of successful extensions: 1331
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1316
Number of HSP's successfully gapped: 55
Length of query: 328
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 231
Effective length of database: 6,635,264
Effective search space: 1532745984
Effective search space used: 1532745984
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 (21.7 bits)
S2: 59 (26.7 bits)