RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17032
(283 letters)
>gnl|CDD|233535 TIGR01694, MTAP, 5'-deoxy-5'-methylthioadenosine phosphorylase.
This model represents the methylthioadenosine
phosphorylase found in metazoa, cyanobacteria and a
limited number of archaea such as Sulfolobus, Aeropyrum,
Pyrobaculum, Pyrococcus, and Thermoplasma. This enzyme
is responsible for the first step in the methionine
salvage pathway after the transfer of the amino acid
moiety from S-adenosylmethionine. The enzyme from human
is well-characterized including a crystal structure. A
misleading characterization is found for a Sulfolobus
solfataricus enzyme which is called a MTAP. In fact, as
uncovered by the genome sequence of S. solfataricus,
there are at least two nucleotide phosphorylases and the
one found in the MTAP clade is not the one annotated as
such. The sequence in this clade has not been isolated
but is likely to be the authentic SsMTAP as it displays
all of the conserved active site residues found in the
human enzyme. This explains the finding that the
characterized enzyme has greater efficiency towards the
purines inosine, guanosine and adenosine over MTA. In
fact, this mis-naming of this enzyme has been carried
forward to several publications including a crystal
stucture. In between the trusted and noise cutoffs are:
1) several archaeal sequences which appear to contain
several residues characteristic of phosphorylases which
act on guanosine or inosine (according to the crystal
structure of MTAP and alignments). In any case, these
residues are not conserved. 2) sequences from
Mycobacterium tuberculosis and Streptomyces coelicolor
which have better, although not perfect retention of the
active site residues, but considering the general
observation that bacteria utilize the MTA/SAH
nucleotidase enzyme and a kinase to do this reaction,
these have been excluded pending stronger evidence of
their function, and 3) a sequence from Drosophila which
appears to be a recent divergence (long branch in
neighbor-joining trees) and lacks some of the conserved
active site residues [Central intermediary metabolism,
Other, Purines, pyrimidines, nucleosides, and
nucleotides, Salvage of nucleosides and nucleotides].
Length = 241
Score = 322 bits (827), Expect = e-112
Identities = 126/247 (51%), Positives = 157/247 (63%), Gaps = 6/247 (2%)
Query: 7 KIGFIGGSGLNNPQILENAQEVAVDTPYGAPSDVLLQGTIQGVDCVILARHGRKHTINPS 66
IG IGGSGL + + L++ +EV VDTPYG PS ++ G + GVD L RHGR H I P
Sbjct: 1 MIGVIGGSGLYDLEGLKDVEEVNVDTPYGNPSAPIVVGRVAGVDVAFLPRHGRGHDIPPH 60
Query: 67 NVNYRANIWALKSVGCTHVIVSTATGSLQEEIQPGDLVILDSFIDRTRTRIQTFFDGSEN 126
VNYRANIWALKS+G +VI A GSL+EE PGDLV+ D FIDRT R TFFDG
Sbjct: 61 EVNYRANIWALKSLGVKYVISVNAVGSLREEYPPGDLVVPDQFIDRTSGRPSTFFDGG-- 118
Query: 127 SPNGVLHIPMEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWN 186
V+H+ + RQ +I+SL+ LG HD GT VC EGPRFS+RAES +F+SW
Sbjct: 119 ---KVVHVDFGDPYCEDLRQRLIESLRRLGLTVHDGGTYVCTEGPRFSTRAESRMFKSWG 175
Query: 187 AHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKVCVADVLKTFKENVEKITKL 246
A +V MT VPE VLA+E L YA +A+ TDYDCW V +V + ENVEK ++
Sbjct: 176 ADIVGMTGVPEAVLARELELCYATLALVTDYDCWISAD-HVTAEEVEEVMGENVEKAKRI 234
Query: 247 FVHIVPK 253
+ + K
Sbjct: 235 LLEAIKK 241
>gnl|CDD|236290 PRK08564, PRK08564, 5'-methylthioadenosine phosphorylase II;
Reviewed.
Length = 267
Score = 302 bits (776), Expect = e-103
Identities = 128/256 (50%), Positives = 163/256 (63%), Gaps = 8/256 (3%)
Query: 1 MSVSKIKIGFIGGSGLNNPQILENAQEVAVDTPYGAPSDVLLQGTIQGVDCVILARHGRK 60
K IG IGGSGL +P I EN++EV V TPYG PSD ++ G I+GV+ L RHGR
Sbjct: 3 EPNEKASIGIIGGSGLYDPGIFENSKEVKVYTPYGEPSDNIIIGEIEGVEVAFLPRHGRG 62
Query: 61 HTINPSNVNYRANIWALKSVGCTHVIVSTATGSLQEEIQPGDLVILDSFIDRTRTRIQTF 120
H I P +NYRANIWALK +G VI +A GSL+E+ +PGD VI D FID T+ R TF
Sbjct: 63 HRIPPHKINYRANIWALKELGVEWVIAVSAVGSLREDYKPGDFVIPDQFIDMTKKREYTF 122
Query: 121 FDGSENSPNGVLHIPMEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESN 180
+DG V H+ M F R+III++ KELG + H+KGT +CIEGPRFS+RAES
Sbjct: 123 YDGPV-----VAHVSMADPFCPELRKIIIETAKELGIRTHEKGTYICIEGPRFSTRAESR 177
Query: 181 LFRS-WNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKVCVADVLKTFKEN 239
++R + A ++ MTLVPEV LA E G+ YA +AM TDYD W + V +V + EN
Sbjct: 178 MWREVFKADIIGMTLVPEVNLACELGMCYATIAMVTDYDVWAE--KPVTAEEVTRVMAEN 235
Query: 240 VEKITKLFVHIVPKIA 255
EK KL +P+I
Sbjct: 236 TEKAKKLLYEAIPRIP 251
>gnl|CDD|181584 PRK08931, PRK08931, 5'-methylthioadenosine phosphorylase;
Provisional.
Length = 289
Score = 264 bits (676), Expect = 3e-88
Identities = 107/255 (41%), Positives = 149/255 (58%), Gaps = 7/255 (2%)
Query: 4 SKIKIGFIGGSGLNNPQILENAQEVAVDTPYGAPSDVLLQGTIQGVDCVILARHGRKHTI 63
+K +G IGGSG+ + LE+A+ V++P+G PSD LL G + GV V L RHGR H +
Sbjct: 2 TKAVLGIIGGSGVYDIDGLEDARWERVESPWGEPSDALLFGRLGGVPMVFLPRHGRGHRL 61
Query: 64 NPSNVNYRANIWALKSVGCTHVIVSTATGSLQEEIQPGDLVILDSFIDRTRTRIQTFFDG 123
+PS++NYRANI ALK G T ++ +A GS +EE+ PG VI+D FIDRT R ++FF
Sbjct: 62 SPSDINYRANIDALKRAGVTDIVSLSACGSFREELPPGTFVIVDQFIDRTFAREKSFFG- 120
Query: 124 SENSPNG-VLHIPMEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLF 182
G V H+ M + + + G H GT +C+EGP+FS+ AES L+
Sbjct: 121 -----TGCVAHVSMAHPVCPRLGDRLAAAARAEGITVHRGGTYLCMEGPQFSTLAESKLY 175
Query: 183 RSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKVCVADVLKTFKENVEK 242
RSW ++ MT +PE LA+EA + YA VAM TDYDCW + V V V+ N +K
Sbjct: 176 RSWGCDVIGMTNMPEAKLAREAEICYATVAMVTDYDCWHPDHDAVTVDAVIAVLLANADK 235
Query: 243 ITKLFVHIVPKIAAK 257
L + P + A+
Sbjct: 236 ARALVARLAPDLGAE 250
>gnl|CDD|223084 COG0005, Pnp, Purine nucleoside phosphorylase [Nucleotide transport
and metabolism].
Length = 262
Score = 253 bits (649), Expect = 2e-84
Identities = 104/254 (40%), Positives = 144/254 (56%), Gaps = 11/254 (4%)
Query: 5 KIKIGFIGGSGLNNPQILENAQEV-AVDTPYGAPSDVLLQGTI--QGVDCVILARHGRKH 61
IG IGGSGL + L +E + TP+G PS G + G LARHGR H
Sbjct: 16 MPMIGIIGGSGLYDLADLLEVREPYSDITPFGVPSVPGHAGELVTLGGKVAFLARHGRGH 75
Query: 62 TINPSNVNYRANIWALKSVGCTHVIVSTATGSLQEEIQPGDLVILDSFIDRTRTRIQTFF 121
+ P +VNYRANI ALK++G VI++ A GSL+EE +PGDLV+ D ID T+ R F+
Sbjct: 76 SYPPHSVNYRANIRALKALGVERVILTNAVGSLREEYKPGDLVVPDDHIDFTK-RQNPFY 134
Query: 122 DGSENSPNGVLHIPMEPAFDNSTRQIIIDSLKELGFKFH-DKGTAVCIEGPRFSSRAESN 180
G +GV + M +D R+ + ++ KEL +G VC+EGPRF + AE
Sbjct: 135 GG----NDGVRFVDMSDPYDPELREALAEAAKELRLGHPLQEGVYVCVEGPRFETPAEIR 190
Query: 181 LFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKVCVADVLKTFKENV 240
+FRS A +V M+ VPEV+LA+E GL AA+++ T+Y + +VL+ KEN
Sbjct: 191 MFRSLGADVVGMSTVPEVILARELGLCVAALSLVTNYAAGIG--QPLTHEEVLEVAKENA 248
Query: 241 EKITKLFVHIVPKI 254
EKI KL + K+
Sbjct: 249 EKIAKLLAAAIAKL 262
>gnl|CDD|169548 PRK08666, PRK08666, 5'-methylthioadenosine phosphorylase;
Validated.
Length = 261
Score = 241 bits (616), Expect = 1e-79
Identities = 106/251 (42%), Positives = 154/251 (61%), Gaps = 8/251 (3%)
Query: 5 KIKIGFIGGSGLNNPQILENAQEVAVDTPYGAPSDVLLQ-GTIQGVDCVILARHGRKHTI 63
++I IGGSG+ +P+ILEN +E V+TPYG +V ++ GT G + LARHG H++
Sbjct: 1 MVRIAIIGGSGVYDPKILENIREETVETPYG---EVKVKIGTYAGEEVAFLARHGEGHSV 57
Query: 64 NPSNVNYRANIWALKSVGCTHVIVSTATGSLQEEIQPGDLVILDSFIDRTRTRIQTFFDG 123
P +NYRANIWALK +G ++ ++A GSL ++PGD VILD F+D T+ R TF+DG
Sbjct: 58 PPHKINYRANIWALKELGVERILATSAVGSLNPNMKPGDFVILDQFLDFTKNRHYTFYDG 117
Query: 124 SENSPNGVLHIPMEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFR 183
E +GV+H+ + R+ +I + +ELG +H GT VC EGPRF + AE +FR
Sbjct: 118 GE---SGVVHVDFTDPYCPELRKALITAARELGLTYHPGGTYVCTEGPRFETAAEIRMFR 174
Query: 184 SWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKVCVADVLKTFKENVEKI 243
LV MT VPE VLA+E + YA VA+ T+Y + K+ ++V++ +N E I
Sbjct: 175 ILGGDLVGMTQVPEAVLARELEMCYATVAIVTNYAAGI-SPTKLTHSEVVELMAQNSENI 233
Query: 244 TKLFVHIVPKI 254
KL + + I
Sbjct: 234 KKLIMKAIELI 244
>gnl|CDD|180977 PRK07432, PRK07432, 5'-methylthioadenosine phosphorylase;
Provisional.
Length = 290
Score = 240 bits (613), Expect = 9e-79
Identities = 108/257 (42%), Positives = 159/257 (61%), Gaps = 10/257 (3%)
Query: 4 SKIKIGFIGGSGLNNPQILENAQEVAVDTPYGAPSDVLLQGTIQGVDCVILARHGRKHTI 63
++ KIG IGGSGL + L++ +EV ++TP+G+PSD L+ GT+ G LARHGR HT+
Sbjct: 2 TQAKIGIIGGSGLYKMEALKDVEEVQLETPFGSPSDALIVGTLDGTRVAFLARHGRNHTL 61
Query: 64 NPSNVNYRANIWALKSVGCTHVIVSTATGSLQEEIQPGDLVILDSFIDRTRTRIQTFFDG 123
P+ + +RANI+A+K +G ++I ++A GSL+EE +P D+V+ D FIDRT+ RI TFF
Sbjct: 62 LPTELPFRANIYAMKQLGVEYLISASAVGSLKEEAKPLDMVVPDQFIDRTKNRISTFFG- 120
Query: 124 SENSPNG-VLHIPMEPAFDNSTRQIIIDSLKEL---GFKFHDKGTAVCIEGPRFSSRAES 179
G V HI + ++ D++ L H GT VC+EGP FS++AES
Sbjct: 121 -----EGIVAHIGFGDPICPALAGVLADAIASLNLPDVTLHRGGTYVCMEGPAFSTKAES 175
Query: 180 NLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKVCVADVLKTFKEN 239
NL+RSW A ++ MT +PE LA+EA + YA +A+ TDYDCW + V V V+ +N
Sbjct: 176 NLYRSWGATVIGMTNLPEAKLAREAEIAYATLALVTDYDCWHPDHDSVTVEMVIGNLHKN 235
Query: 240 VEKITKLFVHIVPKIAA 256
K+ V +++A
Sbjct: 236 AVNAQKVIQETVRRLSA 252
>gnl|CDD|236107 PRK07823, PRK07823, 5'-methylthioadenosine phosphorylase;
Validated.
Length = 264
Score = 216 bits (553), Expect = 5e-70
Identities = 97/240 (40%), Positives = 131/240 (54%), Gaps = 14/240 (5%)
Query: 8 IGFIGGSGLNNPQILE-NAQEVAVDTPYGAPSDVLLQGTIQGVDCVILARHGRKHTINPS 66
+G IGGSG +A+EV VDTPYG PS + G + G L RHGR H +P
Sbjct: 8 LGVIGGSGFY--SFFGSDAREVNVDTPYGPPSAPITIGEVGGRRVAFLPRHGRDHEFSPH 65
Query: 67 NVNYRANIWALKSVGCTHVIVSTATGSLQEEIQPGDLVILDSFIDRTRTRIQTFFDGSEN 126
V YRAN+WAL+++G V A GSL+ E+ PG +V+ D +DRT R QT+FD
Sbjct: 66 TVPYRANMWALRALGVRRVFAPCAVGSLRPELGPGTVVVPDQLVDRTSGRAQTYFDS--- 122
Query: 127 SPNGVLHIPMEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWN 186
G +H+ + + R + + D GT V ++GPRFS+RAES F +
Sbjct: 123 ---GGVHVSFADPYCPTLRAAALGLPGVV-----DGGTMVVVQGPRFSTRAESRWFAAQG 174
Query: 187 AHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKVCVADVLKTFKENVEKITKL 246
LVNMT PE VLA+E L YAA+A+ TD D + G V DV F N+E++ +L
Sbjct: 175 WSLVNMTGYPEAVLARELELCYAAIALVTDLDAGVEAGEGVKAVDVFAEFGRNIERLKRL 234
>gnl|CDD|236390 PRK09136, PRK09136, 5'-methylthioadenosine phosphorylase;
Validated.
Length = 245
Score = 188 bits (480), Expect = 3e-59
Identities = 86/227 (37%), Positives = 115/227 (50%), Gaps = 3/227 (1%)
Query: 8 IGFIGGSGLNNPQILENAQEVAVDTPYGAPSDVLLQGTIQGVDCVILARHGRKHTINPSN 67
+ IGG+GL L+ Q V TPYGAPS L GT+ G + V LARHG HTI P
Sbjct: 2 LAIIGGTGLTQLAGLDIVQRQVVRTPYGAPSGPLTFGTLAGREVVFLARHGHGHTIPPHK 61
Query: 68 VNYRANIWALKSVGCTHVIVSTATGSLQEEIQPGDLVILDSFIDRTRTRIQTFFDGSENS 127
VNYRANIWALK G T V+ G + ++ PG LV+ D ID T R TFF+G
Sbjct: 62 VNYRANIWALKQAGATRVLAVNTVGGIHADMGPGTLVVPDQIIDYTWGRKSTFFEGDGEE 121
Query: 128 PNGVLHIPMEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNA 187
V HI + RQ ++ + + G D G +GPR + AE
Sbjct: 122 ---VTHIDFTHPYSPMLRQRLLAAARAAGVSLVDGGVYAATQGPRLETAAEIARLERDGC 178
Query: 188 HLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKVCVADVLK 234
LV MT +PE LA+E GL YA +A+ ++ R ++ +A++
Sbjct: 179 DLVGMTGMPEAALARELGLPYACLALVANWAAGRGDSAEITMAEIEA 225
>gnl|CDD|216264 pfam01048, PNP_UDP_1, Phosphorylase superfamily. Members of this
family include: purine nucleoside phosphorylase (PNP)
Uridine phosphorylase (UdRPase) 5'-methylthioadenosine
phosphorylase (MTA phosphorylase).
Length = 232
Score = 165 bits (421), Expect = 1e-50
Identities = 74/247 (29%), Positives = 111/247 (44%), Gaps = 18/247 (7%)
Query: 7 KIGFIGGSGLNNPQILENAQEVAVDTPYGAPS--DVLLQGTIQGVDCVILARHGRKHTIN 64
KIG IGGSG + E + +TPYG PS GT++G V+LARHG I
Sbjct: 1 KIGIIGGSGEEVALLAELLE----ETPYGPPSRGGKFYTGTLKGK-PVVLARHG----IG 51
Query: 65 PSNVNYRANIWALKSVGCTHVIVSTATGSLQEEIQPGDLVILDSFIDRTRTRIQTFFDGS 124
P N RA I LK +G +I + G L +++PGDLVI I+ T T +
Sbjct: 52 PPNAAIRAEIRLLKELGVKTIIRTGTAGGLNPDLKPGDLVIPTDAINFDGTSPLTGPNDG 111
Query: 125 ENSPNGVLHIPMEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRAESNLFRS 184
P +D R ++ ++ LG H G +G F + AE L R
Sbjct: 112 PRFP-----DMAPAPYDPELRALLEEAAARLGIPVHR-GVYATTDGFYFETPAEIRLLRR 165
Query: 185 WNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKVCVADVLKTFKENVEKIT 244
A V M E ++A+E G+ + A+ + +DY +V +V + +E E+
Sbjct: 166 LGADAVEMETAAEAIVARELGIPFLAIRVISDYAA-GGADGEVTHEEVEEVLEEAAERAA 224
Query: 245 KLFVHIV 251
KL + ++
Sbjct: 225 KLLLALL 231
>gnl|CDD|236183 PRK08202, PRK08202, purine nucleoside phosphorylase; Provisional.
Length = 272
Score = 93.7 bits (234), Expect = 2e-22
Identities = 67/267 (25%), Positives = 110/267 (41%), Gaps = 36/267 (13%)
Query: 7 KIGFIGGSGLNNPQILENAQEVAVDTPYG-----APSDV------LLQGTIQGVDCVILA 55
+IG I GSGL L + E AV PY S V L+ G + G + +
Sbjct: 23 EIGLILGSGLGA---LADEIENAVVIPYADIPGFPVSTVEGHAGELVLGRLGGKPVLAMQ 79
Query: 56 RHGRKHT---INPSNVNYRANIWALKSVGCTHVIVSTATGSLQEEIQPGDLVILDSFIDR 112
GR H + V + +K++G +IV+ A G L + PGDL+++ I+
Sbjct: 80 --GRFHYYEGYSMEAV--TFPVRVMKALGVETLIVTNAAGGLNPDFGPGDLMLISDHIN- 134
Query: 113 TRTRIQTFFDGS----ENSPN-GVLHIPMEPAFDNSTRQIIIDSLKELGFKFHDKGTAVC 167
+ N G M A+D R + KELG +G V
Sbjct: 135 -------LTGRNPLIGPNDDEFGPRFPDMSDAYDPELRALAKKVAKELGIPLQ-EGVYVG 186
Query: 168 IEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKV 227
+ GP + + AE + R+ A V M+ VPEV++A+ GL ++ T+ + +
Sbjct: 187 VSGPSYETPAEIRMLRTLGADAVGMSTVPEVIVARHCGLKVLGISCITNL-AAGISDEPL 245
Query: 228 CVADVLKTFKENVEKITKLFVHIVPKI 254
+VL+ + K +L I+ ++
Sbjct: 246 SHEEVLEVAERAAPKFGRLVKAILARL 272
>gnl|CDD|130758 TIGR01697, PNPH-PUNA-XAPA, inosine/guanosine/xanthosine
phosphorylase family. This model is a subset of the
subfamily represented by pfam00896 (phosphorylase family
2). This model excludes the methylthioadenosine
phosphorylases (MTAP, TIGR01684) which are believed
toplay a specific role in the recycling of methionine
from methylthioadenosine. In this subfamily is found
three clades of purine phosphorylases based on a
neighbor-joining tree using the MTAP family as an
outgroup. The highest-branching clade (TIGR01698)
consists of a group of sequences from both gram positive
and gram negative bacteria which have been annotated as
purine nucleotide phosphorylases but have not been
further characterized as to substrate specificity. Of
the two remaining clades, one is xanthosine
phosphorylase (XAPA, TIGR01699), is limited to certain
gamma proteobacteria and constitutes a special purine
phosphorylase found in a specialized operon for
xanthosine catabolism. The enzyme also acts on the same
purines (inosine and guanosine) as the other
characterized members of this subfamily, but is only
induced when xanthosine must be degraded. The remaining
and largest clade consists of purine nucleotide
phosphorylases (PNPH, TIGR01700) from metazoa and
bacteria which act primarily on guanosine and inosine
(and do not act on adenosine). Sequences from
Clostridium (GP:15025051) and Thermotoga (OMNI:TM1596)
fall between these last two clades and are
uncharacterized with respect to substrate range and
operon.
Length = 248
Score = 91.6 bits (228), Expect = 6e-22
Identities = 70/257 (27%), Positives = 108/257 (42%), Gaps = 22/257 (8%)
Query: 7 KIGFIGGSGLNNPQILENAQEVAVDTPY----GAP-SDV------LLQGTIQGVDCVILA 55
+ I GSGL L + E AV PY G P S V L+ G + G V +
Sbjct: 1 DVAIILGSGLGA---LADQVEDAVIIPYEKIPGFPVSTVVGHAGELVFGRLGGKPVVCMQ 57
Query: 56 RHGRKHTINP-SNVNYRANIWALKSVGCTHVIVSTATGSLQEEIQPGDLVILDSFIDRTR 114
GR H + +K +G ++V+ A G L + +PGDL+I+ I+
Sbjct: 58 --GRFHYYEGYDMATVTFPVRVMKLLGVEILVVTNAAGGLNPDFKPGDLMIIKDHIN--- 112
Query: 115 TRIQTFFDGSENSPNGVLHIPMEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFS 174
G + G + A+D R++ D KELGF + G V + GP +
Sbjct: 113 LPGLNPLVGPNDDRFGTRFPDLSNAYDRELRKLAQDVAKELGFPLTE-GVYVMVSGPSYE 171
Query: 175 SRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKVCVADVLK 234
+ AE + R A V M+ VPEV++A+ G+ AV++ T+ T + +VL
Sbjct: 172 TPAEIRMLRILGADAVGMSTVPEVIVARHCGIKVLAVSLITNM-AAGITDVPLSHEEVLA 230
Query: 235 TFKENVEKITKLFVHIV 251
E+ L I+
Sbjct: 231 AAAAAAERFISLLEDII 247
>gnl|CDD|233537 TIGR01700, PNPH, purine nucleoside phosphorylase I, inosine and
guanosine-specific. This model represents a family of
bacterial and metazoan purine phosphorylases acting
primarily on inosine and guanosine and not acting on
adenosine. PNP-I refers to the nomenclature from
Bacillus stearothermophilus where PHP-II refers to the
nucleotidase acting on adenosine as the primary
substrate.The bacterial enzymes (PUNA) are typified by
the Bacilus PupG protein which is involved in the
metabolism of nucleosides as a carbon source.Several
metazoan enzymes (PNPH) are well characterized including
the human and bovine enzymes which have been
crystallized [Purines, pyrimidines, nucleosides, and
nucleotides, Salvage of nucleosides and nucleotides].
Length = 249
Score = 79.4 bits (196), Expect = 1e-17
Identities = 62/261 (23%), Positives = 104/261 (39%), Gaps = 29/261 (11%)
Query: 7 KIGFIGGSGL-------NNPQIL--ENAQEVAVDTPYGAPSDVLLQGTIQGVDCVILARH 57
I I GSGL + I+ T G +++ G + G V +
Sbjct: 1 DIAIILGSGLGPLAEKVEDATIIDYSEIPHFPQSTVVGHAGNLVF-GILGGKPVVAMQ-- 57
Query: 58 GRKHT---INPSNVNYRANIWALKSVGCTHVIVSTATGSLQEEIQPGDLVILDSFIDRTR 114
GR H + + V + + +K +G ++V+ A G + E + GDL+++ R
Sbjct: 58 GRFHMYEGYDMAKVTF--PVRVMKLLGVETLVVTNAAGGINPEFKVGDLMLI-------R 108
Query: 115 TRIQTFFDGSENSPN----GVLHIPMEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEG 170
I PN GV M A+D RQ K+L +G V + G
Sbjct: 109 DHINLPGFNPLRGPNEERFGVRFPDMSDAYDRDLRQKAHSIAKQLNIPLQ-EGVYVMLGG 167
Query: 171 PRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDYDCWRDTGNKVCVA 230
P + + AE L R+ A V M+ VPEV++A+ GL ++ T+
Sbjct: 168 PSYETPAEVRLLRTLGADAVGMSTVPEVIVARHCGLRVFGFSLITNKAAGILDYELSVHE 227
Query: 231 DVLKTFKENVEKITKLFVHIV 251
+V++ K+ EK+ K ++
Sbjct: 228 EVMEAAKQAAEKLEKFVSLLI 248
>gnl|CDD|130760 TIGR01699, XAPA, xanthosine phosphorylase. This model represents a
small clade of purine nucleotide phosphorylases found in
certain gamma proteobacteria. The gene is part of an
operon for the degradation of xanthosine and is induced
by xanthosine. The enzyme is also capable of acting on
inosine and guanosine (but not adenosine) in a manner
similar to those other phosphorylases to which it is
closely related (TIGR01698, TIGR01700).
Length = 248
Score = 60.5 bits (146), Expect = 8e-11
Identities = 62/219 (28%), Positives = 91/219 (41%), Gaps = 15/219 (6%)
Query: 7 KIGFIGGSGLNN--PQILENAQEVAVDTPYGAPSDV------LLQGTIQGVDCVILARHG 58
++ FI GSGL QI P S V L+ G +QGV ++ G
Sbjct: 1 RVAFILGSGLGALADQIENAVAISYEKLPGFPVSTVHGHAGELVLGHLQGVP--VVCMKG 58
Query: 59 RKHTINPSNVNYRAN-IWALKSVGCTHVIVSTATGSLQEEIQPGDLVILDSFIDRTRTRI 117
R H + + I K +GC + + A GSL+ E+ G LV L D T
Sbjct: 59 RGHFYEGRGMTIMTDAIRTFKLLGCELLFCTNAAGSLRPEVGAGSLVALK---DHINTMP 115
Query: 118 QTFFDGSENSPNGVLHIPMEPAFDNSTRQIIIDSLKELGFKFHDKGTAVCIEGPRFSSRA 177
T G + G + A+D R ++ KE GF + G V GP F + A
Sbjct: 116 GTPMVGLNDDRFGERFFSLANAYDAEYRALLQKVAKEEGFPLTE-GVFVSYPGPNFETAA 174
Query: 178 ESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATD 216
E + + +V M++VPEV+ A+ L AV+ T+
Sbjct: 175 EIRMMQIIGGDVVGMSVVPEVISARHCDLKVVAVSAITN 213
>gnl|CDD|130759 TIGR01698, PUNP, purine nucleotide phosphorylase. This clade of
purine nucleotide phosphorylases has not been
experimentally characterized but is assigned based on
strong sequence homology. Closely related clades act on
inosine and guanosine (PNPH, TIGR01700), and xanthosine,
inosine and guanosine (XAPA, TIGR01699) neither of these
will act on adenosine. A more distantly related clade
(MTAP, TIGR01694) acts on methylthioadenosine.
Length = 237
Score = 58.3 bits (141), Expect = 4e-10
Identities = 37/178 (20%), Positives = 71/178 (39%), Gaps = 18/178 (10%)
Query: 41 LLQGTIQGVDCVILARHGRKHTINPSNVNY-RANIWALKSVGCTHVIVSTATGSLQEEIQ 99
L++ I ++L GR H + + ++ G +I++ A G L+++
Sbjct: 43 LIRVRIGDGPVLVLG--GRTHAYEGGDARAVVHPVRTARATGAETLILTNAAGGLRQDWG 100
Query: 100 PGDLVILDSFIDRTRTRIQTFFDGSENSPNGVLHIPMEPAFDNSTRQIIIDSLKELGFKF 159
PG V++ I+ T + + G + + A+ R++ L
Sbjct: 101 PGTPVLISDHINLT----------ARSPLIGPRFVDLTDAYSPRLRELAERVDPPLA--- 147
Query: 160 HDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGLLYAAVAMATDY 217
+G GP + + AE + A LV M+ VPE + A+ GL V++ T+
Sbjct: 148 --EGVYAWFPGPHYETPAEIRMAGILGADLVGMSTVPETIAARFCGLEVLGVSLVTNL 203
>gnl|CDD|187537 cd05226, SDR_e_a, Extended (e) and atypical (a) SDRs. Extended or
atypical short-chain dehydrogenases/reductases (SDRs,
aka tyrosine-dependent oxidoreductases) are distinct
from classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. Atypical SDRs generally
lack the catalytic residues characteristic of the SDRs,
and their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 176
Score = 32.8 bits (75), Expect = 0.11
Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 3/54 (5%)
Query: 42 LQGTIQGVDCVILARHGRKHTINP--SNVNYRANIW-ALKSVGCTHVIVSTATG 92
L +QGVD VI + T + +V N+ A K G H I ++ G
Sbjct: 56 LSDAVQGVDVVIHLAGAPRDTRDFCEVDVEGTRNVLEAAKEAGVKHFIFISSLG 109
>gnl|CDD|181025 PRK07544, PRK07544, branched-chain amino acid aminotransferase;
Validated.
Length = 292
Score = 31.1 bits (71), Expect = 0.61
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 129 NGVLHIPMEPAF-DNSTRQIIIDSLKELGFKFHDK 162
+GV+H P F D TRQ +I+ K G + ++
Sbjct: 202 DGVIHTPTPDCFLDGITRQTVIELAKRRGIEVVER 236
>gnl|CDD|219809 pfam08368, FAST_2, FAST kinase-like protein, subdomain 2. This
family represents a conserved region of eukaryotic
Fas-activated serine/threonine (FAST) kinases
(EC:2.7.1.-) that contains several conserved leucine
residues. FAST kinase is rapidly activated during
Fas-mediated apoptosis, when it phosphorylates TIA-1, a
nuclear RNA-binding protein that has been implicated as
an effector of apoptosis. Note that many family members
are hypothetical proteins. This subdomain is often found
associated with the FAST kinase-like protein, subdomain
2.
Length = 93
Score = 29.2 bits (66), Expect = 0.76
Identities = 21/81 (25%), Positives = 27/81 (33%), Gaps = 17/81 (20%)
Query: 164 TAVCIE-----GPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEA--GLL----YAAVA 212
AVC+E GPR R + F + P KEA LL Y
Sbjct: 11 AAVCLECPEYKGPRLPDRYQVPSFLVPLLSKKEKRMSPLQQEVKEALKSLLGGEQYVKHD 70
Query: 213 MAT------DYDCWRDTGNKV 227
+ T D++C D K
Sbjct: 71 VLTPYGYTIDFECVLDKNGKP 91
>gnl|CDD|223476 COG0399, WecE, Predicted pyridoxal phosphate-dependent enzyme
apparently involved in regulation of cell wall
biogenesis [Cell envelope biogenesis, outer membrane].
Length = 374
Score = 30.3 bits (69), Expect = 1.0
Identities = 24/84 (28%), Positives = 35/84 (41%), Gaps = 22/84 (26%)
Query: 80 VGCTHVI-VSTATGSLQ-----EEIQPGDLVILDSFIDRTRTRIQTFFDGSENSPNGVLH 133
+G + + VS+ T +L I PGD VI+ SF TF + N VL
Sbjct: 47 LGVKYAVAVSSGTAALHLALLALAIGPGDEVIVPSF---------TFV----ATANAVLL 93
Query: 134 IPMEPAF---DNSTRQIIIDSLKE 154
+ +P F D T I D ++
Sbjct: 94 VGAKPVFVDIDPDTLNIDPDLIEA 117
>gnl|CDD|234222 TIGR03468, HpnG, hopanoid-associated phosphorylase. The sequences
in this family are members of the pfam01048 family of
phosphorylases typically acting on nucleotide-sugar
substrates. The genes of the family modeled here are
generally in the same locus with genes involved in the
biosynthesis and elaboration of hopene, the cyclization
product of the polyisoprenoid squalene. This gene is
adjacent to the genes PhnA-E and squalene-hopene cyclase
(which would be HpnF) in Zymomonas mobilis and their
association with hopene biosynthesis has been noted in
the literature. Extending the gene symbol sequence, we
suggest the symbol HpnG for the product of this gene.
Hopanoids are known to be components of the plasma
membrane and to have polar sugar head groups in Z.
mobilis and other species.
Length = 212
Score = 29.2 bits (66), Expect = 1.9
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 71 RANIWALKSVGCTHVIVSTAT-GSLQEEIQPGDLVI 105
RA L + G +VS T G+L +QPGDLV+
Sbjct: 35 RAAAARLMAAGAA-GLVSFGTAGALDPALQPGDLVV 69
>gnl|CDD|213341 cd05392, RasGAP_Neurofibromin_like, Ras-GTPase Activating Domain of
proteins similar to neurofibromin. Neurofibromin-like
proteins include the Saccharomyces cerevisiae RasGAP
proteins Ira1 and Ira2, the closest homolog of
neurofibromin, which is responsible for the human
autosomal dominant disease neurofibromatosis type I
(NF1). The RasGAP Ira1/2 proteins are negative
regulators of the Ras-cAMP signaling pathway and
conserved from yeast to human. In yeast Ras proteins are
activated by GEFs, and inhibited by two GAPs, Ira1 and
Ira2. Ras proteins activate the cAMP/protein kinase A
(PKA) pathway, which controls metabolism, stress
resistance, growth, and meiosis. Recent studies showed
that the kelch proteins Gpb1 and Gpb2 inhibit Ras
activity via association with Ira1 and Ira2. Gpb1/2 bind
to a conserved C-terminal domain of Ira1/2, and loss of
Gpb1/2 results in a destabilization of Ira1 and Ira2,
leading to elevated levels of Ras2-GTP and uninhibited
cAMP-PKA signaling. Since the Gpb1/2 binding domain on
Ira1/2 is conserved in the human neurofibromin protein,
the studies suggest that an analogous signaling
mechanism may contribute to the neoplastic development
of NF1.
Length = 317
Score = 28.8 bits (65), Expect = 3.2
Identities = 21/82 (25%), Positives = 32/82 (39%), Gaps = 7/82 (8%)
Query: 85 VIVSTATGSLQEEIQPGDLVILDSFIDRTRTRIQTFFDGSENSPNGVLHIPMEPAFDNST 144
V+ + A G L +P L L+ F+ + RIQ F P P +P FD S
Sbjct: 215 VLQNIANGVLFSLKEPY-LESLNEFLKKNSDRIQQFLSEVSTIP------PTDPIFDESD 267
Query: 145 RQIIIDSLKELGFKFHDKGTAV 166
+ I L+ L + +
Sbjct: 268 EEPITADLRYLHKFLYLHFLEI 289
>gnl|CDD|227476 COG5147, REB1, Myb superfamily proteins, including transcription
factors and mRNA splicing factors [Transcription / RNA
processing and modification / Cell division and
chromosome partitioning].
Length = 512
Score = 29.0 bits (65), Expect = 3.7
Identities = 11/45 (24%), Positives = 19/45 (42%)
Query: 219 CWRDTGNKVCVADVLKTFKENVEKITKLFVHIVPKIAAKDWTNEI 263
W+ T ++ A V K N K+ L + K ++ W N +
Sbjct: 22 SWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHL 66
>gnl|CDD|100107 cd02440, AdoMet_MTases, S-adenosylmethionine-dependent
methyltransferases (SAM or AdoMet-MTase), class I;
AdoMet-MTases are enzymes that use
S-adenosyl-L-methionine (SAM or AdoMet) as a substrate
for methyltransfer, creating the product
S-adenosyl-L-homocysteine (AdoHcy). There are at least
five structurally distinct families of AdoMet-MTases,
class I being the largest and most diverse. Within this
class enzymes can be classified by different substrate
specificities (small molecules, lipids, nucleic acids,
etc.) and different target atoms for methylation
(nitrogen, oxygen, carbon, sulfur, etc.).
Length = 107
Score = 27.0 bits (60), Expect = 4.7
Identities = 17/93 (18%), Positives = 29/93 (31%), Gaps = 6/93 (6%)
Query: 48 GVDCVILARHGRKHT----INPSNVNYRANIWALKSVGCTHVIVSTATGSLQEEIQPGDL 103
G + LA I+P + A V+ A E + D+
Sbjct: 10 GALALALASGPGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPPEADESFDV 69
Query: 104 VILDSFIDRTRTRIQTFFDGSEN--SPNGVLHI 134
+I D + + F + + P GVL +
Sbjct: 70 IISDPPLHHLVEDLARFLEEARRLLKPGGVLVL 102
>gnl|CDD|168698 PRK06839, PRK06839, acyl-CoA synthetase; Validated.
Length = 496
Score = 28.3 bits (63), Expect = 5.6
Identities = 14/53 (26%), Positives = 23/53 (43%)
Query: 154 ELGFKFHDKGTAVCIEGPRFSSRAESNLFRSWNAHLVNMTLVPEVVLAKEAGL 206
EL F+ D GT V F + A S S+ ++++T + E+ K
Sbjct: 91 ELIFQLKDSGTTVLFVEKTFQNMALSMQKVSYVQRVISITSLKEIEDRKIDNF 143
>gnl|CDD|183283 PRK11706, PRK11706, TDP-4-oxo-6-deoxy-D-glucose transaminase;
Provisional.
Length = 375
Score = 27.9 bits (63), Expect = 6.5
Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 6/45 (13%)
Query: 71 RANIWALKSVGCTHVIVSTA-TGSLQE-----EIQPGDLVILDSF 109
R W + G V+++ + T +L+ +IQPGD VI+ S+
Sbjct: 35 RCQQWLEQRFGSAKVLLTPSCTAALEMAALLLDIQPGDEVIMPSY 79
>gnl|CDD|216123 pfam00793, DAHP_synth_1, DAHP synthetase I family. Members of this
family catalyze the first step in aromatic amino acid
biosynthesis from chorismate. E-coli has three related
synthetases, which are inhibited by different aromatic
amino acids. This family also includes KDSA which has
very similar catalytic activity but is involved in the
first step of liposaccharide biosynthesis.
Length = 271
Score = 27.6 bits (62), Expect = 6.8
Identities = 18/75 (24%), Positives = 26/75 (34%), Gaps = 3/75 (4%)
Query: 14 SGLNNPQILENAQEVAVDTPYGAPSDVLLQGTIQGV-DCVILARHGRKHTINPSNVNYRA 72
SG + P L+ ++A+D A L G G C R G +V A
Sbjct: 127 SGTSKPVGLKRGTDLAIDEMLAAAEYHLFLGNTPGNILCERGIRGGYGPNRLTLDV--SA 184
Query: 73 NIWALKSVGCTHVIV 87
+ G V+V
Sbjct: 185 VPILKEETGHLPVMV 199
>gnl|CDD|235121 PRK03372, ppnK, inorganic polyphosphate/ATP-NAD kinase;
Provisional.
Length = 306
Score = 27.6 bits (62), Expect = 7.8
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 77 LKSVGCTHVIVSTATGS 93
+ S GC V+VST TGS
Sbjct: 180 VSSFGCDGVLVSTPTGS 196
>gnl|CDD|222146 pfam13460, NAD_binding_10, NADH(P)-binding.
Length = 182
Score = 26.9 bits (60), Expect = 8.8
Identities = 13/56 (23%), Positives = 23/56 (41%), Gaps = 4/56 (7%)
Query: 42 LQGTIQGVDCVILARHGRKHTINPSNVNYRANIWALKSVGCTHVIVSTATGSLQEE 97
L + GVD V+ A R + + + A G ++V +A G ++E
Sbjct: 53 LAEALAGVDAVVDAFGAR----PDDSDGVKHLLDAAARAGVRRIVVVSAAGLYRDE 104
>gnl|CDD|213628 TIGR01487, Pglycolate_arch, phosphoglycolate phosphatase,
TA0175-type. This group of Archaeal sequences, now
known to be phosphoglycolate phosphatases, is most
closely related to the sucrose-phosphate phosphatases
from plants and cyanobacteria (TIGR01485). Together,
these two models comprise a subfamily model (TIGR01482).
TIGR01482, in turn, is a member of the IIB subfamily
(TIGR01484) of the Haloacid Dehalogenase (HAD)
superfamily of aspartate-nucleophile hydrolases.
Length = 215
Score = 27.0 bits (60), Expect = 9.6
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 215 TDYDCWRDTGNKVCVADVLKTFKENVEKITK 245
D D +R G KV VA+ KE + +T
Sbjct: 174 NDIDLFRVVGFKVAVANADDQLKEIADYVTS 204
>gnl|CDD|143453 cd07135, ALDH_F14-YMR110C, Saccharomyces cerevisiae aldehyde
dehydrogenase family 14 and related proteins. Aldehyde
dehydrogenase family 14 (ALDH14), isolated mainly from
the mitochondrial outer membrane of Saccharomyces
cerevisiae (YMR110C) and most closely related to the
plant and animal ALDHs and fatty ALDHs family 3 members,
and similar fungal sequences, are present in this CD.
Length = 436
Score = 27.6 bits (62), Expect = 9.7
Identities = 7/38 (18%), Positives = 15/38 (39%)
Query: 105 ILDSFIDRTRTRIQTFFDGSENSPNGVLHIPMEPAFDN 142
+ D F++ + + F+ G N+ I F+
Sbjct: 260 VYDEFVEELKKVLDEFYPGGANASPDYTRIVNPRHFNR 297
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
0.317 0.133 0.392
Gapped
Lambda K H
0.267 0.0743 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,126,176
Number of extensions: 1328132
Number of successful extensions: 1543
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1515
Number of HSP's successfully gapped: 37
Length of query: 283
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 187
Effective length of database: 6,679,618
Effective search space: 1249088566
Effective search space used: 1249088566
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: 41 (21.7 bits)
S2: 58 (26.1 bits)