RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 045474
(391 letters)
>gnl|CDD|177886 PLN02243, PLN02243, S-adenosylmethionine synthase.
Length = 386
Score = 822 bits (2124), Expect = 0.0
Identities = 346/386 (89%), Positives = 366/386 (94%)
Query: 1 MDTFLFTSESVNEGHPDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTK 60
M+TFLFTSESVNEGHPDKLCDQISDA+LDACL QDP+SKVACETC KTNMVMVFGEITTK
Sbjct: 1 METFLFTSESVNEGHPDKLCDQISDAVLDACLAQDPDSKVACETCTKTNMVMVFGEITTK 60
Query: 61 AKVDYEKVVRDTCRGIGFVSADVGLDADKCKVLVNIEEQSPEIAQSVHGNLSKRPEEIGA 120
AKVDYEK+VRDTCR IGFVS DVGLDADKCKVLVNIE+QSP+IAQ VHG+L+K+PEEIGA
Sbjct: 61 AKVDYEKIVRDTCREIGFVSDDVGLDADKCKVLVNIEQQSPDIAQGVHGHLTKKPEEIGA 120
Query: 121 GDQGHMFGYATDETPELMPLTLVLATKLGARLTEVRKNKTCPWLRPDGKTQVTVEYRNEG 180
GDQGHMFGYATDETPELMPLT VLATKLGARLTEVRKN TCPWLRPDGKTQVTVEY+NEG
Sbjct: 121 GDQGHMFGYATDETPELMPLTHVLATKLGARLTEVRKNGTCPWLRPDGKTQVTVEYKNEG 180
Query: 181 GAMVPQRVHTVLISTQHDETVTKEQISEDLKEHVIKPVIPAHFLDEKTIFHLNPSGRFVI 240
GAMVP RVHTVLISTQHDETVT ++I+ DLKEHVIKPVIP +LDEKTIFHLNPSGRFVI
Sbjct: 181 GAMVPIRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVI 240
Query: 241 GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLAR 300
GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKD TKVDRS AYIVRQAAKSVVA+GLAR
Sbjct: 241 GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSVVAAGLAR 300
Query: 301 RCLVQVSYAIGVPEPLSVFVDTYGTGKISDKDILALIKENFDFRPGMIAINLDLKRGGNF 360
RC+VQVSYAIGVPEPLSVFVDTYGTGKI DK+IL ++KENFDFRPGMIAINLDLKRGGN
Sbjct: 301 RCIVQVSYAIGVPEPLSVFVDTYGTGKIPDKEILKIVKENFDFRPGMIAINLDLKRGGNG 360
Query: 361 RYQKTAACGHFGRDDPDFTWETVKLL 386
R+QKTAA GHFGRDDPDFTWE VK L
Sbjct: 361 RFQKTAAYGHFGRDDPDFTWEVVKPL 386
>gnl|CDD|240268 PTZ00104, PTZ00104, S-adenosylmethionine synthase; Provisional.
Length = 398
Score = 724 bits (1870), Expect = 0.0
Identities = 276/388 (71%), Positives = 314/388 (80%), Gaps = 8/388 (2%)
Query: 3 TFLFTSESVNEGHPDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAK 62
FLFTSESV+EGHPDKLCDQISDA+LDACL QDP SKVACETCAKT MVMVFGEITTKA
Sbjct: 10 HFLFTSESVSEGHPDKLCDQISDAVLDACLAQDPLSKVACETCAKTGMVMVFGEITTKAV 69
Query: 63 VDYEKVVRDTCRGIGFVSADVGLDADKCKVLVNIEEQSPEIAQSVHGNLSKRPEEIGAGD 122
VDY+KVVRDT + IG+ + GLD C VLV IE+QSP+IAQ VH K+ E+IGAGD
Sbjct: 70 VDYQKVVRDTVKEIGYDDTEKGLDYKTCNVLVAIEQQSPDIAQGVHVG--KKEEDIGAGD 127
Query: 123 QGHMFGYATDETPELMPLTLVLATKLGARLTEVRKNKTCPWLRPDGKTQVTVEYRNEGGA 182
QG MFGYATDET ELMPLT LATKL RL+E+RKN PWLRPD KTQVTVEY +
Sbjct: 128 QGIMFGYATDETEELMPLTHELATKLAKRLSELRKNGILPWLRPDAKTQVTVEYEYDTRG 187
Query: 183 -MVPQRVHTVLISTQHDETVTKEQISEDLKEHVIKPVIPAHFLDEKTIFHLNPSGRFVIG 241
+ P+RVHT+LISTQHDE V+ E+I EDL EHVIKPVIPA LDE+T +HLNPSGRFVIG
Sbjct: 188 GLTPKRVHTILISTQHDEGVSNEEIREDLMEHVIKPVIPAKLLDEETKYHLNPSGRFVIG 247
Query: 242 GPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLARR 301
GPHGDAGLTGRKII+DTYGGWGAHGGGAFSGKD +KVDRSAAY R AKS+VA+GL +R
Sbjct: 248 GPHGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDPSKVDRSAAYAARWIAKSLVAAGLCKR 307
Query: 302 CLVQVSYAIGVPEPLSVFVDTYGTGK--ISDKDILALIKENFDFRPGMIAINLDLKRGGN 359
CLVQVSYAIGV EPLS+ V+TYGTGK D+D+L ++++NFD RPG I LDL+R
Sbjct: 308 CLVQVSYAIGVAEPLSIHVNTYGTGKKGYDDEDLLEIVQKNFDLRPGDIIKELDLRRPI- 366
Query: 360 FRYQKTAACGHFGRDDPDFTWETVKLLK 387
+QKTA+ GHFGR DP+FTWE K L+
Sbjct: 367 --FQKTASYGHFGRSDPEFTWEVPKDLE 392
>gnl|CDD|235374 PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated.
Length = 384
Score = 674 bits (1743), Expect = 0.0
Identities = 237/378 (62%), Positives = 289/378 (76%), Gaps = 10/378 (2%)
Query: 4 FLFTSESVNEGHPDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAKV 63
+LFTSESV+EGHPDK+ DQISDAILDA L QDP ++VACET T +V+V GEITT A V
Sbjct: 3 YLFTSESVSEGHPDKIADQISDAILDAILAQDPNARVACETLVTTGLVVVAGEITTSAYV 62
Query: 64 DYEKVVRDTCRGIGFVSADVGLDADKCKVLVNIEEQSPEIAQSVHGNLSKRPEEIGAGDQ 123
D E++VR+T + IG+ S++ G DA+ C VLV+I EQSP+IAQ V +EIGAGDQ
Sbjct: 63 DIEEIVRETIKEIGYTSSEYGFDANTCAVLVSIGEQSPDIAQGVD---RDELDEIGAGDQ 119
Query: 124 GHMFGYATDETPELMPLTLVLATKLGARLTEVRKNKTCPWLRPDGKTQVTVEYRNEGGAM 183
G MFGYA +ETPELMPL + LA +L RL EVRK+ T P+LRPD K+QVTVEY N
Sbjct: 120 GIMFGYACNETPELMPLPITLAHRLVRRLAEVRKSGTLPYLRPDAKSQVTVEYENG---- 175
Query: 184 VPQRVHTVLISTQHDETVTKEQISEDLKEHVIKPVIPAHFLDEKTIFHLNPSGRFVIGGP 243
P R+ T+++STQHD V++EQ+ ED+ E VIKPV+PA LDE T F +NP+GRFVIGGP
Sbjct: 176 KPVRIDTIVVSTQHDPDVSQEQLREDVIEEVIKPVLPAELLDEDTKFLINPTGRFVIGGP 235
Query: 244 HGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLARRCL 303
GDAGLTGRKII+DTYGG+ HGGGAFSGKD TKVDRSAAY R AK++VA+GLA RC
Sbjct: 236 QGDAGLTGRKIIVDTYGGYARHGGGAFSGKDPTKVDRSAAYAARYVAKNIVAAGLADRCE 295
Query: 304 VQVSYAIGVPEPLSVFVDTYGTGKISDKDILALIKENFDFRPGMIAINLDLKRGGNFRYQ 363
VQ+SYAIGV EP+S++VDT+GTGK+SD+ I ++E FD RP I LDL+R Y+
Sbjct: 296 VQLSYAIGVAEPVSIYVDTFGTGKVSDEKIEEAVREVFDLRPAGIIKMLDLRR---PIYR 352
Query: 364 KTAACGHFGRDDPDFTWE 381
KTAA GHFGR+D DF WE
Sbjct: 353 KTAAYGHFGREDLDFPWE 370
>gnl|CDD|223270 COG0192, MetK, S-adenosylmethionine synthetase [Coenzyme
metabolism].
Length = 388
Score = 636 bits (1642), Expect = 0.0
Identities = 235/390 (60%), Positives = 286/390 (73%), Gaps = 11/390 (2%)
Query: 1 MDTFLFTSESVNEGHPDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTK 60
FLFTSESV+EGHPDK+CDQISDAILDA L+QDP S+VACET T +V++ GEITT
Sbjct: 2 KKYFLFTSESVSEGHPDKICDQISDAILDAILKQDPNSRVACETLVTTGLVVIAGEITTS 61
Query: 61 AKVDYEKVVRDTCRGIGFVSADVGLDADKCKVLVNIEEQSPEIAQSVHGNLSKRPEEIGA 120
A VD + R T + IG+ +D G DA C VLV I EQSP+IAQ V + +EIGA
Sbjct: 62 AYVDIVNIARKTIKEIGYTESDYGFDAKTCAVLVAIGEQSPDIAQGVDEAD-EELDEIGA 120
Query: 121 GDQGHMFGYATDETPELMPLTLVLATKLGARLTEVRKNKTCPWLRPDGKTQVTVEYRNEG 180
GDQG MFGYA +ETPELMPL + LA +L RL EVRKN PWLRPD K+QVTVEY + G
Sbjct: 121 GDQGIMFGYACNETPELMPLPISLAHRLLRRLAEVRKNGELPWLRPDAKSQVTVEYEDNG 180
Query: 181 GAMVPQRVHTVLISTQHDETVTKEQISEDLKEHVIKPVIPAHFLDEKTIFHLNPSGRFVI 240
P R+ T+++STQHD +++EQ+ ED+ E +IKPV+P LD+KT + +NP+GRFVI
Sbjct: 181 ---KPVRIDTIVVSTQHDPDISQEQLREDVIEEIIKPVLPEELLDDKTKYFINPTGRFVI 237
Query: 241 GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLAR 300
GGP GDAGLTGRKII+DTYGG+ HGGGAFSGKD TKVDRSAAY R AK++VA+GLA
Sbjct: 238 GGPQGDAGLTGRKIIVDTYGGYARHGGGAFSGKDPTKVDRSAAYAARYVAKNIVAAGLAD 297
Query: 301 RCLVQVSYAIGVPEPLSVFVDTYGTGKISDKDILALIKENFDFRPGMIAINLDLKRGGNF 360
RC VQ+SYAIGV EP+S+ VDT+GTGK+S++ I +++ FD RP I LDL R
Sbjct: 298 RCEVQLSYAIGVAEPVSISVDTFGTGKVSEEKIEEAVRKVFDLRPAGIIKMLDLLR---P 354
Query: 361 RYQKTAACGHFGRDDPDFTWE---TVKLLK 387
Y+KTAA GHFGR+D DF WE V LK
Sbjct: 355 IYRKTAAYGHFGRED-DFPWEKLDKVDELK 383
>gnl|CDD|233241 TIGR01034, metK, S-adenosylmethionine synthetase. Tandem isozymes
of this S-adenosylmethionine synthetase in E. coli are
designated MetK and MetX [Central intermediary
metabolism, Other].
Length = 377
Score = 588 bits (1518), Expect = 0.0
Identities = 228/383 (59%), Positives = 287/383 (74%), Gaps = 12/383 (3%)
Query: 5 LFTSESVNEGHPDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAKVD 64
LFTSESV+EGHPDK+ DQISDA+LDA L+QDP++KVACET KT +V++ GEITT A VD
Sbjct: 1 LFTSESVSEGHPDKIADQISDAVLDAILKQDPKAKVACETFVKTGLVLIGGEITTSAYVD 60
Query: 65 YEKVVRDTCRGIGFVSADVGLDADKCKVLVNIEEQSPEIAQSVHGNLSKRPEEIGAGDQG 124
++V R+T + IG+ +D G DA C VLV I QSP+IAQ V PEE GAGDQG
Sbjct: 61 IQEVARNTIKDIGYTDSDYGFDAKTCAVLVAIGNQSPDIAQGVDKA---NPEEQGAGDQG 117
Query: 125 HMFGYATDETPELMPLTLVLATKLGARLTEVRKNKTCPWLRPDGKTQVTVEYRNEGGAMV 184
MFGYAT+ETPELMPL + LA KL R E+RK+ T PWLRPDGK+QVTV+Y +
Sbjct: 118 IMFGYATNETPELMPLPITLAHKLLKRAAELRKSGTLPWLRPDGKSQVTVQYEDNK---- 173
Query: 185 PQRVHTVLISTQHDETVTKEQISEDLKEHVIKPVIPAHFLDEKTIFHLNPSGRFVIGGPH 244
P RV T+++STQHD ++++ + E + E +IKPV+PA +LDEKT F +NP+GRFVIGGP
Sbjct: 174 PVRVDTIVLSTQHDPDISQKDLREAIIEEIIKPVLPAEYLDEKTKFFINPTGRFVIGGPM 233
Query: 245 GDAGLTGRKIIIDTYGGWGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLARRCLV 304
GD GLTGRKII+DTYGGW HGGGAFSGKD +KVDRSAAY R AK++VA+GLA RC V
Sbjct: 234 GDTGLTGRKIIVDTYGGWARHGGGAFSGKDPSKVDRSAAYAARYIAKNIVAAGLADRCEV 293
Query: 305 QVSYAIGVPEPLSVFVDTYGTGKISDKDILALIKENFDFRPGMIAINLDLKRGGNFRYQK 364
Q+SYAIGV EP+S+ ++T+GT K S++++L ++KENFD RPG I LDL + Y+K
Sbjct: 294 QLSYAIGVAEPVSIMIETFGTSKKSEEELLNVVKENFDLRPGGIIEKLDLLK---PIYRK 350
Query: 365 TAACGHFGRDDPDFTWETVKLLK 387
TA GHFGR+ +F WE L+
Sbjct: 351 TAVYGHFGRE--EFPWEKPDKLE 371
>gnl|CDD|237106 PRK12459, PRK12459, S-adenosylmethionine synthetase; Provisional.
Length = 386
Score = 547 bits (1412), Expect = 0.0
Identities = 222/383 (57%), Positives = 275/383 (71%), Gaps = 13/383 (3%)
Query: 1 MDTFLFTSESVNEGHPDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTK 60
M TFLFTSESV EGHPDKLCDQISDAILDACL QDP S+VACE T +V+V GEIT+
Sbjct: 1 MSTFLFTSESVTEGHPDKLCDQISDAILDACLRQDPASRVACEVLVSTGIVIVAGEITSS 60
Query: 61 AKVDYEKVVRDTCRGIGFVSADVGLDADKCKVLVNIEEQSPEIAQSV--HGNLSKRPEEI 118
AKVD EK+VR+ + IG+ G D C VLV++ EQSP+IAQ V + EE+
Sbjct: 61 AKVDIEKIVRNVIKEIGYDEL--GFDPRTCTVLVSLGEQSPDIAQGVDTAEGRDEELEEL 118
Query: 119 GAGDQGHMFGYATDETPELMPLTLVLATKLGARLTEVRKNKTCPWLRPDGKTQVTVEYRN 178
GAGDQG MFGYA DETPELMPL +VLA +L RL + RK+ P L PDGKTQVTVEY +
Sbjct: 119 GAGDQGTMFGYACDETPELMPLPIVLAHRLAKRLDQARKDGLLPGLLPDGKTQVTVEYED 178
Query: 179 EGGAMVPQRVHTVLISTQHDETVTKEQISEDLKEHVIKPVIPAHFLDEKTIFHLNPSGRF 238
P RV T+++S QHDE+V E + D+ E+VIKPV +LD++T +NP+GRF
Sbjct: 179 G----RPVRVDTIVVSAQHDESVDLETLRRDVIENVIKPVFEDFWLDDETRILINPTGRF 234
Query: 239 VIGGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGL 298
V+GGP D GLTGRKI++DTYGG+ HGGGAFSGKD +KVDRSAAY R AK++VA+GL
Sbjct: 235 VVGGPAADTGLTGRKIMVDTYGGYARHGGGAFSGKDPSKVDRSAAYAARYIAKNIVAAGL 294
Query: 299 ARRCLVQVSYAIGVPEPLSVFVDTYGTGKISDKDILALIKENFDFRPGMIAINLDLKRGG 358
A+RC VQ+SYAIG P+SV V+T+GTG +SD+++ ++E+FD RP I L+L+
Sbjct: 295 AKRCEVQLSYAIGKARPVSVQVNTFGTGTVSDEELTRAVREHFDLRPAGIIEKLNLR--- 351
Query: 359 NFRYQKTAACGHFGRDDPDFTWE 381
N Y+KTAA GHFGR F WE
Sbjct: 352 NPIYRKTAAYGHFGRT--LFPWE 372
>gnl|CDD|111646 pfam02773, S-AdoMet_synt_C, S-adenosylmethionine synthetase,
C-terminal domain. The three domains of
S-adenosylmethionine synthetase have the same alpha+beta
fold.
Length = 138
Score = 259 bits (664), Expect = 4e-87
Identities = 103/143 (72%), Positives = 118/143 (82%), Gaps = 5/143 (3%)
Query: 240 IGGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDSTKVDRSAAYIVRQAAKSVVASGLA 299
IGGP GDAGLTGRKII+DTYGGWGAHGGGAFSGKD TKVDRSAAY R AKS+VA+GLA
Sbjct: 1 IGGPQGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDPTKVDRSAAYAARWVAKSLVAAGLA 60
Query: 300 RRCLVQVSYAIGVPEPLSVFVDTYGTGKISDKDILALIKENFDFRPGMIAINLDLKRGGN 359
RRCLVQVSYAIGV EPLS+ VDTYGT K S++++L ++++NFD RPG+I LDLK+
Sbjct: 61 RRCLVQVSYAIGVAEPLSIMVDTYGTSKKSEEELLEIVRKNFDLRPGVIVKMLDLKKP-- 118
Query: 360 FRYQKTAACGHFGRDDPDFTWET 382
YQ+TAA GHFGRD DF WE
Sbjct: 119 -IYQQTAAYGHFGRD--DFPWEK 138
>gnl|CDD|217221 pfam02772, S-AdoMet_synt_M, S-adenosylmethionine synthetase,
central domain. The three domains of
S-adenosylmethionine synthetase have the same alpha+beta
fold.
Length = 119
Score = 231 bits (593), Expect = 2e-76
Identities = 75/123 (60%), Positives = 94/123 (76%), Gaps = 4/123 (3%)
Query: 116 EEIGAGDQGHMFGYATDETPELMPLTLVLATKLGARLTEVRKNKTCPWLRPDGKTQVTVE 175
+EIGAGDQG MFGYAT+ETPELMPL +VLA +L RL E+RKN T P+LRPDGK+QVTVE
Sbjct: 1 DEIGAGDQGIMFGYATNETPELMPLPIVLAHRLLRRLAELRKNGTLPYLRPDGKSQVTVE 60
Query: 176 YRNEGGAMVPQRVHTVLISTQHDETVTKEQISEDLKEHVIKPVIPAHFLDEKTIFHLNPS 235
Y + P RV TV++STQHD V+ E++ ED+ E VIKPV+P LD+ T + +NP+
Sbjct: 61 YED----GKPVRVDTVVVSTQHDPDVSLEELREDIIEEVIKPVLPEELLDDDTKYLINPT 116
Query: 236 GRF 238
GRF
Sbjct: 117 GRF 119
>gnl|CDD|201226 pfam00438, S-AdoMet_synt_N, S-adenosylmethionine synthetase,
N-terminal domain. The three domains of
S-adenosylmethionine synthetase have the same alpha+beta
fold.
Length = 100
Score = 196 bits (502), Expect = 5e-63
Identities = 65/99 (65%), Positives = 79/99 (79%)
Query: 3 TFLFTSESVNEGHPDKLCDQISDAILDACLEQDPESKVACETCAKTNMVMVFGEITTKAK 62
+LFTSESV+EGHPDK+CDQISDAILDA L QDP S+VACET T +V+V GEITT A
Sbjct: 2 RYLFTSESVSEGHPDKICDQISDAILDAFLAQDPNSRVACETLVTTGLVVVAGEITTSAY 61
Query: 63 VDYEKVVRDTCRGIGFVSADVGLDADKCKVLVNIEEQSP 101
VD EK+VR+ + IG+ S+++G DAD C VLV+I EQSP
Sbjct: 62 VDIEKIVREVIKDIGYDSSELGFDADTCAVLVSIHEQSP 100
>gnl|CDD|177949 PLN02315, PLN02315, aldehyde dehydrogenase family 7 member.
Length = 508
Score = 30.6 bits (69), Expect = 1.6
Identities = 31/107 (28%), Positives = 43/107 (40%), Gaps = 19/107 (17%)
Query: 188 VHTVLISTQHDETVTKEQI---------SEDLKEHV-IKPVIPAHFLDEKTIFHLNPSGR 237
V ++ D V KE++ + L+E + I +P +IF NP
Sbjct: 379 VQPTIVEISPDADVVKEELFGPVLYVMKFKTLEEAIEINNSVPQGL--SSSIFTRNPETI 436
Query: 238 FVIGGPHG-DAGLTGRKI------IIDTYGGWGAHGGGAFSGKDSTK 277
F GP G D G+ I I +GG A GGG +G DS K
Sbjct: 437 FKWIGPLGSDCGIVNVNIPTNGAEIGGAFGGEKATGGGREAGSDSWK 483
>gnl|CDD|176809 cd08975, BaFpgNei_N_3, Uncharacterized bacterial subgroup of the
N-terminal domain of Fpg (formamidopyrimidine-DNA
glycosylase, MutM)_Nei (endonuclease VIII)
base-excision repair DNA glycosylases. This family is
an uncharacterized bacterial subgroup of the FpgNei_N
domain superfamily. DNA glycosylases maintain genome
integrity by recognizing base lesions created by
ionizing radiation, alkylating or oxidizing agents, and
endogenous reactive oxygen species. They initiate the
base-excision repair process, which is completed with
the help of enzymes such as phosphodiesterases, AP
endonucleases, DNA polymerases and DNA ligases. DNA
glycosylases cleave the N-glycosyl bond between the
sugar and the damaged base, creating an AP
(apurinic/apyrimidinic) site. Most FpgNei DNA
glycosylases use their N-terminal proline residue as the
key catalytic nucleophile, and the reaction proceeds via
a Schiff base intermediate. One exception is mouse
Nei-like glycosylase 3 (Neil3) which forms a Schiff base
intermediate via its N-terminal valine. In this family
the N-terminal proline is replaced by an isoleucine or
valine. Escherichia coli Fpg prefers
8-oxo-7,8-dihydroguanine (8-oxoG) and oxidized purines
and Escherichia coli Nei recognizes oxidized
pyrimidines. However, neither Escherichia coli Fpg or
Nei belong to this family. In addition to this
BaFpgNei_N_3 domain, enzymes belonging to this family
contain a helix-two turn-helix (H2TH) domain and a
zinc-finger motif.
Length = 117
Score = 28.4 bits (64), Expect = 2.8
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 9/59 (15%)
Query: 204 EQISEDLKEHVIKPVIPAHFLDEKTIFHLNPSGRFVIGGPHGDAGLTGRKII-IDTYGG 261
+Q++E LK I V PA + T ++ +P+ D L G++I + +GG
Sbjct: 11 KQLNETLKGKRITDVFPATSPHKFTWYNGDPNEY--------DELLVGKRITSAEGFGG 61
>gnl|CDD|182361 PRK10294, PRK10294, 6-phosphofructokinase 2; Provisional.
Length = 309
Score = 29.4 bits (66), Expect = 3.5
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 7/54 (12%)
Query: 269 AFSGKDSTKVDRSAAYIVRQAAKSVVASGLARRCLVQVSY--AIGVPEPLSVFV 320
A +D T+ D VR+AA+ +V SG A+R +V + A+GV + V
Sbjct: 193 ALVNRDLTQPDD-----VRKAAQELVNSGKAKRVVVSLGPQGALGVDSENCIQV 241
>gnl|CDD|235298 PRK04439, PRK04439, S-adenosylmethionine synthetase; Provisional.
Length = 399
Score = 29.0 bits (66), Expect = 4.8
Identities = 8/14 (57%), Positives = 12/14 (85%)
Query: 14 GHPDKLCDQISDAI 27
GHPD +CD I++A+
Sbjct: 28 GHPDTICDGIAEAV 41
>gnl|CDD|223231 COG0153, GalK, Galactokinase [Carbohydrate transport and
metabolism].
Length = 390
Score = 28.8 bits (65), Expect = 4.8
Identities = 13/62 (20%), Positives = 20/62 (32%), Gaps = 3/62 (4%)
Query: 308 YAIGVPEPLSVFVDTYGTGKISDKDILALIKENFDFRPGMIAINLDLKRGGNFR---YQK 364
Y G P ++ TY D + L NF + + LD+ + Y K
Sbjct: 41 YNGGFVLPCAINYGTYVAVAKRDDGKVRLYSANFGNAGDIFFLLLDIAKEKIDDWANYVK 100
Query: 365 TA 366
Sbjct: 101 GV 102
>gnl|CDD|147642 pfam05585, DUF1758, Putative peptidase (DUF1758). This is a family
of nematode proteins of unknown function. However, it
seems likely that these proteins act as aspartic
peptidases.
Length = 164
Score = 28.4 bits (63), Expect = 4.9
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 3/53 (5%)
Query: 205 QISEDLKEHVIKPVIPAHFLDEK---TIFHLNPSGRFVIGGPHGDAGLTGRKI 254
+I+ L+ HVI I A F D K F ++G + +TG KI
Sbjct: 82 KITSSLERHVIDDSILAVFNDLKPADLNFRKIAPIDILLGSDYFWDFITGTKI 134
>gnl|CDD|203088 pfam04780, DUF629, Protein of unknown function (DUF629). This
family represents a region of several plant proteins of
unknown function. A C2H2 zinc finger is predicted in
this region in some family members, but the spacing
between the cysteine residues is not conserved
throughout the family.
Length = 463
Score = 28.9 bits (65), Expect = 5.0
Identities = 22/81 (27%), Positives = 39/81 (48%), Gaps = 13/81 (16%)
Query: 177 RNEGGAMVPQRVHTVLISTQHDETVTKEQISED-------LKEHVIKPVIPAHFLDEKTI 229
R++G ++V + V + L +++ KE+I D L + ++K A F DE TI
Sbjct: 230 RDDGTSLVCKAVDSFLDNSR-----VKEKIDLDPQFSFLLLDKRLLKSEE-APFDDEGTI 283
Query: 230 FHLNPSGRFVIGGPHGDAGLT 250
+P+ + P GD L+
Sbjct: 284 NVFDPNAHYAKVHPQGDDILS 304
>gnl|CDD|239879 cd04416, NDPk_TX, NDP kinase domain of thioredoxin
domain-containing proteins (TXNDC3 and TXNDC6): Txl-2
(TXNDC6) and Sptrx-2 (TXNDC3) are fusion proteins of
Group II N-terminal thioredoxin domains followed by one
or three NDP kinase domains, respectively. Sptrx-2,
which has a tissue specific distribution in human
testis, has been considered as a member of the nm23
family (nm23-H8) and exhibits a high homology with sea
urchin IC1 (intermediate chain-1) protein, a component
of the sperm axonemal outer dynein arm complex. Txl-2 is
mainly represented in close association with
microtubules within tissues with cilia and flagella such
as seminiferous epithelium (spermatids) and lung airway
epithelium, suggesting possible role in control of
microtubule stability and maintenance.
Length = 132
Score = 27.9 bits (63), Expect = 5.2
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 193 ISTQHDETVTKEQISEDLKEHVIKP 217
I Q + +T+EQ E KEH +
Sbjct: 30 ILAQKEMVLTEEQAREFYKEHEEED 54
>gnl|CDD|223761 COG0689, Rph, RNase PH [Translation, ribosomal structure and
biogenesis].
Length = 230
Score = 28.0 bits (63), Expect = 7.2
Identities = 24/84 (28%), Positives = 36/84 (42%), Gaps = 9/84 (10%)
Query: 146 TKLGARLTEVRKNKTCPWLRPDGKTQVTVEYRNEGGAMVPQRVHTVLISTQHDETVTKEQ 205
TK+ ++ R+ +LR GK +T EY M+P+ + D TKE
Sbjct: 42 TKVICTVSGPREPVP-RFLRGTGKGWLTAEYG-----MLPRSTDERKKR-EADRGRTKE- 93
Query: 206 ISEDLKEHVIKPVIPAHFLDEKTI 229
IS + ++ VI L E TI
Sbjct: 94 ISRLIGR-ALRAVIDLELLPESTI 116
>gnl|CDD|238804 cd01570, NAPRTase_A, Nicotinate phosphoribosyltransferase
(NAPRTase), subgroup A. Nicotinate
phosphoribosyltransferase catalyses the formation of
NAMN and PPi from 5-phosphoribosy -1-pyrophosphate
(PRPP) and nicotinic acid, this is the first, and also
rate limiting, reaction in the NAD salvage synthesis.
This salvage pathway serves to recycle NAD degradation
products. This subgroup is present in bacteria and
eukaryota (except funghi).
Length = 327
Score = 27.9 bits (63), Expect = 9.4
Identities = 11/48 (22%), Positives = 24/48 (50%)
Query: 306 VSYAIGVPEPLSVFVDTYGTGKISDKDILALIKENFDFRPGMIAINLD 353
++A P+ ++ VDTY T + + +A+ KE ++ + +D
Sbjct: 209 RAFAEAYPDNFTLLVDTYDTLRSGLPNAIAVAKELGALGYRLVGVRID 256
>gnl|CDD|217121 pfam02582, DUF155, Uncharacterized ACR, YagE family COG1723.
Length = 174
Score = 27.5 bits (62), Expect = 9.4
Identities = 25/100 (25%), Positives = 36/100 (36%), Gaps = 24/100 (24%)
Query: 291 KSVVASGLARRCLV-----QVSYAIGVPEPLSVFVDTYGTGKISDKDILALIKENFDFRP 345
K ++ LA+ + QV + EPL + G +S K++L LI E R
Sbjct: 72 KLAISHALAQSVKLSVFEEQVDNLLESTEPLPEELAKTGKLNLSRKELLKLIGELLSLR- 130
Query: 346 GMIAINLDLKRGGNFRYQKTAACGHFGRDDPDFTWETVKL 385
INL D PDF W+ +L
Sbjct: 131 --HRINL---YSDLL-------------DTPDFFWDEPEL 152
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
0.318 0.136 0.405
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,069,672
Number of extensions: 1965797
Number of successful extensions: 1768
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1743
Number of HSP's successfully gapped: 33
Length of query: 391
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 292
Effective length of database: 6,546,556
Effective search space: 1911594352
Effective search space used: 1911594352
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: 60 (26.9 bits)