RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 016575
(387 letters)
>gnl|CDD|177886 PLN02243, PLN02243, S-adenosylmethionine synthase.
Length = 386
Score = 814 bits (2103), Expect = 0.0
Identities = 352/386 (91%), Positives = 361/386 (93%), Gaps = 12/386 (3%)
Query: 7 METFLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTK 66
METFLFTSESVNEGHPDKLCDQISDAVLDACL QDP+SKVACETCTKTNMVMVFGEITTK
Sbjct: 1 METFLFTSESVNEGHPDKLCDQISDAVLDACLAQDPDSKVACETCTKTNMVMVFGEITTK 60
Query: 67 AKVDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGVHGHFTKRPEDIGA 126
AKVDYEKIVRDTCR IGFVSDDVGLDAD CKVLVNIEQQSPDIAQGVHGH TK+PE+IGA
Sbjct: 61 AKVDYEKIVRDTCREIGFVSDDVGLDADKCKVLVNIEQQSPDIAQGVHGHLTKKPEEIGA 120
Query: 127 GDQGHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYNDN 186
GDQGHMFGYATDET E MPL+HVLATKLGARLTEVRKN TC WLRPDGKTQVTVEY N+
Sbjct: 121 GDQGHMFGYATDETPELMPLTHVLATKLGARLTEVRKNGTCPWLRPDGKTQVTVEYKNEG 180
Query: 187 GAMVPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVI 246
GAMVP+RVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVI
Sbjct: 181 GAMVPIRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVI 240
Query: 247 GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLAR 306
GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKS+VA GLAR
Sbjct: 241 GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSVVAAGLAR 300
Query: 307 RCIVQVSYAIGVPEPLSVF------------EILKIVKESFDFRPGMMTINLDLKRGGNG 354
RCIVQVSYAIGVPEPLSVF EILKIVKE+FDFRPGM+ INLDLKRGGNG
Sbjct: 301 RCIVQVSYAIGVPEPLSVFVDTYGTGKIPDKEILKIVKENFDFRPGMIAINLDLKRGGNG 360
Query: 355 RFLKTAAYGHFGRDDPDFTWEVVKPL 380
RF KTAAYGHFGRDDPDFTWEVVKPL
Sbjct: 361 RFQKTAAYGHFGRDDPDFTWEVVKPL 386
>gnl|CDD|240268 PTZ00104, PTZ00104, S-adenosylmethionine synthase; Provisional.
Length = 398
Score = 710 bits (1835), Expect = 0.0
Identities = 274/400 (68%), Positives = 309/400 (77%), Gaps = 20/400 (5%)
Query: 1 MDLLDKMETFLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVF 60
L + FLFTSESV+EGHPDKLCDQISDAVLDACL QDP SKVACETC KT MVMVF
Sbjct: 2 TFLKMSVGHFLFTSESVSEGHPDKLCDQISDAVLDACLAQDPLSKVACETCAKTGMVMVF 61
Query: 61 GEITTKAKVDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGVHGHFTKR 120
GEITTKA VDY+K+VRDT + IG+ + GLD C VLV IEQQSPDIAQGVH K+
Sbjct: 62 GEITTKAVVDYQKVVRDTVKEIGYDDTEKGLDYKTCNVLVAIEQQSPDIAQGVHVG--KK 119
Query: 121 PEDIGAGDQGHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTV 180
EDIGAGDQG MFGYATDET E MPL+H LATKL RL+E+RKN WLRPD KTQVTV
Sbjct: 120 EEDIGAGDQGIMFGYATDETEELMPLTHELATKLAKRLSELRKNGILPWLRPDAKTQVTV 179
Query: 181 EY-YNDNGAMVPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLN 239
EY Y+ G + P RVHT+LISTQHDE V+N+EI DL EHVIKPVIP K LDE+T +HLN
Sbjct: 180 EYEYDTRGGLTPKRVHTILISTQHDEGVSNEEIREDLMEHVIKPVIPAKLLDEETKYHLN 239
Query: 240 PSGRFVIGGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSI 299
PSGRFVIGGPHGDAGLTGRKII+DTYGGWGAHGGGAFSGKDP+KVDRS AY R AKS+
Sbjct: 240 PSGRFVIGGPHGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDPSKVDRSAAYAARWIAKSL 299
Query: 300 VANGLARRCIVQVSYAIGVPEPLSVF--------------EILKIVKESFDFRPGMMTIN 345
VA GL +RC+VQVSYAIGV EPLS+ ++L+IV+++FD RPG +
Sbjct: 300 VAAGLCKRCLVQVSYAIGVAEPLSIHVNTYGTGKKGYDDEDLLEIVQKNFDLRPGDIIKE 359
Query: 346 LDLKRGGNGRFLKTAAYGHFGRDDPDFTWEVVKPLKWEKP 385
LDL+R F KTA+YGHFGR DP+FTWEV K L+ EK
Sbjct: 360 LDLRRPI---FQKTASYGHFGRSDPEFTWEVPKDLEHEKD 396
>gnl|CDD|235374 PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated.
Length = 384
Score = 634 bits (1637), Expect = 0.0
Identities = 223/378 (58%), Positives = 273/378 (72%), Gaps = 22/378 (5%)
Query: 10 FLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTKAKV 69
+LFTSESV+EGHPDK+ DQISDA+LDA L QDP ++VACET T +V+V GEITT A V
Sbjct: 3 YLFTSESVSEGHPDKIADQISDAILDAILAQDPNARVACETLVTTGLVVVAGEITTSAYV 62
Query: 70 DYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGVHGHFTKRPEDIGAGDQ 129
D E+IVR+T + IG+ S + G DA+ C VLV+I +QSPDIAQGV ++IGAGDQ
Sbjct: 63 DIEEIVRETIKEIGYTSSEYGFDANTCAVLVSIGEQSPDIAQGVD---RDELDEIGAGDQ 119
Query: 130 GHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYNDNGAM 189
G MFGYA +ET E MPL LA +L RL EVRK+ T +LRPD K+QVTVEY N
Sbjct: 120 GIMFGYACNETPELMPLPITLAHRLVRRLAEVRKSGTLPYLRPDAKSQVTVEYENGK--- 176
Query: 190 VPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVIGGP 249
PVR+ T+++STQHD V+ +++ D+ E VIKPV+P + LDE T F +NP+GRFVIGGP
Sbjct: 177 -PVRIDTIVVSTQHDPDVSQEQLREDVIEEVIKPVLPAELLDEDTKFLINPTGRFVIGGP 235
Query: 250 HGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLARRCI 309
GDAGLTGRKII+DTYGG+ HGGGAFSGKDPTKVDRS AY R AK+IVA GLA RC
Sbjct: 236 QGDAGLTGRKIIVDTYGGYARHGGGAFSGKDPTKVDRSAAYAARYVAKNIVAAGLADRCE 295
Query: 310 VQVSYAIGVPEPLSVF------------EILKIVKESFDFRPGMMTINLDLKRGGNGRFL 357
VQ+SYAIGV EP+S++ +I + V+E FD RP + LDL+R +
Sbjct: 296 VQLSYAIGVAEPVSIYVDTFGTGKVSDEKIEEAVREVFDLRPAGIIKMLDLRR---PIYR 352
Query: 358 KTAAYGHFGRDDPDFTWE 375
KTAAYGHFGR+D DF WE
Sbjct: 353 KTAAYGHFGREDLDFPWE 370
>gnl|CDD|223270 COG0192, MetK, S-adenosylmethionine synthetase [Coenzyme
metabolism].
Length = 388
Score = 591 bits (1527), Expect = 0.0
Identities = 220/381 (57%), Positives = 270/381 (70%), Gaps = 20/381 (5%)
Query: 7 METFLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTK 66
+ FLFTSESV+EGHPDK+CDQISDA+LDA L+QDP S+VACET T +V++ GEITT
Sbjct: 2 KKYFLFTSESVSEGHPDKICDQISDAILDAILKQDPNSRVACETLVTTGLVVIAGEITTS 61
Query: 67 AKVDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGVHGHFTKRPEDIGA 126
A VD I R T + IG+ D G DA C VLV I +QSPDIAQGV + ++IGA
Sbjct: 62 AYVDIVNIARKTIKEIGYTESDYGFDAKTCAVLVAIGEQSPDIAQGVDEA-DEELDEIGA 120
Query: 127 GDQGHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYNDN 186
GDQG MFGYA +ET E MPL LA +L RL EVRKN WLRPD K+QVTVEY ++
Sbjct: 121 GDQGIMFGYACNETPELMPLPISLAHRLLRRLAEVRKNGELPWLRPDAKSQVTVEYEDNG 180
Query: 187 GAMVPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVI 246
PVR+ T+++STQHD ++ +++ D+ E +IKPV+PE+ LD+KT + +NP+GRFVI
Sbjct: 181 ---KPVRIDTIVVSTQHDPDISQEQLREDVIEEIIKPVLPEELLDDKTKYFINPTGRFVI 237
Query: 247 GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLAR 306
GGP GDAGLTGRKII+DTYGG+ HGGGAFSGKDPTKVDRS AY R AK+IVA GLA
Sbjct: 238 GGPQGDAGLTGRKIIVDTYGGYARHGGGAFSGKDPTKVDRSAAYAARYVAKNIVAAGLAD 297
Query: 307 RCIVQVSYAIGVPEPLSVF------------EILKIVKESFDFRPGMMTINLDLKRGGNG 354
RC VQ+SYAIGV EP+S+ +I + V++ FD RP + LDL R
Sbjct: 298 RCEVQLSYAIGVAEPVSISVDTFGTGKVSEEKIEEAVRKVFDLRPAGIIKMLDLLR---P 354
Query: 355 RFLKTAAYGHFGRDDPDFTWE 375
+ KTAAYGHFGR+D DF WE
Sbjct: 355 IYRKTAAYGHFGRED-DFPWE 374
>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 = 558 bits (1439), Expect = 0.0
Identities = 222/383 (57%), Positives = 272/383 (71%), Gaps = 24/383 (6%)
Query: 11 LFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTKAKVD 70
LFTSESV+EGHPDK+ DQISDAVLDA L+QDP++KVACET KT +V++ GEITT A VD
Sbjct: 1 LFTSESVSEGHPDKIADQISDAVLDAILKQDPKAKVACETFVKTGLVLIGGEITTSAYVD 60
Query: 71 YEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGVHGHFTKRPEDIGAGDQG 130
+++ R+T + IG+ D G DA C VLV I QSPDIAQGV PE+ GAGDQG
Sbjct: 61 IQEVARNTIKDIGYTDSDYGFDAKTCAVLVAIGNQSPDIAQGVDK---ANPEEQGAGDQG 117
Query: 131 HMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYNDNGAMV 190
MFGYAT+ET E MPL LA KL R E+RK+ T WLRPDGK+QVTV+Y ++
Sbjct: 118 IMFGYATNETPELMPLPITLAHKLLKRAAELRKSGTLPWLRPDGKSQVTVQYEDNK---- 173
Query: 191 PVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVIGGPH 250
PVRV T+++STQHD ++ ++ + E +IKPV+P +YLDEKT F +NP+GRFVIGGP
Sbjct: 174 PVRVDTIVLSTQHDPDISQKDLREAIIEEIIKPVLPAEYLDEKTKFFINPTGRFVIGGPM 233
Query: 251 GDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLARRCIV 310
GD GLTGRKII+DTYGGW HGGGAFSGKDP+KVDRS AY R AK+IVA GLA RC V
Sbjct: 234 GDTGLTGRKIIVDTYGGWARHGGGAFSGKDPSKVDRSAAYAARYIAKNIVAAGLADRCEV 293
Query: 311 QVSYAIGVPEPLSVF------------EILKIVKESFDFRPGMMTINLDLKRGGNGRFLK 358
Q+SYAIGV EP+S+ E+L +VKE+FD RPG + LDL + + K
Sbjct: 294 QLSYAIGVAEPVSIMIETFGTSKKSEEELLNVVKENFDLRPGGIIEKLDLLK---PIYRK 350
Query: 359 TAAYGHFGRDDPDFTWEVVKPLK 381
TA YGHFGR+ +F WE L+
Sbjct: 351 TAVYGHFGRE--EFPWEKPDKLE 371
>gnl|CDD|237106 PRK12459, PRK12459, S-adenosylmethionine synthetase; Provisional.
Length = 386
Score = 506 bits (1304), Expect = e-180
Identities = 215/385 (55%), Positives = 265/385 (68%), Gaps = 25/385 (6%)
Query: 7 METFLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTK 66
M TFLFTSESV EGHPDKLCDQISDA+LDACL QDP S+VACE T +V+V GEIT+
Sbjct: 1 MSTFLFTSESVTEGHPDKLCDQISDAILDACLRQDPASRVACEVLVSTGIVIVAGEITSS 60
Query: 67 AKVDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGV--HGHFTKRPEDI 124
AKVD EKIVR+ + IG+ D++G D C VLV++ +QSPDIAQGV + E++
Sbjct: 61 AKVDIEKIVRNVIKEIGY--DELGFDPRTCTVLVSLGEQSPDIAQGVDTAEGRDEELEEL 118
Query: 125 GAGDQGHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYN 184
GAGDQG MFGYA DET E MPL VLA +L RL + RK+ L PDGKTQVTVEY +
Sbjct: 119 GAGDQGTMFGYACDETPELMPLPIVLAHRLAKRLDQARKDGLLPGLLPDGKTQVTVEYED 178
Query: 185 DNGAMVPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRF 244
PVRV T+++S QHDE+V + + D+ E+VIKPV + +LD++T +NP+GRF
Sbjct: 179 G----RPVRVDTIVVSAQHDESVDLETLRRDVIENVIKPVFEDFWLDDETRILINPTGRF 234
Query: 245 VIGGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGL 304
V+GGP D GLTGRKI++DTYGG+ HGGGAFSGKDP+KVDRS AY R AK+IVA GL
Sbjct: 235 VVGGPAADTGLTGRKIMVDTYGGYARHGGGAFSGKDPSKVDRSAAYAARYIAKNIVAAGL 294
Query: 305 ARRCIVQVSYAIGVPEPLSVF------------EILKIVKESFDFRPGMMTINLDLKRGG 352
A+RC VQ+SYAIG P+SV E+ + V+E FD RP + L+L+
Sbjct: 295 AKRCEVQLSYAIGKARPVSVQVNTFGTGTVSDEELTRAVREHFDLRPAGIIEKLNLR--- 351
Query: 353 NGRFLKTAAYGHFGRDDPDFTWEVV 377
N + KTAAYGHFGR F WE
Sbjct: 352 NPIYRKTAAYGHFGRT--LFPWEKT 374
>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 = 227 bits (580), Expect = 2e-74
Identities = 94/142 (66%), Positives = 108/142 (76%), Gaps = 17/142 (11%)
Query: 246 IGGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLA 305
IGGP GDAGLTGRKII+DTYGGWGAHGGGAFSGKDPTKVDRS AY R AKS+VA GLA
Sbjct: 1 IGGPQGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDPTKVDRSAAYAARWVAKSLVAAGLA 60
Query: 306 RRCIVQVSYAIGVPEPLSVF------------EILKIVKESFDFRPGMMTINLDLKRGGN 353
RRC+VQVSYAIGV EPLS+ E+L+IV+++FD RPG++ LDLK+
Sbjct: 61 RRCLVQVSYAIGVAEPLSIMVDTYGTSKKSEEELLEIVRKNFDLRPGVIVKMLDLKK--- 117
Query: 354 GRFLKTAAYGHFGRDDPDFTWE 375
+ +TAAYGHFGRD DF WE
Sbjct: 118 PIYQQTAAYGHFGRD--DFPWE 137
>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 = 225 bits (576), Expect = 5e-74
Identities = 72/123 (58%), Positives = 92/123 (74%), Gaps = 4/123 (3%)
Query: 122 EDIGAGDQGHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVE 181
++IGAGDQG MFGYAT+ET E MPL VLA +L RL E+RKN T +LRPDGK+QVTVE
Sbjct: 1 DEIGAGDQGIMFGYATNETPELMPLPIVLAHRLLRRLAELRKNGTLPYLRPDGKSQVTVE 60
Query: 182 YYNDNGAMVPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPS 241
Y + PVRV TV++STQHD V+ +E+ D+ E VIKPV+PE+ LD+ T + +NP+
Sbjct: 61 YEDGK----PVRVDTVVVSTQHDPDVSLEELREDIIEEVIKPVLPEELLDDDTKYLINPT 116
Query: 242 GRF 244
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 = 195 bits (499), Expect = 1e-62
Identities = 64/100 (64%), Positives = 78/100 (78%)
Query: 8 ETFLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTKA 67
+LFTSESV+EGHPDK+CDQISDA+LDA L QDP S+VACET T +V+V GEITT A
Sbjct: 1 SRYLFTSESVSEGHPDKICDQISDAILDAFLAQDPNSRVACETLVTTGLVVVAGEITTSA 60
Query: 68 KVDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSP 107
VD EKIVR+ + IG+ S ++G DAD C VLV+I +QSP
Sbjct: 61 YVDIEKIVREVIKDIGYDSSELGFDADTCAVLVSIHEQSP 100
>gnl|CDD|132483 TIGR03442, TIGR03442, ergothioneine biosynthesis protein EgtC.
Members of this strictly bacterial protein family show
similarity to class II glutamine amidotransferases (see
pfamam family pfam00310). They are distinguished by
appearing in a genome context with, and usually adjacent
to or between, members of families TIGR03438 (an
uncharacterized methyltransferase) and TIGR03440 (an
uncharacterized protein) [Biosynthesis of cofactors,
prosthetic groups, and carriers, Glutathione and
analogs].
Length = 251
Score = 35.9 bits (83), Expect = 0.024
Identities = 16/55 (29%), Positives = 24/55 (43%)
Query: 155 GARLTEVRKNSTCSWLRPDGKTQVTVEYYNDNGAMVPVRVHTVLISTQHDETVTN 209
G+RL R T WL+ V E Y+D+ V +L ++ D T+T
Sbjct: 196 GSRLVATRWADTLYWLKDPEGVIVASEPYDDDPGWQDVPDRHLLSVSEDDVTITP 250
>gnl|CDD|216176 pfam00890, FAD_binding_2, FAD binding domain. This family includes
members that bind FAD. This family includes the
flavoprotein subunits from succinate and fumarate
dehydrogenase, aspartate oxidase and the alpha subunit
of adenylylsulphate reductase.
Length = 401
Score = 35.7 bits (83), Expect = 0.036
Identities = 14/61 (22%), Positives = 18/61 (29%), Gaps = 4/61 (6%)
Query: 86 SDDVGLDADHCKVLVNIEQQSPDI----AQGVHGHFTKRPEDIGAGDQGHMFGYATDETS 141
V LDAD ++ P G+ RP + M G TDE
Sbjct: 307 GAHVYLDADGSLDAEGLKATLPAFNEEAIFGLDVDPYDRPIPVFPAQHYTMGGVRTDENG 366
Query: 142 E 142
Sbjct: 367 R 367
>gnl|CDD|223576 COG0502, BioB, Biotin synthase and related enzymes [Coenzyme
metabolism].
Length = 335
Score = 33.8 bits (78), Expect = 0.13
Identities = 28/113 (24%), Positives = 40/113 (35%), Gaps = 14/113 (12%)
Query: 275 AFSGKDPTKVDRSGAYIVRQ---AAKSIVANGLARRCIVQVSYAIGVPEPLSVFEILKIV 331
+ S + T V V + AAK A G R C+ G + V E +K V
Sbjct: 69 SQSARYKTGVKARKLMEVEEILEAAKKAKAAGATRFCMGAAGRGPG-RDMEEVVEAIKAV 127
Query: 332 KESFDFR----PGMMTIN--LDLKRGGNGRF---LKTAAYGHFGRDDPDFTWE 375
KE GM+T L G R+ L+T+ + T+E
Sbjct: 128 KEELGLEVCASLGMLTEEQAEKLADAGVDRYNHNLETSP-EFYENIITTRTYE 179
>gnl|CDD|198184 cd09930, SH2_cSH2_p85_like, C-terminal Src homology 2 (cSH2) domain
found in p85. Phosphoinositide 3-kinases (PI3Ks) are
essential for cell growth, migration, and survival.
p110, the catalytic subunit, is composed of an
adaptor-binding domain, a Ras-binding domain, a C2
domain, a helical domain, and a kinase domain. The
regulatory unit is called p85 and is composed of an SH3
domain, a RhoGap domain, a N-terminal SH2 (nSH2) domain,
a inter SH2 (iSH2) domain, and C-terminal (cSH2) domain.
There are 2 inhibitory interactions between p110alpha
and p85 of P13K: 1) p85 nSH2 domain with the C2,
helical, and kinase domains of p110alpha and 2) p85 iSH2
domain with C2 domain of p110alpha. There are 3
inhibitory interactions between p110beta and p85 of
P13K: 1) p85 nSH2 domain with the C2, helical, and
kinase domains of p110beta, 2) p85 iSH2 domain with C2
domain of p110alpha, and 3) p85 cSH2 domain with the
kinase domain of p110alpha. It is interesting to note
that p110beta is oncogenic as a wild type protein while
p110alpha lacks this ability. One explanation is the
idea that the regulation of p110beta by p85 is unique
because of the addition of inhibitory contacts from the
cSH2 domain and the loss of contacts in the iSH2 domain.
In general SH2 domains are involved in signal
transduction. They typically bind pTyr-containing
ligands via two surface pockets, a pTyr and hydrophobic
binding pocket, allowing proteins with SH2 domains to
localize to tyrosine phosphorylated sites.
Length = 104
Score = 30.8 bits (70), Expect = 0.36
Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 7/51 (13%)
Query: 286 RSGAYIVR------QAAKSIVANGLARRCIV-QVSYAIGVPEPLSVFEILK 329
G +++R A S+V NG + C++ + G EP +++E LK
Sbjct: 26 PDGTFLIRESSTQGCYACSVVCNGEVKHCVIYKTETGYGFAEPYNLYESLK 76
>gnl|CDD|227021 COG4676, COG4676, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 268
Score = 31.3 bits (71), Expect = 0.62
Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 9/52 (17%)
Query: 172 PDGKTQVTVEYYNDNGAMVPVRVHTVLISTQHDETVTNDEIAADLKEHVIKP 223
DG+++ V++Y N R+ VL + D DL HV+ P
Sbjct: 121 ADGQSRQRVQFYETNAGKTRARLRVVL---------SWDTDNTDLDLHVVTP 163
>gnl|CDD|187554 cd05243, SDR_a5, atypical (a) SDRs, subgroup 5. This subgroup
contains atypical SDRs, some of which are identified as
putative NAD(P)-dependent epimerases, one as a putative
NAD-dependent epimerase/dehydratase. Atypical SDRs are
distinct from classical SDRs. Members of this subgroup
have a glycine-rich NAD(P)-binding motif that is very
similar to the extended SDRs, GXXGXXG, and binds NADP.
Generally, this subgroup has poor conservation of the
active site tetrad; however, individual sequences do
contain matches to the YXXXK active site motif, the
upstream Ser, and there is a highly conserved Asp in
place of the usual active site Asn throughout the
subgroup. 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. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. 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 = 203
Score = 29.1 bits (66), Expect = 2.9
Identities = 25/96 (26%), Positives = 32/96 (33%), Gaps = 21/96 (21%)
Query: 270 AHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLARRCIVQVSYAIGVPEPLSVFEILK 329
A G G G VD G + AAK G+ R V VS +IG +P E L
Sbjct: 70 AAGSGGKGGPRTEAVDYDGNINLIDAAK---KAGVKR--FVLVS-SIGADKPSHPLEALG 123
Query: 330 IV---KESFD------------FRPGMMTINLDLKR 350
K + RPG +T +
Sbjct: 124 PYLDAKRKAEDYLRASGLDYTIVRPGGLTDDPAGTG 159
>gnl|CDD|182361 PRK10294, PRK10294, 6-phosphofructokinase 2; Provisional.
Length = 309
Score = 29.4 bits (66), Expect = 3.0
Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 5/36 (13%)
Query: 275 AFSGKDPTKVDRSGAYIVRQAAKSIVANGLARRCIV 310
A +D T+ D VR+AA+ +V +G A+R +V
Sbjct: 193 ALVNRDLTQPDD-----VRKAAQELVNSGKAKRVVV 223
>gnl|CDD|216266 pfam01051, Rep_3, Initiator Replication protein. This protein is
an initiator of plasmid replication. RepB possesses
nicking-closing (topoisomerase I) like activity. It is
also able to perform a strand transfer reaction on ssDNA
that contains its target. This family also includes RepA
which is an E.coli protein involved in plasmid
replication. The RepA protein binds to DNA repeats that
flank the repA gene.
Length = 218
Score = 29.2 bits (66), Expect = 3.0
Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 6/38 (15%)
Query: 214 ADLKEHVIKPVIPEKYLDEKTIFHLNPS----GRFVIG 247
D K V+KP I E ++EKT +L GR ++G
Sbjct: 178 KDFKRRVLKPAIKE--INEKTDINLEYEKIKKGRKIVG 213
>gnl|CDD|211705 TIGR01963, PHB_DH, 3-hydroxybutyrate dehydrogenase. This model
represents a subfamily of the short chain
dehydrogenases. Characterized members so far as
3-hydroxybutyrate dehydrogenases and are found in
species that accumulate ester polmers called
polyhydroxyalkanoic acids (PHAs) under certain
conditions. Several members of the family are from
species not known to accumulate PHAs, including
Oceanobacillus iheyensis and Bacillus subtilis. However,
polymer formation is not required for there be a role
for 3-hydroxybutyrate dehydrogenase; it may be members
of this family have the same function in those species.
Length = 255
Score = 29.3 bits (66), Expect = 3.2
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 12/57 (21%)
Query: 225 IPEKYLDEKTIFHLNPSGRFV----IGG------PHGDAGLTGRKIIIDTYGGWGAH 271
IPE+ + + + P+ RFV + A +TG+ I++D GGW A
Sbjct: 201 IPEEQVIREVMLKGQPTKRFVTVDEVAETALYLASDAAAQITGQAIVLD--GGWTAQ 255
>gnl|CDD|235298 PRK04439, PRK04439, S-adenosylmethionine synthetase; Provisional.
Length = 399
Score = 29.4 bits (67), Expect = 3.6
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 20 GHPDKLCDQISDAV 33
GHPD +CD I++AV
Sbjct: 28 GHPDTICDGIAEAV 41
>gnl|CDD|216800 pfam01941, AdoMet_Synthase, S-adenosylmethionine synthetase
(AdoMet synthetase). This family consists of several
archaebacterial S-adenosylmethionine synthetase
C(AdoMet synthetase or MAT) (EC 2.5.1.6).
S-Adenosylmethionine (AdoMet) occupies a central role
in the metabolism of all cells. The biological roles of
AdoMet include acting as the primary methyl group
donor, as a precursor to the polyamines, and as a
progenitor of a 5'-deoxyadenosyl radical.
S-Adenosylmethionine synthetase catalyzes the only
known route of AdoMet biosynthesis. The synthetic
process occurs in a unique reaction in which the
complete triphosphate chain is displaced from ATP and a
sulfonium ion formed. MATs from various organisms
contain ~400-amino acid polypeptide chains.
Length = 396
Score = 28.3 bits (64), Expect = 7.7
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 20 GHPDKLCDQISDAV 33
GHPD +CD I++AV
Sbjct: 28 GHPDSICDGIAEAV 41
>gnl|CDD|220710 pfam10351, Apt1, Golgi-body localisation protein domain. This is
the C-terminus of a family of proteins conserved from
plants to humans. The plant members are localised to the
Golgi proteins and appear to regulate membrane
trafficking, as they are required for rapid vesicle
accumulation at the tip of the pollen tube. The
C-terminus probably contains the Golgi localisation
signal and it is well-conserved.
Length = 451
Score = 28.0 bits (63), Expect = 8.3
Identities = 8/23 (34%), Positives = 16/23 (69%)
Query: 203 HDETVTNDEIAADLKEHVIKPVI 225
H++T + ++A LK+ VIK ++
Sbjct: 425 HNKTWSWLDLALALKKDVIKALL 447
>gnl|CDD|181842 PRK09422, PRK09422, ethanol-active
dehydrogenase/acetaldehyde-active reductase;
Provisional.
Length = 338
Score = 28.1 bits (63), Expect = 8.4
Identities = 17/51 (33%), Positives = 23/51 (45%), Gaps = 11/51 (21%)
Query: 300 VANGLARRCIVQVSYAIGVPEPLSVFE----------ILKIVKESFDFRPG 340
V G+A +CIV YA+ VPE L + K +K S +PG
Sbjct: 114 VDGGMAEQCIVTADYAVKVPEGLDPAQASSITCAGVTTYKAIKVS-GIKPG 163
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 0.137 0.414
Gapped
Lambda K H
0.267 0.0741 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,143,895
Number of extensions: 1974212
Number of successful extensions: 1694
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1667
Number of HSP's successfully gapped: 28
Length of query: 387
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 288
Effective length of database: 6,546,556
Effective search space: 1885408128
Effective search space used: 1885408128
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)