RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 016895
(381 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: 1 METFLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTK 60
METFLFTSESVNEGHPDKLCDQISDAVLDACL QDP+SKVACETCTKTNMVMVFGEITTK
Sbjct: 1 METFLFTSESVNEGHPDKLCDQISDAVLDACLAQDPDSKVACETCTKTNMVMVFGEITTK 60
Query: 61 AKVDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGVHGHFTKRPEDIGA 120
AKVDYEKIVRDTCR IGFVSDDVGLDAD CKVLVNIEQQSPDIAQGVHGH TK+PE+IGA
Sbjct: 61 AKVDYEKIVRDTCREIGFVSDDVGLDADKCKVLVNIEQQSPDIAQGVHGHLTKKPEEIGA 120
Query: 121 GDQGHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYNDN 180
GDQGHMFGYATDET E MPL+HVLATKLGARLTEVRKN TC WLRPDGKTQVTVEY N+
Sbjct: 121 GDQGHMFGYATDETPELMPLTHVLATKLGARLTEVRKNGTCPWLRPDGKTQVTVEYKNEG 180
Query: 181 GAMVPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVI 240
GAMVP+RVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVI
Sbjct: 181 GAMVPIRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVI 240
Query: 241 GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLAR 300
GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKS+VA GLAR
Sbjct: 241 GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSVVAAGLAR 300
Query: 301 RCIVQVSYAIGVPEPLSVF------------EILKIVKESFDFRPGMMTINLDLKRGGNG 348
RCIVQVSYAIGVPEPLSVF EILKIVKE+FDFRPGM+ INLDLKRGGNG
Sbjct: 301 RCIVQVSYAIGVPEPLSVFVDTYGTGKIPDKEILKIVKENFDFRPGMIAINLDLKRGGNG 360
Query: 349 RFLKTAAYGHFGRDDPDFTWEVVKPL 374
RF KTAAYGHFGRDDPDFTWEVVKPL
Sbjct: 361 RFQKTAAYGHFGRDDPDFTWEVVKPL 386
>gnl|CDD|240268 PTZ00104, PTZ00104, S-adenosylmethionine synthase; Provisional.
Length = 398
Score = 710 bits (1834), Expect = 0.0
Identities = 273/394 (69%), Positives = 308/394 (78%), Gaps = 20/394 (5%)
Query: 1 METFLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTK 60
+ FLFTSESV+EGHPDKLCDQISDAVLDACL QDP SKVACETC KT MVMVFGEITTK
Sbjct: 8 VGHFLFTSESVSEGHPDKLCDQISDAVLDACLAQDPLSKVACETCAKTGMVMVFGEITTK 67
Query: 61 AKVDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGVHGHFTKRPEDIGA 120
A VDY+K+VRDT + IG+ + GLD C VLV IEQQSPDIAQGVH K+ EDIGA
Sbjct: 68 AVVDYQKVVRDTVKEIGYDDTEKGLDYKTCNVLVAIEQQSPDIAQGVHVG--KKEEDIGA 125
Query: 121 GDQGHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEY-YND 179
GDQG MFGYATDET E MPL+H LATKL RL+E+RKN WLRPD KTQVTVEY Y+
Sbjct: 126 GDQGIMFGYATDETEELMPLTHELATKLAKRLSELRKNGILPWLRPDAKTQVTVEYEYDT 185
Query: 180 NGAMVPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFV 239
G + P RVHT+LISTQHDE V+N+EI DL EHVIKPVIP K LDE+T +HLNPSGRFV
Sbjct: 186 RGGLTPKRVHTILISTQHDEGVSNEEIREDLMEHVIKPVIPAKLLDEETKYHLNPSGRFV 245
Query: 240 IGGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLA 299
IGGPHGDAGLTGRKII+DTYGGWGAHGGGAFSGKDP+KVDRS AY R AKS+VA GL
Sbjct: 246 IGGPHGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDPSKVDRSAAYAARWIAKSLVAAGLC 305
Query: 300 RRCIVQVSYAIGVPEPLSVF--------------EILKIVKESFDFRPGMMTINLDLKRG 345
+RC+VQVSYAIGV EPLS+ ++L+IV+++FD RPG + LDL+R
Sbjct: 306 KRCLVQVSYAIGVAEPLSIHVNTYGTGKKGYDDEDLLEIVQKNFDLRPGDIIKELDLRRP 365
Query: 346 GNGRFLKTAAYGHFGRDDPDFTWEVVKPLKWEKP 379
F KTA+YGHFGR DP+FTWEV K L+ EK
Sbjct: 366 I---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: 4 FLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTKAKV 63
+LFTSESV+EGHPDK+ DQISDA+LDA L QDP ++VACET T +V+V GEITT A V
Sbjct: 3 YLFTSESVSEGHPDKIADQISDAILDAILAQDPNARVACETLVTTGLVVVAGEITTSAYV 62
Query: 64 DYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGVHGHFTKRPEDIGAGDQ 123
D E+IVR+T + IG+ S + G DA+ C VLV+I +QSPDIAQGV ++IGAGDQ
Sbjct: 63 DIEEIVRETIKEIGYTSSEYGFDANTCAVLVSIGEQSPDIAQGVD---RDELDEIGAGDQ 119
Query: 124 GHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYNDNGAM 183
G MFGYA +ET E MPL LA +L RL EVRK+ T +LRPD K+QVTVEY N
Sbjct: 120 GIMFGYACNETPELMPLPITLAHRLVRRLAEVRKSGTLPYLRPDAKSQVTVEYENGK--- 176
Query: 184 VPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVIGGP 243
PVR+ T+++STQHD V+ +++ D+ E VIKPV+P + LDE T F +NP+GRFVIGGP
Sbjct: 177 -PVRIDTIVVSTQHDPDVSQEQLREDVIEEVIKPVLPAELLDEDTKFLINPTGRFVIGGP 235
Query: 244 HGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLARRCI 303
GDAGLTGRKII+DTYGG+ HGGGAFSGKDPTKVDRS AY R AK+IVA GLA RC
Sbjct: 236 QGDAGLTGRKIIVDTYGGYARHGGGAFSGKDPTKVDRSAAYAARYVAKNIVAAGLADRCE 295
Query: 304 VQVSYAIGVPEPLSVF------------EILKIVKESFDFRPGMMTINLDLKRGGNGRFL 351
VQ+SYAIGV EP+S++ +I + V+E FD RP + LDL+R +
Sbjct: 296 VQLSYAIGVAEPVSIYVDTFGTGKVSDEKIEEAVREVFDLRPAGIIKMLDLRR---PIYR 352
Query: 352 KTAAYGHFGRDDPDFTWE 369
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: 1 METFLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTK 60
+ FLFTSESV+EGHPDK+CDQISDA+LDA L+QDP S+VACET T +V++ GEITT
Sbjct: 2 KKYFLFTSESVSEGHPDKICDQISDAILDAILKQDPNSRVACETLVTTGLVVIAGEITTS 61
Query: 61 AKVDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGVHGHFTKRPEDIGA 120
A VD I R T + IG+ D G DA C VLV I +QSPDIAQGV + ++IGA
Sbjct: 62 AYVDIVNIARKTIKEIGYTESDYGFDAKTCAVLVAIGEQSPDIAQGVDEA-DEELDEIGA 120
Query: 121 GDQGHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYNDN 180
GDQG MFGYA +ET E MPL LA +L RL EVRKN WLRPD K+QVTVEY ++
Sbjct: 121 GDQGIMFGYACNETPELMPLPISLAHRLLRRLAEVRKNGELPWLRPDAKSQVTVEYEDNG 180
Query: 181 GAMVPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVI 240
PVR+ T+++STQHD ++ +++ D+ E +IKPV+PE+ LD+KT + +NP+GRFVI
Sbjct: 181 ---KPVRIDTIVVSTQHDPDISQEQLREDVIEEIIKPVLPEELLDDKTKYFINPTGRFVI 237
Query: 241 GGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLAR 300
GGP GDAGLTGRKII+DTYGG+ HGGGAFSGKDPTKVDRS AY R AK+IVA GLA
Sbjct: 238 GGPQGDAGLTGRKIIVDTYGGYARHGGGAFSGKDPTKVDRSAAYAARYVAKNIVAAGLAD 297
Query: 301 RCIVQVSYAIGVPEPLSVF------------EILKIVKESFDFRPGMMTINLDLKRGGNG 348
RC VQ+SYAIGV EP+S+ +I + V++ FD RP + LDL R
Sbjct: 298 RCEVQLSYAIGVAEPVSISVDTFGTGKVSEEKIEEAVRKVFDLRPAGIIKMLDLLR---P 354
Query: 349 RFLKTAAYGHFGRDDPDFTWE 369
+ 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: 5 LFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTKAKVD 64
LFTSESV+EGHPDK+ DQISDAVLDA L+QDP++KVACET KT +V++ GEITT A VD
Sbjct: 1 LFTSESVSEGHPDKIADQISDAVLDAILKQDPKAKVACETFVKTGLVLIGGEITTSAYVD 60
Query: 65 YEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGVHGHFTKRPEDIGAGDQG 124
+++ R+T + IG+ D G DA C VLV I QSPDIAQGV PE+ GAGDQG
Sbjct: 61 IQEVARNTIKDIGYTDSDYGFDAKTCAVLVAIGNQSPDIAQGVDK---ANPEEQGAGDQG 117
Query: 125 HMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYNDNGAMV 184
MFGYAT+ET E MPL LA KL R E+RK+ T WLRPDGK+QVTV+Y ++
Sbjct: 118 IMFGYATNETPELMPLPITLAHKLLKRAAELRKSGTLPWLRPDGKSQVTVQYEDNK---- 173
Query: 185 PVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVIGGPH 244
PVRV T+++STQHD ++ ++ + E +IKPV+P +YLDEKT F +NP+GRFVIGGP
Sbjct: 174 PVRVDTIVLSTQHDPDISQKDLREAIIEEIIKPVLPAEYLDEKTKFFINPTGRFVIGGPM 233
Query: 245 GDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLARRCIV 304
GD GLTGRKII+DTYGGW HGGGAFSGKDP+KVDRS AY R AK+IVA GLA RC V
Sbjct: 234 GDTGLTGRKIIVDTYGGWARHGGGAFSGKDPSKVDRSAAYAARYIAKNIVAAGLADRCEV 293
Query: 305 QVSYAIGVPEPLSVF------------EILKIVKESFDFRPGMMTINLDLKRGGNGRFLK 352
Q+SYAIGV EP+S+ E+L +VKE+FD RPG + LDL + + K
Sbjct: 294 QLSYAIGVAEPVSIMIETFGTSKKSEEELLNVVKENFDLRPGGIIEKLDLLK---PIYRK 350
Query: 353 TAAYGHFGRDDPDFTWEVVKPLK 375
TA YGHFGR+ +F WE L+
Sbjct: 351 TAVYGHFGRE--EFPWEKPDKLE 371
>gnl|CDD|237106 PRK12459, PRK12459, S-adenosylmethionine synthetase; Provisional.
Length = 386
Score = 505 bits (1302), Expect = e-180
Identities = 215/385 (55%), Positives = 265/385 (68%), Gaps = 25/385 (6%)
Query: 1 METFLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTK 60
M TFLFTSESV EGHPDKLCDQISDA+LDACL QDP S+VACE T +V+V GEIT+
Sbjct: 1 MSTFLFTSESVTEGHPDKLCDQISDAILDACLRQDPASRVACEVLVSTGIVIVAGEITSS 60
Query: 61 AKVDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSPDIAQGV--HGHFTKRPEDI 118
AKVD EKIVR+ + IG+ D++G D C VLV++ +QSPDIAQGV + E++
Sbjct: 61 AKVDIEKIVRNVIKEIGY--DELGFDPRTCTVLVSLGEQSPDIAQGVDTAEGRDEELEEL 118
Query: 119 GAGDQGHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVEYYN 178
GAGDQG MFGYA DET E MPL VLA +L RL + RK+ L PDGKTQVTVEY +
Sbjct: 119 GAGDQGTMFGYACDETPELMPLPIVLAHRLAKRLDQARKDGLLPGLLPDGKTQVTVEYED 178
Query: 179 DNGAMVPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRF 238
PVRV T+++S QHDE+V + + D+ E+VIKPV + +LD++T +NP+GRF
Sbjct: 179 G----RPVRVDTIVVSAQHDESVDLETLRRDVIENVIKPVFEDFWLDDETRILINPTGRF 234
Query: 239 VIGGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGL 298
V+GGP D GLTGRKI++DTYGG+ HGGGAFSGKDP+KVDRS AY R AK+IVA GL
Sbjct: 235 VVGGPAADTGLTGRKIMVDTYGGYARHGGGAFSGKDPSKVDRSAAYAARYIAKNIVAAGL 294
Query: 299 ARRCIVQVSYAIGVPEPLSVF------------EILKIVKESFDFRPGMMTINLDLKRGG 346
A+RC VQ+SYAIG P+SV E+ + V+E FD RP + L+L+
Sbjct: 295 AKRCEVQLSYAIGKARPVSVQVNTFGTGTVSDEELTRAVREHFDLRPAGIIEKLNLR--- 351
Query: 347 NGRFLKTAAYGHFGRDDPDFTWEVV 371
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 = 226 bits (578), Expect = 3e-74
Identities = 94/142 (66%), Positives = 108/142 (76%), Gaps = 17/142 (11%)
Query: 240 IGGPHGDAGLTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLA 299
IGGP GDAGLTGRKII+DTYGGWGAHGGGAFSGKDPTKVDRS AY R AKS+VA GLA
Sbjct: 1 IGGPQGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDPTKVDRSAAYAARWVAKSLVAAGLA 60
Query: 300 RRCIVQVSYAIGVPEPLSVF------------EILKIVKESFDFRPGMMTINLDLKRGGN 347
RRC+VQVSYAIGV EPLS+ E+L+IV+++FD RPG++ LDLK+
Sbjct: 61 RRCLVQVSYAIGVAEPLSIMVDTYGTSKKSEEELLEIVRKNFDLRPGVIVKMLDLKK--- 117
Query: 348 GRFLKTAAYGHFGRDDPDFTWE 369
+ +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 (577), Expect = 4e-74
Identities = 72/123 (58%), Positives = 92/123 (74%), Gaps = 4/123 (3%)
Query: 116 EDIGAGDQGHMFGYATDETSEFMPLSHVLATKLGARLTEVRKNSTCSWLRPDGKTQVTVE 175
++IGAGDQG MFGYAT+ET E MPL VLA +L RL E+RKN T +LRPDGK+QVTVE
Sbjct: 1 DEIGAGDQGIMFGYATNETPELMPLPIVLAHRLLRRLAELRKNGTLPYLRPDGKSQVTVE 60
Query: 176 YYNDNGAMVPVRVHTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPS 235
Y + PVRV TV++STQHD V+ +E+ D+ E VIKPV+PE+ LD+ T + +NP+
Sbjct: 61 YEDGK----PVRVDTVVVSTQHDPDVSLEELREDIIEEVIKPVLPEELLDDDTKYLINPT 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 = 195 bits (499), Expect = 1e-62
Identities = 64/100 (64%), Positives = 78/100 (78%)
Query: 2 ETFLFTSESVNEGHPDKLCDQISDAVLDACLEQDPESKVACETCTKTNMVMVFGEITTKA 61
+LFTSESV+EGHPDK+CDQISDA+LDA L QDP S+VACET T +V+V GEITT A
Sbjct: 1 SRYLFTSESVSEGHPDKICDQISDAILDAFLAQDPNSRVACETLVTTGLVVVAGEITTSA 60
Query: 62 KVDYEKIVRDTCRSIGFVSDDVGLDADHCKVLVNIEQQSP 101
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: 149 GARLTEVRKNSTCSWLRPDGKTQVTVEYYNDNGAMVPVRVHTVLISTQHDETVTN 203
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 = 0.037
Identities = 14/61 (22%), Positives = 18/61 (29%), Gaps = 4/61 (6%)
Query: 80 SDDVGLDADHCKVLVNIEQQSPDI----AQGVHGHFTKRPEDIGAGDQGHMFGYATDETS 135
V LDAD ++ P G+ RP + M G TDE
Sbjct: 307 GAHVYLDADGSLDAEGLKATLPAFNEEAIFGLDVDPYDRPIPVFPAQHYTMGGVRTDENG 366
Query: 136 E 136
Sbjct: 367 R 367
>gnl|CDD|223576 COG0502, BioB, Biotin synthase and related enzymes [Coenzyme
metabolism].
Length = 335
Score = 33.8 bits (78), Expect = 0.12
Identities = 28/113 (24%), Positives = 40/113 (35%), Gaps = 14/113 (12%)
Query: 269 AFSGKDPTKVDRSGAYIVRQ---AAKSIVANGLARRCIVQVSYAIGVPEPLSVFEILKIV 325
+ S + T V V + AAK A G R C+ G + V E +K V
Sbjct: 69 SQSARYKTGVKARKLMEVEEILEAAKKAKAAGATRFCMGAAGRGPG-RDMEEVVEAIKAV 127
Query: 326 KESFDFR----PGMMTIN--LDLKRGGNGRF---LKTAAYGHFGRDDPDFTWE 369
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 = 30.5 bits (69), Expect = 0.37
Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 7/51 (13%)
Query: 280 RSGAYIVR------QAAKSIVANGLARRCIV-QVSYAIGVPEPLSVFEILK 323
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 = 0.63
Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 9/52 (17%)
Query: 166 PDGKTQVTVEYYNDNGAMVPVRVHTVLISTQHDETVTNDEIAADLKEHVIKP 217
DG+++ V++Y N R+ VL + D DL HV+ P
Sbjct: 121 ADGQSRQRVQFYETNAGKTRARLRVVL---------SWDTDNTDLDLHVVTP 163
>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 = 2.7
Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 6/38 (15%)
Query: 208 ADLKEHVIKPVIPEKYLDEKTIFHLNPS----GRFVIG 241
D K V+KP I E ++EKT +L GR ++G
Sbjct: 178 KDFKRRVLKPAIKE--INEKTDINLEYEKIKKGRKIVG 213
>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: 264 AHGGGAFSGKDPTKVDRSGAYIVRQAAKSIVANGLARRCIVQVSYAIGVPEPLSVFEILK 323
A G G G VD G + AAK G+ R V VS +IG +P E L
Sbjct: 70 AAGSGGKGGPRTEAVDYDGNINLIDAAK---KAGVKR--FVLVS-SIGADKPSHPLEALG 123
Query: 324 IV---KESFD------------FRPGMMTINLDLKR 344
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: 269 AFSGKDPTKVDRSGAYIVRQAAKSIVANGLARRCIV 304
A +D T+ D VR+AA+ +V +G A+R +V
Sbjct: 193 ALVNRDLTQPDD-----VRKAAQELVNSGKAKRVVV 223
>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 = 3.3
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 12/57 (21%)
Query: 219 IPEKYLDEKTIFHLNPSGRFV----IGG------PHGDAGLTGRKIIIDTYGGWGAH 265
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 = 3.5
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 14 GHPDKLCDQISDAV 27
GHPD +CD I++AV
Sbjct: 28 GHPDTICDGIAEAV 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 = 28.4 bits (64), Expect = 7.4
Identities = 8/23 (34%), Positives = 16/23 (69%)
Query: 197 HDETVTNDEIAADLKEHVIKPVI 219
H++T + ++A LK+ VIK ++
Sbjct: 425 HNKTWSWLDLALALKKDVIKALL 447
>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 = 7.6
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 14 GHPDKLCDQISDAV 27
GHPD +CD I++AV
Sbjct: 28 GHPDSICDGIAEAV 41
>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: 294 VANGLARRCIVQVSYAIGVPEPLSVFE----------ILKIVKESFDFRPG 334
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: 19,823,534
Number of extensions: 1941401
Number of successful extensions: 1676
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1649
Number of HSP's successfully gapped: 28
Length of query: 381
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 282
Effective length of database: 6,546,556
Effective search space: 1846128792
Effective search space used: 1846128792
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)