RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15208
(1027 letters)
>gnl|CDD|214963 smart00996, AdoHcyase, S-adenosyl-L-homocysteine hydrolase.
Length = 426
Score = 838 bits (2167), Expect = 0.0
Identities = 299/464 (64%), Positives = 345/464 (74%), Gaps = 41/464 (8%)
Query: 566 VIADINLSQWGRKEIEIAETEMFSLISIREEFVKSKPLKGARISGSIHMTIQTAVLIETL 625
+ADI+L+ WGRKEIEIAETEM L+++REE+ KPLKGARI+G +HMTIQTAVLIETL
Sbjct: 1 KVADISLADWGRKEIEIAETEMPGLMALREEYGAEKPLKGARIAGCLHMTIQTAVLIETL 60
Query: 626 KCLGAEVRWSSCNIYSTQDHAAAAIASKGIPVFAFKGESISDYWEFNHRIFDWPGNSNTE 685
LGAEVRW+SCNI+STQDHAAAAIA+ G+PVFA+KGE++ +YW + WP
Sbjct: 61 VALGAEVRWASCNIFSTQDHAAAAIAAAGVPVFAWKGETLEEYWWCIEQTLTWPDG---W 117
Query: 686 QANMILDDGGDATFLLHLGAQAENNISILSNPCSEEEVCLFKSIKNKLKIDSKWYSSRLK 745
NMILDDGGDAT L+H K Y LK
Sbjct: 118 GPNMILDDGGDATLLVH-----------------------------------KKYPRMLK 142
Query: 746 QIKGVTEETTTGVYRLRRMFKEGKLSFPAINVNDSVTKSKFDNLYGCRESLIDGIKRATD 805
+I+GV+EETTTGV+RL +M K+GKL FPAINVNDSVTKSKFDNLYGCRESL+DGIKRATD
Sbjct: 143 KIRGVSEETTTGVHRLYQMAKKGKLLFPAINVNDSVTKSKFDNLYGCRESLVDGIKRATD 202
Query: 806 VMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYAKKY 865
VMIAGK+AV+ GYGDVGKG AQ++R A+V + EIDPICALQAAM+GF VVTME
Sbjct: 203 VMIAGKVAVVCGYGDVGKGCAQSLRGQGARVIVTEIDPICALQAAMDGFEVVTMEEVAPQ 262
Query: 866 GDIFVTCTGNYHVITHDHMRDMKDQAIVCNIGHFDNEIEVEKLKKY---KWENIKPQVDH 922
DIFVT TGN VIT +HMR MKD AIVCNIGHFDNEI+V L+ KWENIKPQVDH
Sbjct: 263 ADIFVTTTGNKDVITREHMRAMKDGAIVCNIGHFDNEIDVASLRNNPGLKWENIKPQVDH 322
Query: 923 IIFPDGKKIILLAEGRLVNLGCGTGHPSYVMSSSFANQTLAQIELFNNTSNYPIGIYTLP 982
I FPDGK+IILLAEGRLVNLGC TGHPS+VMS+SF NQ LAQIELF Y G+Y LP
Sbjct: 323 ITFPDGKRIILLAEGRLVNLGCATGHPSFVMSNSFTNQVLAQIELFTKPGKYKNGVYVLP 382
Query: 983 KILDEKVARLQLKKLNVQLSKLTDQQAKYIGVSKNGPYKLDNYR 1026
K LDEKVARL L+KL +L+KLT +QA YIGV GP+K D+YR
Sbjct: 383 KKLDEKVARLHLEKLGAKLTKLTKEQADYIGVPVEGPFKPDHYR 426
>gnl|CDD|235488 PRK05476, PRK05476, S-adenosyl-L-homocysteine hydrolase; Provisional.
Length = 425
Score = 795 bits (2056), Expect = 0.0
Identities = 279/463 (60%), Positives = 325/463 (70%), Gaps = 43/463 (9%)
Query: 561 NSADFVIADINLSQWGRKEIEIAETEMFSLISIREEFVKSKPLKGARISGSIHMTIQTAV 620
D+ +ADI+L+ WGRKEIE AETEM L++IREEF KPLKGARI+G +HMTIQTAV
Sbjct: 4 TGTDYKVADISLADWGRKEIEWAETEMPGLMAIREEFAAEKPLKGARIAGCLHMTIQTAV 63
Query: 621 LIETLKCLGAEVRWSSCNIYSTQDHAAAAIASKGIPVFAFKGESISDYWEFNHRIFDWPG 680
LIETLK LGAEVRW+SCN +STQD AAA+A+ GIPVFA+KGE++ +YWE R D
Sbjct: 64 LIETLKALGAEVRWASCNPFSTQDDVAAALAAAGIPVFAWKGETLEEYWECIERALDG-- 121
Query: 681 NSNTEQANMILDDGGDATFLLHLGAQAENNISILSNPCSEEEVCLFKSIKNKLKIDSKWY 740
NMILDDGGD T L+H
Sbjct: 122 ----HGPNMILDDGGDLTLLVH-----------------------------------TER 142
Query: 741 SSRLKQIKGVTEETTTGVYRLRRMFKEGKLSFPAINVNDSVTKSKFDNLYGCRESLIDGI 800
L IKGVTEETTTGV+RL M K+G L FPAINVNDSVTKSKFDN YG ESL+DGI
Sbjct: 143 PELLANIKGVTEETTTGVHRLYAMAKDGALKFPAINVNDSVTKSKFDNRYGTGESLLDGI 202
Query: 801 KRATDVMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTME 860
KRAT+V+IAGK+ V+ GYGDVGKG AQ +R L A+V + E+DPICALQAAM+GF V+TME
Sbjct: 203 KRATNVLIAGKVVVVAGYGDVGKGCAQRLRGLGARVIVTEVDPICALQAAMDGFRVMTME 262
Query: 861 YAKKYGDIFVTCTGNYHVITHDHMRDMKDQAIVCNIGHFDNEIEVEKLKKY--KWENIKP 918
A + GDIFVT TGN VIT +HM MKD AI+ NIGHFDNEI+V L++ KW IKP
Sbjct: 263 EAAELGDIFVTATGNKDVITAEHMEAMKDGAILANIGHFDNEIDVAALEELAVKWREIKP 322
Query: 919 QVDHIIFPDGKKIILLAEGRLVNLGCGTGHPSYVMSSSFANQTLAQIELFNNTSNYPIGI 978
QVD PDGK+IILLAEGRLVNLG TGHPS VM SFANQ LAQIELF N G+
Sbjct: 323 QVDEYTLPDGKRIILLAEGRLVNLGAATGHPSEVMDMSFANQALAQIELFTNRGKLEPGV 382
Query: 979 YTLPKILDEKVARLQLKKLNVQLSKLTDQQAKYIGVSKNGPYK 1021
Y LPK LDE+VARL+LK L V+L +LT++QA+YIGV GP+K
Sbjct: 383 YVLPKELDEEVARLKLKALGVKLDELTEEQAEYIGVWVEGPFK 425
>gnl|CDD|235374 PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated.
Length = 384
Score = 749 bits (1936), Expect = 0.0
Identities = 245/378 (64%), Positives = 304/378 (80%), Gaps = 3/378 (0%)
Query: 188 ESVSEGHPDKIADQISDAILDEIFLKDLKARVAAETLCNNNLIVLSGEITTDANIDYVNI 247
ESVSEGHPDKIADQISDAILD I +D ARVA ETL L+V++GEITT A +D I
Sbjct: 8 ESVSEGHPDKIADQISDAILDAILAQDPNARVACETLVTTGLVVVAGEITTSAYVDIEEI 67
Query: 248 VRKTIKDIGYNNIDYGIDYKSCAVLLIYNKQSLDIAQGVNEGEGLNFDQGAGDQGLMFGY 307
VR+TIK+IGY + +YG D +CAVL+ +QS DIAQGV+ E + GAGDQG+MFGY
Sbjct: 68 VRETIKEIGYTSSEYGFDANTCAVLVSIGEQSPDIAQGVDRDELD--EIGAGDQGIMFGY 125
Query: 308 ACDETPELMPSAIYYSHLIVKRQSELRKNGNLPWLRPDAKSQVTLRYDNGKPVAIDTIVL 367
AC+ETPELMP I +H +V+R +E+RK+G LP+LRPDAKSQVT+ Y+NGKPV IDTIV+
Sbjct: 126 ACNETPELMPLPITLAHRLVRRLAEVRKSGTLPYLRPDAKSQVTVEYENGKPVRIDTIVV 185
Query: 368 STQHDPEIPYRSIKEAAIEEIIRPIIPKNLL-KNTRYLINPTGRFVIGGPKGDCGLTGRK 426
STQHDP++ ++E IEE+I+P++P LL ++T++LINPTGRFVIGGP+GD GLTGRK
Sbjct: 186 STQHDPDVSQEQLREDVIEEVIKPVLPAELLDEDTKFLINPTGRFVIGGPQGDAGLTGRK 245
Query: 427 IIVDTYGGAAPHGGGAFSGKDPSKIDRSAAYVGRYIAKNIVAANLAKRCQIQISYAIGVA 486
IIVDTYGG A HGGGAFSGKDP+K+DRSAAY RY+AKNIVAA LA RC++Q+SYAIGVA
Sbjct: 246 IIVDTYGGYARHGGGAFSGKDPTKVDRSAAYAARYVAKNIVAAGLADRCEVQLSYAIGVA 305
Query: 487 KPTSIMVTSFGSGKISDEKLTMLVKKHFDLRPKNIIKMLNLLRPIYKKTSVYGHFGRKEP 546
+P SI V +FG+GK+SDEK+ V++ FDLRP IIKML+L RPIY+KT+ YGHFGR++
Sbjct: 306 EPVSIYVDTFGTGKVSDEKIEEAVREVFDLRPAGIIKMLDLRRPIYRKTAAYGHFGREDL 365
Query: 547 EFTWELTDKAEVLKNSAD 564
+F WE TDK E LK +A
Sbjct: 366 DFPWEKTDKVEALKAAAG 383
>gnl|CDD|240258 PTZ00075, PTZ00075, Adenosylhomocysteinase; Provisional.
Length = 476
Score = 729 bits (1884), Expect = 0.0
Identities = 296/476 (62%), Positives = 363/476 (76%), Gaps = 15/476 (3%)
Query: 564 DFVIADINLSQWGRKEIEIAETEMFSLISIREEFVKSKPLKGARISGSIHMTIQTAVLIE 623
D+ + DI+L+++GRKEIE+AE EM L+++REE+ SKPLKGARI+G +HMT+QTAVLIE
Sbjct: 4 DYKVKDISLAEFGRKEIELAENEMPGLMALREEYGPSKPLKGARITGCLHMTVQTAVLIE 63
Query: 624 TLKCLGAEVRWSSCNIYSTQDHAAAAIASKG-IPVFAFKGESISDYWEFNHRIFDWPGNS 682
TLK LGAEVRW SCNI+STQDHAAAAIA G +PVFA+KGE++ +YW + WP
Sbjct: 64 TLKALGAEVRWCSCNIFSTQDHAAAAIAKAGSVPVFAWKGETLEEYWWCTEQALKWP--- 120
Query: 683 NTEQANMILDDGGDATFLLHLGAQAE------NNISILSNPCSEEEVCLFKSIKNKLKID 736
N + N+I+DDGGDAT L+H G +AE + +P +E+E CL +K L +
Sbjct: 121 NGDGPNLIVDDGGDATLLVHEGVKAEKLYEEKGILPDPLDPSNEDEKCLLTVLKKLLTKN 180
Query: 737 SKWYSSRLKQIKGVTEETTTGVYRLRRMFKEGKLSFPAINVNDSVTKSKFDNLYGCRESL 796
+++ +K+I GV+EETTTGV+RL +M K+G+L FPAINVNDSVTKSKFDN+YGCR SL
Sbjct: 181 PDKWTNLVKKIVGVSEETTTGVHRLYKMLKKGELLFPAINVNDSVTKSKFDNIYGCRHSL 240
Query: 797 IDGIKRATDVMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLV 856
IDGI RATDVMIAGK V+ GYGDVGKG AQA+R A+V + EIDPICALQAAMEG+ V
Sbjct: 241 IDGIFRATDVMIAGKTVVVCGYGDVGKGCAQALRGFGARVVVTEIDPICALQAAMEGYQV 300
Query: 857 VTMEYAKKYGDIFVTCTGNYHVITHDHMRDMKDQAIVCNIGHFDNEIEVEKLKKY---KW 913
VT+E + DIFVT TGN +IT +HMR MK+ AIV NIGHFDNEI+V +L+ Y +
Sbjct: 301 VTLEDVVETADIFVTATGNKDIITLEHMRRMKNNAIVGNIGHFDNEIQVAELEAYPGIEI 360
Query: 914 ENIKPQVDHIIFPDGKKIILLAEGRLVNLGCGTGHPSYVMSSSFANQTLAQIELFNNTSN 973
IKPQVD FPDGK IILLAEGRLVNLGC TGHPS+VMS+SF NQ LAQIEL+ N
Sbjct: 361 VEIKPQVDRYTFPDGKGIILLAEGRLVNLGCATGHPSFVMSNSFTNQVLAQIELWENRDT 420
Query: 974 --YPIGIYTLPKILDEKVARLQLKKLNVQLSKLTDQQAKYIGVSKNGPYKLDNYRY 1027
YP G+Y LPK LDEKVARL LKKL +L+KLTD+QA+YIGV +GPYK D+YRY
Sbjct: 421 GKYPNGVYKLPKELDEKVARLHLKKLGAKLTKLTDKQAEYIGVPVDGPYKSDHYRY 476
>gnl|CDD|240619 cd00401, SAHH, S-Adenosylhomocysteine Hydrolase, NAD-binding and
catalytic domains. S-adenosyl-L-homocysteine hydrolase
(SAHH, AdoHycase) catalyzes the hydrolysis of
S-adenosyl-L-homocysteine (AdoHyc) to form adenosine
(Ado) and homocysteine (Hcy). The equilibrium lies far on
the side of AdoHyc synthesis, but in nature the removal
of Ado and Hyc is sufficiently fast, so that the net
reaction is in the direction of hydrolysis. Since AdoHyc
is a potent inhibitor of S-adenosyl-L-methionine
dependent methyltransferases, AdoHycase plays a critical
role in the modulation of the activity of various
methyltransferases. The enzyme forms homotetramers, with
each monomer binding one molecule of NAD+.
Length = 402
Score = 718 bits (1855), Expect = 0.0
Identities = 247/442 (55%), Positives = 296/442 (66%), Gaps = 44/442 (9%)
Query: 575 WGRKEIEIAETEMFSLISIREEFVKSKPLKGARISGSIHMTIQTAVLIETLKCLGAEVRW 634
+GRKEIE AE EM L+++RE + K KPLKGARI+G +HMT QTAVLIETLK LGAEVRW
Sbjct: 2 FGRKEIEWAEQEMPVLMALRERYAKEKPLKGARIAGCLHMTAQTAVLIETLKALGAEVRW 61
Query: 635 SSCNIYSTQDHAAAAIASKGIPVFAFKGESISDYWEFNHRIFDWPGNSNTEQANMILDDG 694
SCN STQD AAA+A GIPVFA+KGE+ +YW + D N+I+DDG
Sbjct: 62 CSCNPLSTQDDVAAALAEAGIPVFAWKGETEEEYWWCIEQALDH-------GPNLIIDDG 114
Query: 695 GDATFLLHLGAQAENNISILSNPCSEEEVCLFKSIKNKLKIDSKWYSSRLKQIKGVTEET 754
GD T LLH LK+I G +EET
Sbjct: 115 GDLTHLLHTKRPDL-----------------------------------LKKIIGGSEET 139
Query: 755 TTGVYRLRRMFKEGKLSFPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVMIAGKIAV 814
TTGV+RLR M KEGKL FPAI VND+VTK KFDN YG +S IDGIKRAT+V+IAGK+ V
Sbjct: 140 TTGVHRLRAMEKEGKLLFPAIAVNDAVTKHKFDNRYGTGQSTIDGIKRATNVLIAGKVVV 199
Query: 815 IIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYAKKYGDIFVTCTG 874
+ GYG VGKG A R L A+V + E+DPICALQAAM+GF V+ ME A K GDIFVT TG
Sbjct: 200 VAGYGWVGKGCAMRARGLGARVIVTEVDPICALQAAMDGFEVMPMEEAAKIGDIFVTATG 259
Query: 875 NYHVITHDHMRDMKDQAIVCNIGHFDNEIEVEKLKKY--KWENIKPQVDHIIFPDGKKII 932
N VI +H MKD AI+CN GHFD EI+V L++ + I+PQVD PDG++II
Sbjct: 260 NKDVIRGEHFEKMKDGAILCNAGHFDVEIDVAALEELAVEKREIRPQVDEYTLPDGRRII 319
Query: 933 LLAEGRLVNLGCGTGHPSYVMSSSFANQTLAQIELFNNTSNYPIGIYTLPKILDEKVARL 992
LLAEGRLVNL C TGHPS+VM SFANQ LAQIEL+ N G+Y LPK LDE+VARL
Sbjct: 320 LLAEGRLVNLACATGHPSFVMDMSFANQALAQIELWKNRDKLEPGVYVLPKELDEEVARL 379
Query: 993 QLKKLNVQLSKLTDQQAKYIGV 1014
+L+ L ++L KLT++QA+Y+G
Sbjct: 380 KLEALGIKLDKLTEEQAEYLGS 401
>gnl|CDD|223270 COG0192, MetK, S-adenosylmethionine synthetase [Coenzyme
metabolism].
Length = 388
Score = 692 bits (1789), Expect = 0.0
Identities = 249/375 (66%), Positives = 300/375 (80%), Gaps = 3/375 (0%)
Query: 188 ESVSEGHPDKIADQISDAILDEIFLKDLKARVAAETLCNNNLIVLSGEITTDANIDYVNI 247
ESVSEGHPDKI DQISDAILD I +D +RVA ETL L+V++GEITT A +D VNI
Sbjct: 10 ESVSEGHPDKICDQISDAILDAILKQDPNSRVACETLVTTGLVVIAGEITTSAYVDIVNI 69
Query: 248 VRKTIKDIGYNNIDYGIDYKSCAVLLIYNKQSLDIAQGVNEGEGLNFDQGAGDQGLMFGY 307
RKTIK+IGY DYG D K+CAVL+ +QS DIAQGV+E + + GAGDQG+MFGY
Sbjct: 70 ARKTIKEIGYTESDYGFDAKTCAVLVAIGEQSPDIAQGVDEADEELDEIGAGDQGIMFGY 129
Query: 308 ACDETPELMPSAIYYSHLIVKRQSELRKNGNLPWLRPDAKSQVTLRYD-NGKPVAIDTIV 366
AC+ETPELMP I +H +++R +E+RKNG LPWLRPDAKSQVT+ Y+ NGKPV IDTIV
Sbjct: 130 ACNETPELMPLPISLAHRLLRRLAEVRKNGELPWLRPDAKSQVTVEYEDNGKPVRIDTIV 189
Query: 367 LSTQHDPEIPYRSIKEAAIEEIIRPIIPKNLLK-NTRYLINPTGRFVIGGPKGDCGLTGR 425
+STQHDP+I ++E IEEII+P++P+ LL T+Y INPTGRFVIGGP+GD GLTGR
Sbjct: 190 VSTQHDPDISQEQLREDVIEEIIKPVLPEELLDDKTKYFINPTGRFVIGGPQGDAGLTGR 249
Query: 426 KIIVDTYGGAAPHGGGAFSGKDPSKIDRSAAYVGRYIAKNIVAANLAKRCQIQISYAIGV 485
KIIVDTYGG A HGGGAFSGKDP+K+DRSAAY RY+AKNIVAA LA RC++Q+SYAIGV
Sbjct: 250 KIIVDTYGGYARHGGGAFSGKDPTKVDRSAAYAARYVAKNIVAAGLADRCEVQLSYAIGV 309
Query: 486 AKPTSIMVTSFGSGKISDEKLTMLVKKHFDLRPKNIIKMLNLLRPIYKKTSVYGHFGRKE 545
A+P SI V +FG+GK+S+EK+ V+K FDLRP IIKML+LLRPIY+KT+ YGHFGR E
Sbjct: 310 AEPVSISVDTFGTGKVSEEKIEEAVRKVFDLRPAGIIKMLDLLRPIYRKTAAYGHFGR-E 368
Query: 546 PEFTWELTDKAEVLK 560
+F WE DK + LK
Sbjct: 369 DDFPWEKLDKVDELK 383
>gnl|CDD|223573 COG0499, SAM1, S-adenosylhomocysteine hydrolase [Coenzyme
metabolism].
Length = 420
Score = 675 bits (1745), Expect = 0.0
Identities = 244/462 (52%), Positives = 306/462 (66%), Gaps = 45/462 (9%)
Query: 561 NSADFVIADINLSQWGRKEIEIAETEMFSLISIREEFVKSKPLKGARISGSIHMTIQTAV 620
D+ + DI+L+ GRKEIE AE EM L++IREEF + KPLKGARI+G +HMT +TAV
Sbjct: 1 PGQDYKVKDISLADEGRKEIEWAEREMPVLMAIREEFAEEKPLKGARIAGCLHMTAKTAV 60
Query: 621 LIETLKCLGAEVRWSSCNIYSTQDHAAAAI-ASKGIPVFAFKGESISDYWEFNHRIFDWP 679
LIETLK GAEVRW+SCN STQD AAA+ A +GIPVFA+KGE++ +Y+E ++ DW
Sbjct: 61 LIETLKAGGAEVRWASCNPLSTQDDVAAALAAKEGIPVFAWKGETLEEYYEAIDQVLDWE 120
Query: 680 GNSNTEQANMILDDGGDATFLLHLGAQAENNISILSNPCSEEEVCLFKSIKNKLKIDSKW 739
N+I+DDGGD T L+HL
Sbjct: 121 -------PNIIIDDGGDLTKLVHLE----------------------------------- 138
Query: 740 YSSRLKQIKGVTEETTTGVYRLRRMFKEGKLSFPAINVNDSVTKSKFDNLYGCRESLIDG 799
L IKG TEETTTGV+RLR M K+G L FPAINVNDSVTKS FDN YG +SL+DG
Sbjct: 139 RPELLDAIKGGTEETTTGVHRLRAMEKDGVLKFPAINVNDSVTKSLFDNRYGTGQSLLDG 198
Query: 800 IKRATDVMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTM 859
I RAT+V++AGK V+ GYG VG+G A +R + A+V + E+DPI AL+AAM+GF V+TM
Sbjct: 199 ILRATNVLLAGKNVVVAGYGWVGRGIAMRLRGMGARVIVTEVDPIRALEAAMDGFRVMTM 258
Query: 860 EYAKKYGDIFVTCTGNYHVITHDHMRDMKDQAIVCNIGHFDNEIEVEKLKK--YKWENIK 917
E A K GDIFVT TGN VI +H MKD AI+ N GHFD EI+V L++ + ++
Sbjct: 259 EEAAKTGDIFVTATGNKDVIRKEHFEKMKDGAILANAGHFDVEIDVAGLEELAVEKREVR 318
Query: 918 PQVDHIIFPDGKKIILLAEGRLVNLGCGTGHPSYVMSSSFANQTLAQIELFNNTSNYPIG 977
PQVD PDGK+IILLAEGRLVNL TGHPS VM SFANQ LAQI L N G
Sbjct: 319 PQVDEYELPDGKRIILLAEGRLVNLAAATGHPSEVMDMSFANQALAQIYLVKNHGKLEPG 378
Query: 978 IYTLPKILDEKVARLQLKKLNVQLSKLTDQQAKYIGVSKNGP 1019
+Y LPK LDE+VARL+L+ + ++L +LT++QA+Y+G + G
Sbjct: 379 VYRLPKELDEEVARLKLEAMGIELDELTEEQAEYLGSWEEGT 420
>gnl|CDD|218507 pfam05221, AdoHcyase, S-adenosyl-L-homocysteine hydrolase.
Length = 430
Score = 674 bits (1742), Expect = 0.0
Identities = 279/468 (59%), Positives = 335/468 (71%), Gaps = 42/468 (8%)
Query: 563 ADFVIADINLSQWGRKEIEIAETEMFSLISIREEFVKSKPLKGARISGSIHMTIQTAVLI 622
AD+ + DI+L+ +GRKEIE+AE EM L+++REE+ S+PLKGARI+G +HMT+QTAVLI
Sbjct: 1 ADYKVKDISLAAFGRKEIELAENEMPGLMALREEYGPSQPLKGARIAGCLHMTVQTAVLI 60
Query: 623 ETLKCLGAEVRWSSCNIYSTQDHAAAAIASKGIPVFAFKGESISDYWEFNHRIFDWPGNS 682
ETL LGAEVRW+SCNI+STQDHAAAAIA+ G+PVFA+KGE++ +YW R +
Sbjct: 61 ETLVALGAEVRWASCNIFSTQDHAAAAIAAAGVPVFAWKGETLEEYWWCIERALTFKDG- 119
Query: 683 NTEQANMILDDGGDATFLLHLGAQAENNISILSNPCSEEEVCLFKSIKNKLKIDSKWYSS 742
+ NMILDDGGDAT L+H K Y
Sbjct: 120 --QGPNMILDDGGDATLLIH-----------------------------------KKYPQ 142
Query: 743 RLKQIKGVTEETTTGVYRLRRMFKEGKLSFPAINVNDSVTKSKFDNLYGCRESLIDGIKR 802
L I+GV+EETTTGV+RL +M K+GKL FPAINVNDSVTKSKFDNLYGCRESL DGIKR
Sbjct: 143 YLAGIRGVSEETTTGVHRLYKMLKKGKLLFPAINVNDSVTKSKFDNLYGCRESLPDGIKR 202
Query: 803 ATDVMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYA 862
ATDVMIAGK+AV+ GYGDVGKG A ++R A+V + EIDPICALQAAMEG+ VVT+E
Sbjct: 203 ATDVMIAGKVAVVCGYGDVGKGCAASLRGQGARVIVTEIDPICALQAAMEGYQVVTLEEV 262
Query: 863 KKYGDIFVTCTGNYHVITHDHMRDMKDQAIVCNIGHFDNEIEVE--KLKKYKWENIKPQV 920
K DIFVT TG +I H +MK AIVCNIGHFD EI+V K NIKPQV
Sbjct: 263 VKDADIFVTTTGCVDIIVGRHFMNMKKDAIVCNIGHFDCEIDVGWLNYNAKKITNIKPQV 322
Query: 921 DHIIFPDGKKIILLAEGRLVNLGCGTGHPSYVMSSSFANQTLAQIELFNN--TSNYPIGI 978
D P+G++IILLAEGRL+NLGC TGHPS+VMS+SF NQ LAQIEL+ T Y +G+
Sbjct: 323 DRYTLPNGRRIILLAEGRLLNLGCATGHPSFVMSNSFTNQVLAQIELWTKRDTGKYEVGV 382
Query: 979 YTLPKILDEKVARLQLKKLNVQLSKLTDQQAKYIGVSKNGPYKLDNYR 1026
Y LPK LDEKVARL L KL V+L+KLTD+QA+YIGV GP+K D+YR
Sbjct: 383 YVLPKHLDEKVARLHLGKLGVKLTKLTDKQAEYIGVPVEGPFKPDHYR 430
>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 = 612 bits (1580), Expect = 0.0
Identities = 241/374 (64%), Positives = 295/374 (78%), Gaps = 5/374 (1%)
Query: 188 ESVSEGHPDKIADQISDAILDEIFLKDLKARVAAETLCNNNLIVLSGEITTDANIDYVNI 247
ESVSEGHPDKIADQISDA+LD I +D KA+VA ET L+++ GEITT A +D +
Sbjct: 5 ESVSEGHPDKIADQISDAVLDAILKQDPKAKVACETFVKTGLVLIGGEITTSAYVDIQEV 64
Query: 248 VRKTIKDIGYNNIDYGIDYKSCAVLLIYNKQSLDIAQGVNEGEGLNFDQGAGDQGLMFGY 307
R TIKDIGY + DYG D K+CAVL+ QS DIAQGV + +QGAGDQG+MFGY
Sbjct: 65 ARNTIKDIGYTDSDYGFDAKTCAVLVAIGNQSPDIAQGV-DKANPE-EQGAGDQGIMFGY 122
Query: 308 ACDETPELMPSAIYYSHLIVKRQSELRKNGNLPWLRPDAKSQVTLRYDNGKPVAIDTIVL 367
A +ETPELMP I +H ++KR +ELRK+G LPWLRPD KSQVT++Y++ KPV +DTIVL
Sbjct: 123 ATNETPELMPLPITLAHKLLKRAAELRKSGTLPWLRPDGKSQVTVQYEDNKPVRVDTIVL 182
Query: 368 STQHDPEIPYRSIKEAAIEEIIRPIIPKNLL-KNTRYLINPTGRFVIGGPKGDCGLTGRK 426
STQHDP+I + ++EA IEEII+P++P L + T++ INPTGRFVIGGP GD GLTGRK
Sbjct: 183 STQHDPDISQKDLREAIIEEIIKPVLPAEYLDEKTKFFINPTGRFVIGGPMGDTGLTGRK 242
Query: 427 IIVDTYGGAAPHGGGAFSGKDPSKIDRSAAYVGRYIAKNIVAANLAKRCQIQISYAIGVA 486
IIVDTYGG A HGGGAFSGKDPSK+DRSAAY RYIAKNIVAA LA RC++Q+SYAIGVA
Sbjct: 243 IIVDTYGGWARHGGGAFSGKDPSKVDRSAAYAARYIAKNIVAAGLADRCEVQLSYAIGVA 302
Query: 487 KPTSIMVTSFGSGKISDEKLTMLVKKHFDLRPKNIIKMLNLLRPIYKKTSVYGHFGRKEP 546
+P SIM+ +FG+ K S+E+L +VK++FDLRP II+ L+LL+PIY+KT+VYGHFGR+
Sbjct: 303 EPVSIMIETFGTSKKSEEELLNVVKENFDLRPGGIIEKLDLLKPIYRKTAVYGHFGRE-- 360
Query: 547 EFTWELTDKAEVLK 560
EF WE DK E LK
Sbjct: 361 EFPWEKPDKLEELK 374
>gnl|CDD|178111 PLN02494, PLN02494, adenosylhomocysteinase.
Length = 477
Score = 612 bits (1580), Expect = 0.0
Identities = 276/479 (57%), Positives = 335/479 (69%), Gaps = 15/479 (3%)
Query: 561 NSADFVIADINLSQWGRKEIEIAETEMFSLISIREEFVKSKPLKGARISGSIHMTIQTAV 620
+ ++ + D++ + +GR EIE+AE EM L++ R EF S+P KGARI+GS+HMTIQTAV
Sbjct: 2 SGREYKVKDMSQADFGRLEIELAEVEMPGLMACRTEFGPSQPFKGARITGSLHMTIQTAV 61
Query: 621 LIETLKCLGAEVRWSSCNIYSTQDHAAAAIASKGIPVFAFKGESISDYWEFNHRIFDWPG 680
LIETL LGAEVRW SCNI+STQDHAAAAIA VFA+KGE++ +YW R DW
Sbjct: 62 LIETLTALGAEVRWCSCNIFSTQDHAAAAIARDSAAVFAWKGETLQEYWWCTERALDWGP 121
Query: 681 NSNTEQANMILDDGGDATFLLHLGAQAENNIS---ILSNPCS---EEEVCLFKSIKNKLK 734
++I+DDGGDAT L+H G +AE L +P S E + IK+ LK
Sbjct: 122 G---GGPDLIVDDGGDATLLIHEGVKAEEEFEKDGTLPDPTSTDNAEFKIVLTIIKDGLK 178
Query: 735 IDSKWYSSRLKQIKGVTEETTTGVYRLRRMFKEGKLSFPAINVNDSVTKSKFDNLYGCRE 794
+D K Y +++ GV+EETTTGV RL +M K G L FPAINVNDSVTKSKFDNLYGCR
Sbjct: 179 VDPKKYHKMKERLVGVSEETTTGVKRLYQMQKNGTLLFPAINVNDSVTKSKFDNLYGCRH 238
Query: 795 SLIDGIKRATDVMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGF 854
SL DG+ RATDVMIAGK+AVI GYGDVGKG A AM+A A+V + EIDPICALQA MEG+
Sbjct: 239 SLPDGLMRATDVMIAGKVAVICGYGDVGKGCAAAMKAAGARVIVTEIDPICALQALMEGY 298
Query: 855 LVVTMEYAKKYGDIFVTCTGNYHVITHDHMRDMKDQAIVCNIGHFDNEIEVEKLKKY--- 911
V+T+E DIFVT TGN +I DHMR MK+ AIVCNIGHFDNEI++ L+ Y
Sbjct: 299 QVLTLEDVVSEADIFVTTTGNKDIIMVDHMRKMKNNAIVCNIGHFDNEIDMLGLETYPGV 358
Query: 912 KWENIKPQVDHIIFPD-GKKIILLAEGRLVNLGCGTGHPSYVMSSSFANQTLAQIELFN- 969
K IKPQ D +FPD G II+LAEGRL+NLGC TGHPS+VMS SF NQ +AQ+EL+N
Sbjct: 359 KRITIKPQTDRWVFPDTGSGIIVLAEGRLMNLGCATGHPSFVMSCSFTNQVIAQLELWNE 418
Query: 970 -NTSNYPIGIYTLPKILDEKVARLQLKKLNVQLSKLTDQQAKYIGVSKNGPYKLDNYRY 1027
+ Y +Y LPK LDEKVA L L KL +L+KL+ QA YI V GPYK +YRY
Sbjct: 419 KKSGKYEKKVYVLPKHLDEKVAALHLGKLGAKLTKLSKDQADYINVPVEGPYKPAHYRY 477
>gnl|CDD|213572 TIGR00936, ahcY, adenosylhomocysteinase. This enzyme hydrolyzes
adenosylhomocysteine as part of a cycle for the
regeneration of the methyl donor S-adenosylmethionine.
Species that lack this enzyme are likely to have
adenosylhomocysteine nucleosidase (EC 3.2.2.9), an enzyme
which also acts as 5'-methyladenosine nucleosidase (see
TIGR01704) [Energy metabolism, Amino acids and amines].
Length = 407
Score = 582 bits (1501), Expect = 0.0
Identities = 222/448 (49%), Positives = 283/448 (63%), Gaps = 45/448 (10%)
Query: 575 WGRKEIEIAETEMFSLISIREEFVKSKPLKGARISGSIHMTIQTAVLIETLKCLGAEVRW 634
GRK+IE AE EM L+ IRE F + KPLKGARI+ +H+T++TAVLIETL GAEV W
Sbjct: 2 EGRKKIEWAEREMPVLMRIRERFSEEKPLKGARIAACLHVTVETAVLIETLVAGGAEVAW 61
Query: 635 SSCNIYSTQDHAAAAIA-SKGIPVFAFKGESISDYWEFNHRIFDWPGNSNTEQANMILDD 693
+SCN STQD AAA+A GIPVFA++GE+ +Y+ ++ D + N+I+DD
Sbjct: 62 TSCNPLSTQDDVAAALAKGAGIPVFAWRGETNEEYYWAIEQVLD-------HEPNIIIDD 114
Query: 694 GGDATFLLHLGAQAENNISILSNPCSEEEVCLFKSIKNKLKIDSKWYSSRLKQIKGVTEE 753
G D FLLH L++I G +EE
Sbjct: 115 GADLIFLLH-----------------------------------TERPELLEKIIGGSEE 139
Query: 754 TTTGVYRLRRMFKEGKLSFPAINVNDSVTKSKFDNLYGCRESLIDGIKRATDVMIAGKIA 813
TTTGV RLR M EG L FPAINVND+ TKS FDN YG +S IDGI RAT+++IAGK
Sbjct: 140 TTTGVIRLRAMEAEGVLKFPAINVNDAYTKSLFDNRYGTGQSTIDGILRATNLLIAGKTV 199
Query: 814 VIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYAKKYGDIFVTCT 873
V+ GYG GKG A R + A+V + E+DPI AL+AAM+GF V+TME A K GDIF+T T
Sbjct: 200 VVAGYGWCGKGIAMRARGMGARVIVTEVDPIRALEAAMDGFRVMTMEEAAKIGDIFITAT 259
Query: 874 GNYHVITHDHMRDMKDQAIVCNIGHFDNEIEVEKLKKYKWE--NIKPQVDHIIFPDGKKI 931
GN VI +H +MKD AIV NIGHFD EI+V+ L++ E N++PQVD I DG++I
Sbjct: 260 GNKDVIRGEHFENMKDGAIVANIGHFDVEIDVKALEELAVEKVNVRPQVDEYILKDGRRI 319
Query: 932 ILLAEGRLVNLGCGTGHPSYVMSSSFANQTLAQIELFNNTSNYPIGIYTLPKILDEKVAR 991
LLAEGRLVNL GHPS VM SFANQ LA L+ N G+Y LPK LDE VAR
Sbjct: 320 YLLAEGRLVNLAAAEGHPSEVMDMSFANQALAAEYLWKNHDKLEPGVYRLPKELDEMVAR 379
Query: 992 LQLKKLNVQLSKLTDQQAKYIGVSKNGP 1019
L+L+ + +++ +LT++Q +Y+G + G
Sbjct: 380 LKLEAMGIEIDELTEEQKEYLGSWEEGT 407
>gnl|CDD|237106 PRK12459, PRK12459, S-adenosylmethionine synthetase; Provisional.
Length = 386
Score = 579 bits (1494), Expect = 0.0
Identities = 218/377 (57%), Positives = 278/377 (73%), Gaps = 8/377 (2%)
Query: 188 ESVSEGHPDKIADQISDAILDEIFLKDLKARVAAETLCNNNLIVLSGEITTDANIDYVNI 247
ESV+EGHPDK+ DQISDAILD +D +RVA E L + +++++GEIT+ A +D I
Sbjct: 9 ESVTEGHPDKLCDQISDAILDACLRQDPASRVACEVLVSTGIVIVAGEITSSAKVDIEKI 68
Query: 248 VRKTIKDIGYNNIDYGIDYKSCAVLLIYNKQSLDIAQGVNEGEGLNFD---QGAGDQGLM 304
VR IK+IGY+ + G D ++C VL+ +QS DIAQGV+ EG + + GAGDQG M
Sbjct: 69 VRNVIKEIGYDEL--GFDPRTCTVLVSLGEQSPDIAQGVDTAEGRDEELEELGAGDQGTM 126
Query: 305 FGYACDETPELMPSAIYYSHLIVKRQSELRKNGNLPWLRPDAKSQVTLRYDNGKPVAIDT 364
FGYACDETPELMP I +H + KR + RK+G LP L PD K+QVT+ Y++G+PV +DT
Sbjct: 127 FGYACDETPELMPLPIVLAHRLAKRLDQARKDGLLPGLLPDGKTQVTVEYEDGRPVRVDT 186
Query: 365 IVLSTQHDPEIPYRSIKEAAIEEIIRPIIPKNLLKN-TRYLINPTGRFVIGGPKGDCGLT 423
IV+S QHD + +++ IE +I+P+ L + TR LINPTGRFV+GGP D GLT
Sbjct: 187 IVVSAQHDESVDLETLRRDVIENVIKPVFEDFWLDDETRILINPTGRFVVGGPAADTGLT 246
Query: 424 GRKIIVDTYGGAAPHGGGAFSGKDPSKIDRSAAYVGRYIAKNIVAANLAKRCQIQISYAI 483
GRKI+VDTYGG A HGGGAFSGKDPSK+DRSAAY RYIAKNIVAA LAKRC++Q+SYAI
Sbjct: 247 GRKIMVDTYGGYARHGGGAFSGKDPSKVDRSAAYAARYIAKNIVAAGLAKRCEVQLSYAI 306
Query: 484 GVAKPTSIMVTSFGSGKISDEKLTMLVKKHFDLRPKNIIKMLNLLRPIYKKTSVYGHFGR 543
G A+P S+ V +FG+G +SDE+LT V++HFDLRP II+ LNL PIY+KT+ YGHFGR
Sbjct: 307 GKARPVSVQVNTFGTGTVSDEELTRAVREHFDLRPAGIIEKLNLRNPIYRKTAAYGHFGR 366
Query: 544 KEPEFTWELTDKAEVLK 560
F WE TDKA +L+
Sbjct: 367 --TLFPWEKTDKAALLR 381
>gnl|CDD|240268 PTZ00104, PTZ00104, S-adenosylmethionine synthase; Provisional.
Length = 398
Score = 550 bits (1419), Expect = 0.0
Identities = 217/372 (58%), Positives = 277/372 (74%), Gaps = 9/372 (2%)
Query: 188 ESVSEGHPDKIADQISDAILDEIFLKDLKARVAAETLCNNNLIVLSGEITTDANIDYVNI 247
ESVSEGHPDK+ DQISDA+LD +D ++VA ET ++++ GEITT A +DY +
Sbjct: 16 ESVSEGHPDKLCDQISDAVLDACLAQDPLSKVACETCAKTGMVMVFGEITTKAVVDYQKV 75
Query: 248 VRKTIKDIGYNNIDYGIDYKSCAVLLIYNKQSLDIAQGVNEGEGLNFDQGAGDQGLMFGY 307
VR T+K+IGY++ + G+DYK+C VL+ +QS DIAQGV+ G+ D GAGDQG+MFGY
Sbjct: 76 VRDTVKEIGYDDTEKGLDYKTCNVLVAIEQQSPDIAQGVHVGKKEE-DIGAGDQGIMFGY 134
Query: 308 ACDETPELMPSAIYYSHLIVKRQSELRKNGNLPWLRPDAKSQVTLRYDNG-----KPVAI 362
A DET ELMP + + KR SELRKNG LPWLRPDAK+QVT+ Y+ P +
Sbjct: 135 ATDETEELMPLTHELATKLAKRLSELRKNGILPWLRPDAKTQVTVEYEYDTRGGLTPKRV 194
Query: 363 DTIVLSTQHDPEIPYRSIKEAAIEEIIRPIIPKNLL-KNTRYLINPTGRFVIGGPKGDCG 421
TI++STQHD + I+E +E +I+P+IP LL + T+Y +NP+GRFVIGGP GD G
Sbjct: 195 HTILISTQHDEGVSNEEIREDLMEHVIKPVIPAKLLDEETKYHLNPSGRFVIGGPHGDAG 254
Query: 422 LTGRKIIVDTYGGAAPHGGGAFSGKDPSKIDRSAAYVGRYIAKNIVAANLAKRCQIQISY 481
LTGRKIIVDTYGG HGGGAFSGKDPSK+DRSAAY R+IAK++VAA L KRC +Q+SY
Sbjct: 255 LTGRKIIVDTYGGWGAHGGGAFSGKDPSKVDRSAAYAARWIAKSLVAAGLCKRCLVQVSY 314
Query: 482 AIGVAKPTSIMVTSFGSGK--ISDEKLTMLVKKHFDLRPKNIIKMLNLLRPIYKKTSVYG 539
AIGVA+P SI V ++G+GK DE L +V+K+FDLRP +IIK L+L RPI++KT+ YG
Sbjct: 315 AIGVAEPLSIHVNTYGTGKKGYDDEDLLEIVQKNFDLRPGDIIKELDLRRPIFQKTASYG 374
Query: 540 HFGRKEPEFTWE 551
HFGR +PEFTWE
Sbjct: 375 HFGRSDPEFTWE 386
>gnl|CDD|177886 PLN02243, PLN02243, S-adenosylmethionine synthase.
Length = 386
Score = 463 bits (1193), Expect = e-155
Identities = 193/377 (51%), Positives = 260/377 (68%), Gaps = 9/377 (2%)
Query: 188 ESVSEGHPDKIADQISDAILDEIFLKDLKARVAAETLCNNNLIVLSGEITTDANIDYVNI 247
ESV+EGHPDK+ DQISDA+LD +D ++VA ET N++++ GEITT A +DY I
Sbjct: 9 ESVNEGHPDKLCDQISDAVLDACLAQDPDSKVACETCTKTNMVMVFGEITTKAKVDYEKI 68
Query: 248 VRKTIKDIGYNNIDYGIDYKSCAVLLIYNKQSLDIAQGVN-EGEGLNFDQGAGDQGLMFG 306
VR T ++IG+ + D G+D C VL+ +QS DIAQGV+ + GAGDQG MFG
Sbjct: 69 VRDTCREIGFVSDDVGLDADKCKVLVNIEQQSPDIAQGVHGHLTKKPEEIGAGDQGHMFG 128
Query: 307 YACDETPELMPSAIYYSHLIVKRQSELRKNGNLPWLRPDAKSQVTLRYDNGK----PVAI 362
YA DETPELMP + + R +E+RKNG PWLRPD K+QVT+ Y N P+ +
Sbjct: 129 YATDETPELMPLTHVLATKLGARLTEVRKNGTCPWLRPDGKTQVTVEYKNEGGAMVPIRV 188
Query: 363 DTIVLSTQHDPEIPYRSIKEAAIEEIIRPIIPKNLL-KNTRYLINPTGRFVIGGPKGDCG 421
T+++STQHD + I E +I+P+IP+ L + T + +NP+GRFVIGGP GD G
Sbjct: 189 HTVLISTQHDETVTNDEIAADLKEHVIKPVIPEKYLDEKTIFHLNPSGRFVIGGPHGDAG 248
Query: 422 LTGRKIIVDTYGGAAPHGGGAFSGKDPSKIDRSAAYVGRYIAKNIVAANLAKRCQIQISY 481
LTGRKII+DTYGG HGGGAFSGKDP+K+DRS AY+ R AK++VAA LA+RC +Q+SY
Sbjct: 249 LTGRKIIIDTYGGWGAHGGGAFSGKDPTKVDRSGAYIVRQAAKSVVAAGLARRCIVQVSY 308
Query: 482 AIGVAKPTSIMVTSFGSGKISDEKLTMLVKKHFDLRPKNIIKMLNLLR---PIYKKTSVY 538
AIGV +P S+ V ++G+GKI D+++ +VK++FD RP I L+L R ++KT+ Y
Sbjct: 309 AIGVPEPLSVFVDTYGTGKIPDKEILKIVKENFDFRPGMIAINLDLKRGGNGRFQKTAAY 368
Query: 539 GHFGRKEPEFTWELTDK 555
GHFGR +P+FTWE+
Sbjct: 369 GHFGRDDPDFTWEVVKP 385
>gnl|CDD|109716 pfam00670, AdoHcyase_NAD, S-adenosyl-L-homocysteine hydrolase, NAD
binding domain.
Length = 162
Score = 297 bits (763), Expect = 5e-95
Identities = 116/162 (71%), Positives = 128/162 (79%), Gaps = 2/162 (1%)
Query: 788 NLYGCRESLIDGIKRATDVMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICAL 847
NLYGCRESLIDGIKRATDVMIAGK+AV+ GYGDVGKG A +++ A+V + EIDPICAL
Sbjct: 1 NLYGCRESLIDGIKRATDVMIAGKVAVVCGYGDVGKGCAASLKGQGARVIVTEIDPICAL 60
Query: 848 QAAMEGFLVVTMEYAKKYGDIFVTCTGNYHVITHDHMRDMKDQAIVCNIGHFDNEIEVEK 907
QAAMEGF VVT+E K DIFVT TGN +IT +HM MK+ AIVCNIGHFDNEI+V
Sbjct: 61 QAAMEGFQVVTLEEVVKKADIFVTTTGNKDIITGEHMAKMKNDAIVCNIGHFDNEIDVAW 120
Query: 908 LKKY--KWENIKPQVDHIIFPDGKKIILLAEGRLVNLGCGTG 947
L KWENIKPQVD PDGK IILLAEGRLVNLGC TG
Sbjct: 121 LNTNGKKWENIKPQVDRYTLPDGKHIILLAEGRLVNLGCATG 162
>gnl|CDD|198065 smart00997, AdoHcyase_NAD, S-adenosyl-L-homocysteine hydrolase, NAD
binding domain.
Length = 162
Score = 296 bits (761), Expect = 1e-94
Identities = 95/162 (58%), Positives = 115/162 (70%), Gaps = 2/162 (1%)
Query: 788 NLYGCRESLIDGIKRATDVMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICAL 847
N YG ESL+DGI RAT+V++AGK V+ GYGDVGKG A +R L A+V + EIDPI AL
Sbjct: 1 NRYGTGESLLDGILRATNVLLAGKNVVVAGYGDVGKGVAARLRGLGARVIVTEIDPIRAL 60
Query: 848 QAAMEGFLVVTMEYAKKYGDIFVTCTGNYHVITHDHMRDMKDQAIVCNIGHFDNEIEVEK 907
+AAM+GF V+ ME A K DIFVT TGN VIT +H R MKD AI+ N GHFD EI+V
Sbjct: 61 EAAMDGFEVMKMEEAAKRADIFVTATGNKDVITREHFRAMKDGAILANAGHFDVEIDVAA 120
Query: 908 LKKY--KWENIKPQVDHIIFPDGKKIILLAEGRLVNLGCGTG 947
L++ + ++PQVD PDGK+I LLAEGRLVNL TG
Sbjct: 121 LEELAVEKREVRPQVDEYTLPDGKRIYLLAEGRLVNLAAATG 162
>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 = 252 bits (646), Expect = 1e-78
Identities = 91/139 (65%), Positives = 117/139 (84%), Gaps = 2/139 (1%)
Query: 413 IGGPKGDCGLTGRKIIVDTYGGAAPHGGGAFSGKDPSKIDRSAAYVGRYIAKNIVAANLA 472
IGGP+GD GLTGRKIIVDTYGG HGGGAFSGKDP+K+DRSAAY R++AK++VAA LA
Sbjct: 1 IGGPQGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDPTKVDRSAAYAARWVAKSLVAAGLA 60
Query: 473 KRCQIQISYAIGVAKPTSIMVTSFGSGKISDEKLTMLVKKHFDLRPKNIIKMLNLLRPIY 532
+RC +Q+SYAIGVA+P SIMV ++G+ K S+E+L +V+K+FDLRP I+KML+L +PIY
Sbjct: 61 RRCLVQVSYAIGVAEPLSIMVDTYGTSKKSEEELLEIVRKNFDLRPGVIVKMLDLKKPIY 120
Query: 533 KKTSVYGHFGRKEPEFTWE 551
++T+ YGHFGR +F WE
Sbjct: 121 QQTAAYGHFGRD--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 = 231 bits (591), Expect = 4e-71
Identities = 71/118 (60%), Positives = 97/118 (82%), Gaps = 1/118 (0%)
Query: 295 DQGAGDQGLMFGYACDETPELMPSAIYYSHLIVKRQSELRKNGNLPWLRPDAKSQVTLRY 354
+ GAGDQG+MFGYA +ETPELMP I +H +++R +ELRKNG LP+LRPD KSQVT+ Y
Sbjct: 2 EIGAGDQGIMFGYATNETPELMPLPIVLAHRLLRRLAELRKNGTLPYLRPDGKSQVTVEY 61
Query: 355 DNGKPVAIDTIVLSTQHDPEIPYRSIKEAAIEEIIRPIIPKNLL-KNTRYLINPTGRF 411
++GKPV +DT+V+STQHDP++ ++E IEE+I+P++P+ LL +T+YLINPTGRF
Sbjct: 62 EDGKPVRVDTVVVSTQHDPDVSLEELREDIIEEVIKPVLPEELLDDDTKYLINPTGRF 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 = 162 bits (412), Expect = 6e-47
Identities = 53/92 (57%), Positives = 67/92 (72%)
Query: 188 ESVSEGHPDKIADQISDAILDEIFLKDLKARVAAETLCNNNLIVLSGEITTDANIDYVNI 247
ESVSEGHPDKI DQISDAILD +D +RVA ETL L+V++GEITT A +D I
Sbjct: 8 ESVSEGHPDKICDQISDAILDAFLAQDPNSRVACETLVTTGLVVVAGEITTSAYVDIEKI 67
Query: 248 VRKTIKDIGYNNIDYGIDYKSCAVLLIYNKQS 279
VR+ IKDIGY++ + G D +CAVL+ ++QS
Sbjct: 68 VREVIKDIGYDSSELGFDADTCAVLVSIHEQS 99
>gnl|CDD|240631 cd12154, FDH_GDH_like, Formate/glycerate dehydrogenases, D-specific
2-hydroxy acid dehydrogenases and related
dehydrogenases. The formate/glycerate dehydrogenase
like family contains a diverse group of enzymes such as
formate dehydrogenase (FDH), glycerate dehydrogenase
(GDH), D-lactate dehydrogenase, L-alanine dehydrogenase,
and S-Adenosylhomocysteine hydrolase, that share a
common 2-domain structure. Despite often low sequence
identity, these proteins typically have a characteristic
arrangement of 2 similar domains of the alpha/beta
Rossmann fold NAD+ binding form. The NAD(P) binding
domain is inserted within the linear sequence of the
mostly N-terminal catalytic domain. Structurally, these
domains are connected by extended alpha helices and
create a cleft in which NAD(P) is bound, primarily to
the C-terminal portion of the 2nd (internal) domain.
While many members of this family are dimeric, alanine
DH is hexameric and phosphoglycerate DH is tetrameric.
2-hydroxyacid dehydrogenases are enzymes that catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate dehydrogenase (FDH) catalyzes the NAD+-dependent
oxidation of formate ion to carbon dioxide with the
concomitant reduction of NAD+ to NADH. FDHs of this
family contain no metal ions or prosthetic groups.
Catalysis occurs though direct transfer of a hydride ion
to NAD+ without the stages of acid-base catalysis
typically found in related dehydrogenases.
Length = 310
Score = 166 bits (422), Expect = 1e-45
Identities = 69/382 (18%), Positives = 111/382 (29%), Gaps = 94/382 (24%)
Query: 608 ISGSIHMTIQTA------VLIETLKCLGAEVRWSSCNIYSTQDHAAAAIASKGIPVFAFK 661
I+G + + ++ TL G EVR + A + + I V K
Sbjct: 1 IAGPKEIKNEEFRVGLSPSVVATLVEAGHEVRVETGAGIGAGFADQAYVQAGAIVVTLAK 60
Query: 662 GESISDYWEFNHRIFDWPGNSNTEQANMILDDGGDATFLLHLGAQAENNISILSNPCSEE 721
+++L T
Sbjct: 61 ALW---------------------SLDVVLKVKEPLTNA--------------------- 78
Query: 722 EVCLFKSIKNKLKIDSKWYSSRLKQIKGVTEETTTGVYRLRRMFKEGKLSFPAINVNDSV 781
E L + + + T +R + AI V
Sbjct: 79 EYALIQ----------------KLGDRLLFTYTIGADHRDLTEAL-ARAGLTAIAVEGVE 121
Query: 782 TKSKFDNLYGCRESLIDGIKRATDV----------MIAGKIAVIIGYGDVGKGSAQAMRA 831
N G E + I R +V +AGK V++G G VGK +AQ +R
Sbjct: 122 LPLLTSNSIGAGELSVQFIARFLEVQQPGRLGGAPDVAGKTVVVVGAGVVGKEAAQMLRG 181
Query: 832 LSAQVWIIEIDPICALQAAMEG-FLVVTMEYAKKYGDIFVTCTG-----NYHVITHDHMR 885
L AQV I +I+ Q G V +E A D+ VT T ++ + +
Sbjct: 182 LGAQVLITDINVEALEQLEELGGKNVEELEEALAEADVIVTTTLLPGKRAGILVPEELVE 241
Query: 886 DMKDQAIVCNIGHFDNEIEVEKLKKYKWENIKPQVDHIIFPDGKKIILLAEGRLVNLGCG 945
MK +++ N+ V+ L E G ++ + + GC
Sbjct: 242 QMKPGSVIVNVAVGAVG-CVQALHTQLLEE------------GHGVVHYGDVNMPGPGCA 288
Query: 946 TGHPSYVMSSSFANQTLAQIEL 967
G P AN A ++L
Sbjct: 289 MGVPWDATLRLAANTLPALVKL 310
>gnl|CDD|225496 COG2945, COG2945, Predicted hydrolase of the alpha/beta superfamily
[General function prediction only].
Length = 210
Score = 158 bits (401), Expect = 5e-44
Identities = 74/203 (36%), Positives = 110/203 (54%), Gaps = 9/203 (4%)
Query: 10 INGSVGILHCAINFPSSIKLLKLKGVVLIAHPHPLFGGTMDNKVVQTLVRVMLSLGYISI 69
ING G L + + LI HPHPLFGGTM+NKVVQTL R ++ G+ ++
Sbjct: 9 INGPAGRLEGRYEPAKT----PAAPIALICHPHPLFGGTMNNKVVQTLARALVKRGFATL 64
Query: 70 RMNFRGVGASSGTYDSGNGETDDMEILLRYIQKKYPYLPII-LAGFSFGTFVQAKL-QKR 127
R NFRGVG S G +D+G GE +D L ++Q ++P LAGFSFG ++ +L +R
Sbjct: 65 RFNFRGVGRSQGEFDNGIGELEDAAAALDWLQARHPDSASCWLAGFSFGAYIAMQLAMRR 124
Query: 128 LDKEISIKILILISVAVKKWLIPEVPKNTIIIHGELDEIIPLKDVFLWANPLDIPVVVIP 187
+ + I IL I+ +L P P ++I G+ D+++ L V W + I V+ IP
Sbjct: 125 PEILVFISILPPINAYDFSFLAP-CPSPGLVIQGDADDVVDLVAVLKWQESIKITVITIP 183
Query: 188 ESVS--EGHPDKIADQISDAILD 208
+ G ++ D I+D + D
Sbjct: 184 GADHFFHGKLIELRDTIADFLED 206
>gnl|CDD|221718 pfam12695, Abhydrolase_5, Alpha/beta hydrolase family. This family
contains a diverse range of alpha/beta hydrolase
enzymes.
Length = 145
Score = 60.1 bits (146), Expect = 2e-10
Identities = 32/138 (23%), Positives = 54/138 (39%), Gaps = 15/138 (10%)
Query: 35 VVLIAHPHPLFGGTMDNKVVQTLVRVMLSLGYISIRMNFRGVGASSGTYDSGNGETDDME 94
+V++ H G D + L R + S GY + +++ G GAS G D E
Sbjct: 1 LVVLLH-----GAGGDPEAYAPLARALASRGYNVVAVDYPGHGASLGA--------PDAE 47
Query: 95 ILLRYIQKKYPYLPIILAGFSFGTFVQAKLQKRLDKEISIKILILISVAVKKWLIPEVPK 154
+L I+L G S G V L R + + +L + ++
Sbjct: 48 AVLA--DAPLDPERIVLVGHSLGGGVALLLAARDPRVKAAVVLAAGDPPDALDDLAKLTV 105
Query: 155 NTIIIHGELDEIIPLKDV 172
+IIHG D ++P ++
Sbjct: 106 PVLIIHGTRDGVVPPEEA 123
>gnl|CDD|221720 pfam12697, Abhydrolase_6, Alpha/beta hydrolase family. This family
contains alpha/beta hydrolase enzymes of diverse
specificity.
Length = 187
Score = 56.3 bits (136), Expect = 6e-09
Identities = 39/195 (20%), Positives = 69/195 (35%), Gaps = 39/195 (20%)
Query: 36 VLIAHPHPLFGGTMDNKVVQTLVRVMLSLGYISIRMNFRGVGASSGTYDSGNGETDDMEI 95
V++ H G + + L L+ GY + + G G S G + DD
Sbjct: 1 VVLLH-----GAGGSAESWRPLAE-ALAAGYRVLAPDLPGHGDSDGPPRTPYSLEDDAAD 54
Query: 96 LLRYIQKKYPYLPIILAGFSFGTFVQAKLQKRLDKEISIKILILISVAVKKW-------- 147
L + P++L G S G V R + + L+LIS ++
Sbjct: 55 LAALL-DALGLGPVVLVGHSLGGAVALAAAARRPERV--AGLVLISPPLRDLEELLAADA 111
Query: 148 ------------------LIPEVPKNTIIIHGELDEIIPLKDVFLWANPL-DIPVVVIPE 188
+ + ++IHGE D ++P + A L +VV+P
Sbjct: 112 AALLALLRAALLDADLREALARLTVPVLVIHGEDDPLVPPEAARRLAEALPGAELVVLPG 171
Query: 189 S---VSEGHPDKIAD 200
+ HP+++A+
Sbjct: 172 AGHLPHLEHPEEVAE 186
>gnl|CDD|240625 cd05300, 2-Hacid_dh_1, Putative D-isomer specific 2-hydroxyacid
dehydrogenase. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomains but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric. Formate dehydrogenase (FDH) catalyzes the
NAD+-dependent oxidation of formate ion to carbon
dioxide with the concomitant reduction of NAD+ to NADH.
FDHs of this family contain no metal ions or prosthetic
groups. Catalysis occurs though direct transfer of the
hydride ion to NAD+ without the stages of acid-base
catalysis typically found in related dehydrogenases.
FDHs are found in all methylotrophic microorganisms in
energy production and in the stress responses of plants.
Length = 313
Score = 47.1 bits (113), Expect = 2e-05
Identities = 21/108 (19%), Positives = 40/108 (37%), Gaps = 32/108 (29%)
Query: 808 IAGKIAVIIGYGDVGKGSAQAMRALSAQVW------------IIEIDPICALQAAMEG-- 853
+AGK +I+G GD+G+ A+ +A +V + E+ L +
Sbjct: 132 LAGKTVLIVGLGDIGREIARRAKAFGMRVIGVRRSGRPAPPVVDEVYTPDELDELLPEAD 191
Query: 854 FLVVTM----EYAKKYGDIFVTCTGNYHVITHDHMRDMKDQAIVCNIG 897
++V + E T + + MK A++ N+G
Sbjct: 192 YVVNALPLTPE----------T----RGLFNAERFAAMKPGAVLINVG 225
>gnl|CDD|217244 pfam02826, 2-Hacid_dh_C, D-isomer specific 2-hydroxyacid
dehydrogenase, NAD binding domain. This domain is
inserted into the catalytic domain, the large
dehydrogenase and D-lactate dehydrogenase families in
SCOP. N-terminal portion of which is represented by
family pfam00389.
Length = 175
Score = 40.9 bits (97), Expect = 0.001
Identities = 23/94 (24%), Positives = 40/94 (42%), Gaps = 6/94 (6%)
Query: 808 IAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYAKKYGD 867
++GK IIG G +G+ A+ ++A +V I D +A G V+++ D
Sbjct: 33 LSGKTVGIIGLGRIGRAVARRLKAFGMKV--IAYDRYPKAEAEALGARYVSLDELLAESD 90
Query: 868 IFVTCT----GNYHVITHDHMRDMKDQAIVCNIG 897
+ H+I + + MK AI+ N
Sbjct: 91 VVSLHLPLTPETRHLINAERLALMKPGAILINTA 124
>gnl|CDD|223506 COG0429, COG0429, Predicted hydrolase of the alpha/beta-hydrolase
fold [General function prediction only].
Length = 345
Score = 40.0 bits (94), Expect = 0.005
Identities = 20/68 (29%), Positives = 36/68 (52%), Gaps = 6/68 (8%)
Query: 54 VQTLVRVMLSLGYISIRMNFRGVGASSGT----YDSGNGETDDMEILLRYIQKKYPYLPI 109
+ L+R + G++ + +FRG + T Y SG ET+D+ L +++ ++P P+
Sbjct: 93 ARGLMRALSRRGWLVVVFHFRGCSGEANTSPRLYHSG--ETEDIRFFLDWLKARFPPRPL 150
Query: 110 ILAGFSFG 117
GFS G
Sbjct: 151 YAVGFSLG 158
>gnl|CDD|225176 COG2267, PldB, Lysophospholipase [Lipid metabolism].
Length = 298
Score = 39.3 bits (92), Expect = 0.007
Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 9/89 (10%)
Query: 33 KGVVLIAHPHPLFGGTMDNKVVQTLVRVMLSLGYISIRMNFRGVGASS----GTYDSGNG 88
KGVV++ H G + L + + G+ ++ RG G S G DS
Sbjct: 34 KGVVVLVHG---LGEHSGRY--EELADDLAARGFDVYALDLRGHGRSPRGQRGHVDSFAD 88
Query: 89 ETDDMEILLRYIQKKYPYLPIILAGFSFG 117
DD++ + I + P LP+ L G S G
Sbjct: 89 YVDDLDAFVETIAEPDPGLPVFLLGHSMG 117
>gnl|CDD|216949 pfam02254, TrkA_N, TrkA-N domain. This domain is found in a wide
variety of proteins. These protein include potassium
channels, phosphoesterases, and various other
transporters. This domain binds to NAD.
Length = 116
Score = 36.0 bits (84), Expect = 0.019
Identities = 17/44 (38%), Positives = 24/44 (54%)
Query: 814 VIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVV 857
+IIGYG VG+ A+ +R V +I+ DP + EG VV
Sbjct: 2 IIIGYGRVGRSLAEELREGGPDVVVIDKDPERVEELREEGVPVV 45
>gnl|CDD|240642 cd12165, 2-Hacid_dh_6, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 314
Score = 37.6 bits (88), Expect = 0.030
Identities = 22/96 (22%), Positives = 41/96 (42%), Gaps = 5/96 (5%)
Query: 806 VMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYAKKY 865
+ GK I+GYG +G+ A+ ++A +V + P + A + ++ A +
Sbjct: 133 KELRGKTVGILGYGHIGREIARLLKAFGMRVIGVSRSPKED-EGADFVGTLSDLDEALEQ 191
Query: 866 GDIFVTCT----GNYHVITHDHMRDMKDQAIVCNIG 897
D+ V +I + MK AI+ N+G
Sbjct: 192 ADVVVVALPLTKQTRGLIGAAELAAMKPGAILVNVG 227
>gnl|CDD|240620 cd01619, LDH_like, D-Lactate and related Dehydrogenases,
NAD-binding and catalytic domains. D-Lactate
dehydrogenase (LDH) catalyzes the interconversion of
pyruvate and lactate, and is a member of the
2-hydroxyacid dehydrogenase family. LDH is homologous to
D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH) and
shares the 2 domain structure of formate dehydrogenase.
D-HicDH is a NAD-dependent member of the
hydroxycarboxylate dehydrogenase family, and shares the
Rossmann fold typical of many NAD binding proteins.
D-HicDH from Lactobacillus casei forms a monomer and
catalyzes the reaction R-CO-COO(-) + NADH + H+ to
R-COH-COO(-) + NAD+. Similar to the structurally
distinct L-HicDH, D-HicDH exhibits low side-chain R
specificity, accepting a wide range of 2-oxocarboxylic
acid side chains. (R)-2-hydroxyglutarate dehydrogenase
(HGDH) catalyzes the NAD-dependent reduction of
2-oxoglutarate to (R)-2-hydroxyglutarate.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain.
Length = 323
Score = 37.3 bits (87), Expect = 0.032
Identities = 22/87 (25%), Positives = 37/87 (42%), Gaps = 6/87 (6%)
Query: 815 IIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYAKKYGDIFVT--- 871
++G G +G+ AQ + +V I DP + +G V++E K DI
Sbjct: 148 VVGTGKIGRAVAQRAKGFGMKV--IAYDPFRNPELEDKGVKYVSLEELFKNSDIISLHVP 205
Query: 872 -CTGNYHVITHDHMRDMKDQAIVCNIG 897
N+H+I + + MK I+ N
Sbjct: 206 LTPENHHMINEEAFKLMKKGVIIINTA 232
>gnl|CDD|240628 cd05303, PGDH_2, Phosphoglycerate dehydrogenase (PGDH) NAD-binding
and catalytic domains. Phosphoglycerate dehydrogenase
(PGDH) catalyzes the initial step in the biosynthesis of
L-serine from D-3-phosphoglycerate. PGDH comes in 3
distinct structural forms, with this first group being
related to 2-hydroxy acid dehydrogenases, sharing
structural similarity to formate and glycerate
dehydrogenases. PGDH in E. coli and Mycobacterium
tuberculosis form tetramers, with subunits containing a
Rossmann-fold NAD binding domain. Formate/glycerate and
related dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-Adenosylhomocysteine Hydrolase.
Despite often low sequence identity, these proteins
typically have a characteristic arrangement of 2 similar
subdomains of the alpha/beta Rossmann fold NAD+ binding
form. The NAD+ binding domain is inserted within the
linear sequence of the mostly N-terminal catalytic
domain, which has a similar domain structure to the
internal NAD binding domain. Structurally, these domains
are connected by extended alpha helices and create a
cleft in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence.
Length = 301
Score = 36.7 bits (86), Expect = 0.050
Identities = 31/99 (31%), Positives = 45/99 (45%), Gaps = 5/99 (5%)
Query: 801 KRATDVMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTME 860
K+ + + GK IIG+G +G+ A+ RAL V + P QA G V++E
Sbjct: 130 KKYKGIELRGKTLGIIGFGRIGREVAKIARALGMNVIAYDPYPKDE-QAVELGVKTVSLE 188
Query: 861 YAKKYGD---IFVTCTG-NYHVITHDHMRDMKDQAIVCN 895
K D + V T H+I + MKD AI+ N
Sbjct: 189 ELLKNSDFISLHVPLTPETKHMINKKELELMKDGAIIIN 227
>gnl|CDD|240648 cd12171, 2-Hacid_dh_10, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 310
Score = 36.4 bits (85), Expect = 0.058
Identities = 23/95 (24%), Positives = 41/95 (43%), Gaps = 9/95 (9%)
Query: 807 MIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPIC-ALQAAMEGFLVVTMEYAKKY 865
+ GK I+G+G +G+ A+ ++A A+V + DP + +G V++E K
Sbjct: 144 ELRGKTVGIVGFGAIGRRVAKRLKAFGAEV--LVYDPYVDPEKIEADGVKKVSLEELLKR 201
Query: 866 GDIFVT-----CTGNYHVITHDHMRDMKDQAIVCN 895
D+ V+ +I + MK A N
Sbjct: 202 SDV-VSLHARLTPETRGMIGAEEFALMKPTAYFIN 235
>gnl|CDD|201306 pfam00561, Abhydrolase_1, alpha/beta hydrolase fold. This
catalytic domain is found in a very wide range of
enzymes.
Length = 226
Score = 36.0 bits (83), Expect = 0.061
Identities = 14/52 (26%), Positives = 20/52 (38%)
Query: 69 IRMNFRGVGASSGTYDSGNGETDDMEILLRYIQKKYPYLPIILAGFSFGTFV 120
I + RG G SS D + DD+ L + + L G S G +
Sbjct: 4 IAFDLRGFGRSSPPKDFADYRFDDLAEDLEALLDALGLDKVNLVGHSMGGLI 55
>gnl|CDD|182883 PRK10985, PRK10985, putative hydrolase; Provisional.
Length = 324
Score = 36.1 bits (84), Expect = 0.087
Identities = 20/60 (33%), Positives = 33/60 (55%), Gaps = 12/60 (20%)
Query: 65 GYISIRMNFRGVGASSG-------TYDSGNGETDDMEILLRYIQKKYPYLPIILAGFSFG 117
G++ + M+FRG SG Y SG ET+D LR++Q+++ ++P G+S G
Sbjct: 87 GWLGVVMHFRGC---SGEPNRLHRIYHSG--ETEDARFFLRWLQREFGHVPTAAVGYSLG 141
>gnl|CDD|223189 COG0111, SerA, Phosphoglycerate dehydrogenase and related
dehydrogenases [Amino acid transport and metabolism].
Length = 324
Score = 35.8 bits (83), Expect = 0.093
Identities = 25/103 (24%), Positives = 40/103 (38%), Gaps = 8/103 (7%)
Query: 801 KRATDVMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAA--MEGFLVVT 858
K +AGK IIG G +G+ A+ ++A +V I DP + A V +
Sbjct: 133 KAFRGTELAGKTVGIIGLGRIGRAVAKRLKAFGMKV--IGYDPYSPRERAGVDGVVGVDS 190
Query: 859 MEYAKKYGDIFVTCT----GNYHVITHDHMRDMKDQAIVCNIG 897
++ DI +I + + MK AI+ N
Sbjct: 191 LDELLAEADILTLHLPLTPETRGLINAEELAKMKPGAILINAA 233
>gnl|CDD|214966 smart01002, AlaDh_PNT_C, Alanine dehydrogenase/PNT, C-terminal
domain. Alanine dehydrogenase catalyzes the
NAD-dependent reversible reductive amination of pyruvate
into alanine.
Length = 149
Score = 34.4 bits (80), Expect = 0.11
Identities = 21/97 (21%), Positives = 43/97 (44%), Gaps = 13/97 (13%)
Query: 813 AVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYAK--------K 864
V+IG G VG G+A + L A+V ++++ P Q T Y++ K
Sbjct: 23 VVVIGAGVVGLGAAATAKGLGAEVTVLDVRPARLRQLESLLGARFTTLYSQAELLEEAVK 82
Query: 865 YGDIFVTC---TGNY--HVITHDHMRDMKDQAIVCNI 896
D+ + G ++T + ++ MK +++ ++
Sbjct: 83 EADLVIGAVLIPGAKAPKLVTREMVKSMKPGSVIVDV 119
>gnl|CDD|240622 cd05198, formate_dh_like, Formate/glycerate and related
dehydrogenases of the D-specific 2-hydroxy acid
dehydrogenase family. Formate dehydrogenase, D-specific
2-hydroxy acid dehydrogenase, Phosphoglycerate
Dehydrogenase, Lactate dehydrogenase, Thermostable
Phosphite Dehydrogenase, and Hydroxy(phenyl)pyruvate
reductase, among others, share a characteristic
arrangement of 2 similar subdomains of the alpha/beta
Rossmann fold NAD+ binding form. 2-hydroxyacid
dehydrogenases are enzymes that catalyze the conversion
of a wide variety of D-2-hydroxy acids to their
corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
The NAD+ binding domain is inserted within the linear
sequence of the mostly N-terminal catalytic domain,
which has a similar domain structure to the internal NAD
binding domain. Structurally, these domains are
connected by extended alpha helices and create a cleft
in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence. Formate dehydrogenase
(FDH) catalyzes the NAD+-dependent oxidation of formate
ion to carbon dioxide with the concomitant reduction of
NAD+ to NADH. FDHs of this family contain no metal ions
or prosthetic groups. Catalysis occurs though direct
transfer of hydride ion to NAD+ without the stages of
acid-base catalysis typically found in related
dehydrogenases. FDHs are found in all methylotrophic
microorganisms in energy production and in the stress
responses of plants. Formate/glycerate and related
dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-Adenosylhomocysteine Hydrolase,
among others. While many members of this family are
dimeric, alanine DH is hexameric and phosphoglycerate DH
is tetrameric.
Length = 302
Score = 35.7 bits (83), Expect = 0.11
Identities = 22/96 (22%), Positives = 40/96 (41%), Gaps = 9/96 (9%)
Query: 808 IAGKIAVIIGYGDVGKGSAQAMRALSAQV--WIIEIDPICALQAAMEGFLVVTMEYAKKY 865
+ GK I+G G +G+ A+ ++A +V + P GF VV+++
Sbjct: 138 LEGKTVGIVGLGRIGQRVAKRLQAFGMKVLYYDRTRKPE---PEEDLGFRVVSLDELLAQ 194
Query: 866 GDIFVTCTG----NYHVITHDHMRDMKDQAIVCNIG 897
D+ V H+I + + MK A++ N
Sbjct: 195 SDVVVLHLPLTPETRHLINEEELALMKPGAVLVNTA 230
>gnl|CDD|223669 COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta
hydrolase superfamily) [General function prediction
only].
Length = 282
Score = 35.4 bits (80), Expect = 0.14
Identities = 30/119 (25%), Positives = 43/119 (36%), Gaps = 10/119 (8%)
Query: 35 VVLIAHPHPLFGGTMDNKVVQTLVRVMLSLGYISIRMNFRGVGASSGTYDSGNGETDDME 94
+VL+ H F G+ V L+ Y I + RG G S S + DD+
Sbjct: 24 LVLL---HG-FPGSSSVWRPVFKVLPALAARYRVIAPDLRGHGRSDPAGYSLSAYADDLA 79
Query: 95 ILLRYIQKKYPYLPIILAGFSFGTFVQAKLQKRLDKEISIKILILISVAVKKWLIPEVP 153
LL ++L G S G V L R ++ L+LI A L+
Sbjct: 80 ALLD----ALGLEKVVLVGHSMGGAVALALALRHPD--RVRGLVLIGPAPPPGLLEAAL 132
Score = 33.8 bits (76), Expect = 0.34
Identities = 20/75 (26%), Positives = 30/75 (40%), Gaps = 7/75 (9%)
Query: 137 LILISVAVKKWLIPEVPKNTIIIHGELDEIIPLKDV--FLWANPLDIPVVVIPES---VS 191
+L VP T+IIHGE D ++P + A P D +VVIP +
Sbjct: 207 ALLDRDLRAALARITVP--TLIIHGEDDPVVPAELARRLAAALPNDARLVVIPGAGHFPH 264
Query: 192 EGHPDKIADQISDAI 206
P+ A + +
Sbjct: 265 LEAPEAFAAALLAFL 279
>gnl|CDD|224423 COG1506, DAP2, Dipeptidyl aminopeptidases/acylaminoacyl-peptidases
[Amino acid transport and metabolism].
Length = 620
Score = 35.6 bits (82), Expect = 0.14
Identities = 40/212 (18%), Positives = 67/212 (31%), Gaps = 55/212 (25%)
Query: 31 KLKGVVLIAHPHPLFGG--TMDNKVVQTLVRVMLSLGYISIRMNFRGVG------ASSGT 82
K LI + H GG ++V+ S GY + N+RG A +
Sbjct: 390 PRKKYPLIVYIH---GGPSAQVGYSFNPEIQVLASAGYAVLAPNYRGSTGYGREFADAIR 446
Query: 83 YDSGNGETDDMEILLRYIQKKYPYLP---IILAGFSFG------TFVQAKLQK------- 126
D G + +D+ + + K P + I + G S+G + K
Sbjct: 447 GDWGGVDLEDLIAAVDALV-KLPLVDPERIGITGGSYGGYMTLLAATKTPRFKAAVAVAG 505
Query: 127 -----RLDKEISIKILILISVAVKKWL--------------IPEVPKNTIIIHGELDEII 167
E + + + ++IHGE D+ +
Sbjct: 506 GVDWLLYFGESTEGLRFDPEENGGGPPEDREKYEDRSPIFYADNIKTPLLLIHGEEDDRV 565
Query: 168 PLKDVFLWANPLD---IPV--VVIPESVSEGH 194
P++ + L PV VV P+ EGH
Sbjct: 566 PIEQAEQLVDALKRKGKPVELVVFPD---EGH 594
>gnl|CDD|215501 PLN02928, PLN02928, oxidoreductase family protein.
Length = 347
Score = 35.0 bits (81), Expect = 0.20
Identities = 24/105 (22%), Positives = 40/105 (38%), Gaps = 18/105 (17%)
Query: 810 GKIAVIIGYGDVGKGSAQAMRALSAQV------WIIEIDPICALQAAMEGFLVV------ 857
GK I+GYG +G A+ +R ++ W E + + LV
Sbjct: 159 GKTVFILGYGAIGIELAKRLRPFGVKLLATRRSWTSEPEDGLLIPNGDVDDLVDEKGGHE 218
Query: 858 -TMEYAKKYGDIFVTC----TGNYHVITHDHMRDMKDQAIVCNIG 897
E+A + DI V C ++ + + MK A++ NI
Sbjct: 219 DIYEFAGE-ADIVVLCCTLTKETAGIVNDEFLSSMKKGALLVNIA 262
>gnl|CDD|240650 cd12173, PGDH_4, Phosphoglycerate dehydrogenases, NAD-binding and
catalytic domains. Phosphoglycerate dehydrogenases
(PGDHs) catalyze the initial step in the biosynthesis of
L-serine from D-3-phosphoglycerate. PGDHs come in 3
distinct structural forms, with this first group being
related to 2-hydroxy acid dehydrogenases, sharing
structural similarity to formate and glycerate
dehydrogenases. PGDH in E. coli and Mycobacterium
tuberculosis form tetramers, with subunits containing a
Rossmann-fold NAD binding domain. Formate/glycerate and
related dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-adenosylhomocysteine hydrolase.
Despite often low sequence identity, these proteins
typically have a characteristic arrangement of 2 similar
subdomains of the alpha/beta Rossmann fold NAD+ binding
form. The NAD+ binding domain is inserted within the
linear sequence of the mostly N-terminal catalytic
domain, which has a similar domain structure to the
internal NAD binding domain. Structurally, these domains
are connected by extended alpha helices and create a
cleft in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence.
Length = 304
Score = 34.7 bits (81), Expect = 0.23
Identities = 26/94 (27%), Positives = 44/94 (46%), Gaps = 9/94 (9%)
Query: 808 IAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDP-ICALQAAMEGFLVVTMEYAKKYG 866
+ GK I+G G +G+ A+ RA +V + DP I A +AA G +V+++
Sbjct: 136 LRGKTLGIVGLGRIGREVARRARAFGMKV--LAYDPYISAERAAAGGVELVSLDELLAEA 193
Query: 867 DIFVTC-----TGNYHVITHDHMRDMKDQAIVCN 895
D F++ +I + + MK AI+ N
Sbjct: 194 D-FISLHTPLTPETRGLINAEELAKMKPGAILIN 226
>gnl|CDD|223980 COG1052, LdhA, Lactate dehydrogenase and related dehydrogenases
[Energy production and conversion / Coenzyme metabolism
/ General function prediction only].
Length = 324
Score = 34.5 bits (80), Expect = 0.26
Identities = 21/93 (22%), Positives = 37/93 (39%), Gaps = 3/93 (3%)
Query: 808 IAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYAKKYGD 867
+ GK IIG G +G+ A+ ++ +V + P + + V E +
Sbjct: 144 LRGKTLGIIGLGRIGQAVARRLKGFGMKVLYYDRSPNPEAEKELGARYVDLDELLAESDI 203
Query: 868 IFVTCTG---NYHVITHDHMRDMKDQAIVCNIG 897
I + C H+I + + MK AI+ N
Sbjct: 204 ISLHCPLTPETRHLINAEELAKMKPGAILVNTA 236
>gnl|CDD|240662 cd12186, LDH, D-Lactate dehydrogenase and D-2-Hydroxyisocaproic
acid dehydrogenase (D-HicDH), NAD-binding and catalytic
domains. D-Lactate dehydrogenase (LDH) catalyzes the
interconversion of pyruvate and lactate, and is a member
of the 2-hydroxyacid dehydrogenases family. LDH is
homologous to D-2-hydroxyisocaproic acid
dehydrogenase(D-HicDH) and shares the 2 domain structure
of formate dehydrogenase. D-HicDH is a NAD-dependent
member of the hydroxycarboxylate dehydrogenase family,
and shares the Rossmann fold typical of many NAD binding
proteins. HicDH from Lactobacillus casei forms a monomer
and catalyzes the reaction R-CO-COO(-) + NADH + H+ to
R-COH-COO(-) + NAD+. D-HicDH, like the structurally
distinct L-HicDH, exhibits low side-chain R specificity,
accepting a wide range of 2-oxocarboxylic acid side
chains. Formate/glycerate and related dehydrogenases of
the D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-Adenosylhomocysteine Hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain.
Length = 329
Score = 34.0 bits (79), Expect = 0.35
Identities = 27/87 (31%), Positives = 39/87 (44%), Gaps = 10/87 (11%)
Query: 815 IIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFL--VVTMEYAKKYGDIFVTC 872
IIG G +G +A+ + A+V I DP +E FL ++E K DI
Sbjct: 150 IIGTGRIGSAAAKIFKGFGAKV--IAYDPY--PNPELEKFLLYYDSLEDLLKQADIISLH 205
Query: 873 T----GNYHVITHDHMRDMKDQAIVCN 895
N+H+I + MKD AI+ N
Sbjct: 206 VPLTKENHHLINAEAFAKMKDGAILVN 232
>gnl|CDD|240634 cd12157, PTDH, Thermostable Phosphite Dehydrogenase. Phosphite
dehydrogenase (PTDH), a member of the D-specific
2-hydroxyacid dehydrogenase family, catalyzes the
NAD-dependent formation of phosphate from phosphite
(hydrogen phosphonate). PTDH has been suggested as a
potential enzyme for cofactor regeneration systems. The
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD-binding
domain.
Length = 318
Score = 33.4 bits (77), Expect = 0.55
Identities = 18/94 (19%), Positives = 36/94 (38%), Gaps = 4/94 (4%)
Query: 808 IAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYAKKYGD 867
+ GK I+G G +G+ A+ + A + + P+ + V ++ + D
Sbjct: 142 LDGKTVGILGMGALGRAIARRLSGFGATLLYYDPHPLDQAEEQALNLRRVELDELLESSD 201
Query: 868 IFVTCT----GNYHVITHDHMRDMKDQAIVCNIG 897
V H+I + + MK A++ N
Sbjct: 202 FLVLALPLTPDTLHLINAEALAKMKPGALLVNPC 235
>gnl|CDD|133448 cd01080, NAD_bind_m-THF_DH_Cyclohyd, NADP binding domain of
methylene-tetrahydrofolate dehydrogenase/cyclohydrolase.
NADP binding domain of the Methylene-Tetrahydrofolate
Dehydrogenase/cyclohydrolase (m-THF DH/cyclohydrolase)
bifunctional enzyme. Tetrahydrofolate is a versatile
carrier of activated one-carbon units. The major
one-carbon folate donors are N-5 methyltetrahydrofolate,
N5,N10-m-THF, and N10-formayltetrahydrofolate. The
oxidation of metabolic intermediate m-THF to m-THF
requires the enzyme m-THF DH. In addition, most DHs also
have an associated cyclohydrolase activity which
catalyzes its hydrolysis to N10-formyltetrahydrofolate.
m-THF DH is typically found as part of a multifunctional
protein in eukaryotes. NADP-dependent m-THF DH in
mammals, birds and yeast are components of a
trifunctional enzyme with DH, cyclohydrolase, and
synthetase activities. Certain eukaryotic cells also
contain homodimeric bifunctional DH/cyclodrolase form.
In bacteria, monofucntional DH, as well as bifunctional
m-THF m-THF DHm-THF DHDH/cyclodrolase are found. In
addition, yeast (S. cerevisiae) also express an
monofunctional DH. This family contains the bifunctional
DH/cyclohydrolase. M-THF DH, like other amino acid
DH-like NAD(P)-binding domains, is a member of the
Rossmann fold superfamily which includes glutamate,
leucine, and phenylalanine DHs, m-THF DH,
methylene-tetrahydromethanopterin DH, m-THF
DH/cyclohydrolase, Shikimate DH-like proteins, malate
oxidoreductases, and glutamyl tRNA reductase. Amino acid
DHs catalyze the deamination of amino acids to keto
acids with NAD(P)+ as a cofactor. The NAD(P)-binding
Rossmann fold superfamily includes a wide variety of
protein families including NAD(P)- binding domains of
alcohol DHs, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate DH, lactate/malate DHs,
formate/glycerate DHs, siroheme synthases,
6-phosphogluconate DH, amino acid DHs, repressor rex,
NAD-binding potassium channel domain, CoA-binding, and
ornithine cyclodeaminase-like domains.
Length = 168
Score = 32.5 bits (75), Expect = 0.63
Identities = 31/144 (21%), Positives = 52/144 (36%), Gaps = 36/144 (25%)
Query: 790 YGCRESLIDGIKRATDVMIAGKIAVIIGYGD-VGKGSAQAMRALSAQVWIIEIDPICALQ 848
G E + + + +AGK V++G + VGK A + +A V +C +
Sbjct: 29 AGILE-----LLKRYGIDLAGKKVVVVGRSNIVGKPLAALLLNRNATV------TVCHSK 77
Query: 849 AAMEGFLVVTMEYAKKYGDIFVTCTGNYHVITHDHMRDM-KDQAIVCNIGHFDNEI-EVE 906
E+ K+ DI + G ++ DM K A+V ++G I V
Sbjct: 78 TKNLK------EHTKQ-ADIVIVAVGKPGLVK----GDMVKPGAVVIDVG-----INRVP 121
Query: 907 KLKKYKW------ENIKPQVDHII 924
K E+ K + I
Sbjct: 122 DKSGGKLVGDVDFESAKEKASAIT 145
>gnl|CDD|133444 cd01075, NAD_bind_Leu_Phe_Val_DH, NAD(P) binding domain of leucine
dehydrogenase, phenylalanine dehydrogenase, and valine
dehydrogenase. Amino acid dehydrogenase (DH) is a
widely distributed family of enzymes that catalyzes the
oxidative deamination of an amino acid to its keto acid
and ammonia with concomitant reduction of NADP+. For
example, leucine DH catalyzes the reversible oxidative
deamination of L-leucine and several other straight or
branched chain amino acids to the corresponding
2-oxoacid derivative. Amino acid DH -like NAD(P)-binding
domains are members of the Rossmann fold superfamily and
include glutamate, leucine, and phenylalanine DHs,
methylene tetrahydrofolate DH,
methylene-tetrahydromethanopterin DH,
methylene-tetrahydropholate DH/cyclohydrolase, Shikimate
DH-like proteins, malate oxidoreductases, and glutamyl
tRNA reductase. Amino acid DHs catalyze the deamination
of amino acids to keto acids with NAD(P)+ as a cofactor.
The NAD(P)-binding Rossmann fold superfamily includes a
wide variety of protein families including NAD(P)-
binding domains of alcohol DHs, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate DH,
lactate/malate DHs, formate/glycerate DHs, siroheme
synthases, 6-phosphogluconate DH, amino acid DHs,
repressor rex, NAD-binding potassium channel domain,
CoA-binding, and ornithine cyclodeaminase-like domains.
These domains have an alpha-beta-alpha configuration.
NAD binding involves numerous hydrogen and van der Waals
contacts.
Length = 200
Score = 32.6 bits (75), Expect = 0.74
Identities = 23/89 (25%), Positives = 39/89 (43%), Gaps = 5/89 (5%)
Query: 808 IAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYAKKYG- 866
+ GK + G G VG A+ + A++ + +I+ A+ A E F + + Y
Sbjct: 26 LEGKTVAVQGLGKVGYKLAEHLLEEGAKLIVADINEE-AVARAAELFGATVVAPEEIYSV 84
Query: 867 --DIFVTCTGNYHVITHDHMRDMKDQAIV 893
D+F C VI D + +K +AI
Sbjct: 85 DADVFAPC-ALGGVINDDTIPQLKAKAIA 112
>gnl|CDD|237953 PRK15378, PRK15378, inositol phosphate phosphatase SopB;
Provisional.
Length = 564
Score = 32.9 bits (75), Expect = 0.90
Identities = 16/97 (16%), Positives = 35/97 (36%), Gaps = 5/97 (5%)
Query: 673 HRIFDWPGNSNTEQANMILDDGGDATFLLHLGAQAENNISILSNPCSEEEVCLFKSIKNK 732
H +++ + T A + G L + Q E P +++E K++K
Sbjct: 74 HNLYNLQRDLLTVAATALKLAGKQDPVLKAMANQMELAKVKADRPATKQEEAAAKALKKN 133
Query: 733 LKIDSKWYSSRLKQIKGVTEETTTGVYRLRRMFKEGK 769
L + ++R +Q G+ + F + +
Sbjct: 134 LI---ELIAARTQQQLGLPAK--EAHRFAALAFSDAQ 165
>gnl|CDD|203257 pfam05491, RuvB_C, Holliday junction DNA helicase ruvB C-terminus.
The RuvB protein makes up part of the RuvABC revolvasome
which catalyzes the resolution of Holliday junctions
that arise during genetic recombination and DNA repair.
Branch migration is catalyzed by the RuvB protein that
is targeted to the Holliday junction by the structure
specific RuvA protein. This family consists of the
C-terminal region of the RuvB protein which is thought
to be helicase DNA-binding domain.
Length = 75
Score = 30.1 bits (69), Expect = 0.91
Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 15/56 (26%)
Query: 356 NGKPVAIDTIVLSTQHDPEIPYRSIKEAAIEEIIRPI-IPKNLLKNTRYLINPTGR 410
G PV +DT+ + + + IE++I P I ++ T P GR
Sbjct: 21 GGGPVGLDTLAAALGEERD---------TIEDVIEPYLIQIGFIQRT-----PRGR 62
>gnl|CDD|223477 COG0400, COG0400, Predicted esterase [General function prediction
only].
Length = 207
Score = 31.9 bits (73), Expect = 1.1
Identities = 21/102 (20%), Positives = 37/102 (36%), Gaps = 19/102 (18%)
Query: 81 GTYDSGNG--ETDDMEILLRYIQKKY--PYLPIILAGFSFGTFVQA----KLQKRLDKEI 132
G++D + ET+ + L + ++Y IIL GFS G + L I
Sbjct: 69 GSFDQEDLDLETEKLAEFLEELAEEYGIDSSRIILIGFSQGANIALSLGLTLPGLFAGAI 128
Query: 133 SIKILILISVAVKKWLIPEVP----KNTIIIHGELDEIIPLK 170
++ +P ++ HG D ++PL
Sbjct: 129 LFSGMLP-------LEPELLPDLAGTPILLSHGTEDPVVPLA 163
>gnl|CDD|224147 COG1226, Kch, Kef-type K+ transport systems, predicted NAD-binding
component [Inorganic ion transport and metabolism].
Length = 212
Score = 32.0 bits (72), Expect = 1.3
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 2/65 (3%)
Query: 793 RESLIDGIKRATDVMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAME 852
E + + A + + +I+G+G VG+ A+A+ A V +I+ D
Sbjct: 6 LELIFALLIFAIVRLK--RHVIIVGFGRVGQIVARALLASGIPVVVIDSDEDRVELLREL 63
Query: 853 GFLVV 857
G LVV
Sbjct: 64 GLLVV 68
>gnl|CDD|223137 COG0059, IlvC, Ketol-acid reductoisomerase [Amino acid transport
and metabolism / Coenzyme metabolism].
Length = 338
Score = 32.2 bits (74), Expect = 1.3
Identities = 21/63 (33%), Positives = 29/63 (46%), Gaps = 1/63 (1%)
Query: 807 MIAGKIAVIIGYGDVGKGSAQAMRALSAQVWI-IEIDPICALQAAMEGFLVVTMEYAKKY 865
++ GK IIGYG G A +R V I + +A +GF V T+E A K
Sbjct: 15 LLKGKKVAIIGYGSQGHAQALNLRDSGLNVIIGLRKGSSSWKKAKEDGFKVYTVEEAAKR 74
Query: 866 GDI 868
D+
Sbjct: 75 ADV 77
>gnl|CDD|133449 cd05191, NAD_bind_amino_acid_DH, NAD(P) binding domain of amino
acid dehydrogenase-like proteins. Amino acid
dehydrogenase(DH)-like NAD(P)-binding domains are
members of the Rossmann fold superfamily and are found
in glutamate, leucine, and phenylalanine DHs (DHs),
methylene tetrahydrofolate DH,
methylene-tetrahydromethanopterin DH,
methylene-tetrahydropholate DH/cyclohydrolase, Shikimate
DH-like proteins, malate oxidoreductases, and glutamyl
tRNA reductase. Amino acid DHs catalyze the deamination
of amino acids to keto acids with NAD(P)+ as a cofactor.
The NAD(P)-binding Rossmann fold superfamily includes a
wide variety of protein families including NAD(P)-
binding domains of alcohol DHs, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate DH,
lactate/malate DHs, formate/glycerate DHs, siroheme
synthases, 6-phosphogluconate DH, amino acid DHs,
repressor rex, NAD-binding potassium channel domain,
CoA-binding, and ornithine cyclodeaminase-like domains.
These domains have an alpha-beta-alpha configuration.
NAD binding involves numerous hydrogen and van der Waals
contacts.
Length = 86
Score = 30.0 bits (68), Expect = 1.3
Identities = 21/99 (21%), Positives = 36/99 (36%), Gaps = 29/99 (29%)
Query: 799 GIKRATDVM---IAGKIAVIIGYGDVGKGSAQAMRAL-SAQVWIIEIDPICALQAAMEGF 854
+K A V + GK V++G G+VGKG A+ + +V + + D
Sbjct: 9 LLKAAGKVTNKSLKGKTVVVLGAGEVGKGIAKLLADEGGKKVVLCDRD------------ 56
Query: 855 LVVTMEYAKKYGDIFVTCTGNYHVITHDHMRDMKDQAIV 893
I VT T + + + + A+V
Sbjct: 57 -------------ILVTATPAGVPVLEEATAKINEGAVV 82
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 31.6 bits (72), Expect = 1.5
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 808 IAGKIAVIIGYGD-VGKGSAQAMRALSAQVWIIEIDPICALQAAME 852
+AG++AVI G G +G +A+ + A A V + +IDP AA E
Sbjct: 5 LAGRVAVITGGGSGIGLATARRLAAEGATVVVGDIDPEAGKAAADE 50
>gnl|CDD|184560 PRK14190, PRK14190, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 284
Score = 31.9 bits (73), Expect = 1.7
Identities = 28/106 (26%), Positives = 45/106 (42%), Gaps = 19/106 (17%)
Query: 804 TDVMIAGKIAVIIGYGD-VGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYA 862
++ I+GK V++G + VGK Q + +A V C + L
Sbjct: 152 YNIDISGKHVVVVGRSNIVGKPVGQLLLNENATV------TYCHSKTKNLAELT------ 199
Query: 863 KKYGDIFVTCTGNYHVITHDHMRDMKDQAIVCNIGHFDNEIEVEKL 908
K DI + G +IT D +K+ A+V ++G N +E KL
Sbjct: 200 -KQADILIVAVGKPKLITADM---VKEGAVVIDVGV--NRLENGKL 239
>gnl|CDD|132245 TIGR03201, dearomat_had, 6-hydroxycyclohex-1-ene-1-carbonyl-CoA
dehydrogenase. Members of this protein family are
6-hydroxycyclohex-1-ene-1-carbonyl-CoA dehydrogenase, an
enzyme in the anaerobic metabolism of aromatic enzymes
by way of benzoyl-CoA, as seen in Thauera aromatica,
Geobacter metallireducens, and Azoarcus sp. The
experimentally characterized form from T. aromatica uses
only NAD+, not NADP+. Note that Rhodopseudomonas
palustris uses a different pathway to perform a similar
degradation of benzoyl-CoA to 3-hydroxpimelyl-CoA.
Length = 349
Score = 31.8 bits (72), Expect = 2.0
Identities = 14/34 (41%), Positives = 20/34 (58%)
Query: 810 GKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDP 843
G + ++IG G VG Q +A+ A V I+IDP
Sbjct: 167 GDLVIVIGAGGVGGYMVQTAKAMGAAVVAIDIDP 200
>gnl|CDD|217816 pfam03959, FSH1, Serine hydrolase (FSH1). This is a family of
serine hydrolases.
Length = 209
Score = 31.1 bits (71), Expect = 2.1
Identities = 23/88 (26%), Positives = 40/88 (45%), Gaps = 14/88 (15%)
Query: 93 MEILLRYIQKKYPYLPIILAGFSFGTFVQA----KLQK--RLDKEISIKILILIS-VAVK 145
++ + YI++ P+ I+ GFS G + A L++ L+ +K ILIS +
Sbjct: 88 LDYVRDYIKENGPFDGIL--GFSQGAALAAILASLLEEGLPLESHPPLKFAILISGFRPR 145
Query: 146 KWLIPEVPKNTII-----IHGELDEIIP 168
+ E I + GELD ++P
Sbjct: 146 EPKYAEYYSPPIQTPSLHVIGELDTVVP 173
>gnl|CDD|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA
replication, recombination, and repair].
Length = 332
Score = 31.0 bits (71), Expect = 2.9
Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 15/59 (25%)
Query: 353 RYDNGKPVAIDTIVLSTQHDPEIPYRSIKEAAIEEIIRP-IIPKNLLKNTRYLINPTGR 410
G PV +DTI + D + IE++I P +I + ++ T P GR
Sbjct: 271 EQFGGGPVGLDTIAAALGEDRD---------TIEDVIEPYLIQQGFIQRT-----PRGR 315
>gnl|CDD|240652 cd12175, 2-Hacid_dh_11, Putative D-isomer specific 2-hydroxyacid
dehydrogenases, NAD-binding and catalytic domains.
2-Hydroxyacid dehydrogenases catalyze the conversion of
a wide variety of D-2-hydroxy acids to their
corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 311
Score = 31.0 bits (71), Expect = 2.9
Identities = 23/99 (23%), Positives = 38/99 (38%), Gaps = 10/99 (10%)
Query: 806 VMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTM---EYA 862
++GK I+G G++G+ A+ +R +V I D A E L V +
Sbjct: 138 RELSGKTVGIVGLGNIGRAVARRLRGFGVEV--IYYDRF-RDPEAEEKDLGVRYVELDEL 194
Query: 863 KKYGDIFVTCT----GNYHVITHDHMRDMKDQAIVCNIG 897
D+ H+I + + MK AI+ N
Sbjct: 195 LAESDVVSLHVPLTPETRHLIGAEELAAMKPGAILINTA 233
>gnl|CDD|240651 cd12174, PGDH_like_3, Putative D-3-Phosphoglycerate Dehydrogenases,
NAD-binding and catalytic domains. Phosphoglycerate
dehydrogenases (PGDHs) catalyze the initial step in the
biosynthesis of L-serine from D-3-phosphoglycerate.
PGDHs come in 3 distinct structural forms, with this
first group being related to 2-hydroxy acid
dehydrogenases, sharing structural similarity to formate
and glycerate dehydrogenases of the D-specific
2-hydroxyacid dehydrogenase superfamily, which also
include groups such as L-alanine dehydrogenase and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. Many, not all, members of this family are
dimeric.
Length = 305
Score = 31.0 bits (71), Expect = 3.0
Identities = 25/99 (25%), Positives = 43/99 (43%), Gaps = 14/99 (14%)
Query: 807 MIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYAKKYG 866
+ GK +IG G++G+ A A AL +V I DP +++AA + L V ++
Sbjct: 132 ELRGKTLGVIGLGNIGRLVANAALALGMKV--IGYDPYLSVEAAWK--LSVEVQRVTSLE 187
Query: 867 DIFVTC----------TGNYHVITHDHMRDMKDQAIVCN 895
++ T +I + + MK AI+ N
Sbjct: 188 ELLATADYITLHVPLTDETRGLINAELLAKMKPGAILLN 226
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 31.4 bits (72), Expect = 3.3
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 809 AGKIAVIIG-YGDVGKGSAQAMRALSAQVWIIEIDPICALQAAME 852
AGK+A++ G G +GK +A+ + A A V + ++D A AA E
Sbjct: 421 AGKVALVTGAAGGIGKATAKRLAAEGACVVLADLDEEAAEAAAAE 465
>gnl|CDD|176187 cd05284, arabinose_DH_like, D-arabinose dehydrogenase. This group
contains arabinose dehydrogenase (AraDH) and related
alcohol dehydrogenases. AraDH is a member of the medium
chain dehydrogenase/reductase family and catalyzes the
NAD(P)-dependent oxidation of D-arabinose and other
pentoses, the initial step in the metabolism of
d-arabinose into 2-oxoglutarate. Like the alcohol
dehydrogenases, AraDH binds a zinc in the catalytic
cleft as well as a distal structural zinc. AraDH forms
homotetramers as a dimer of dimers. AraDH replaces a
conserved catalytic His with replace with Arg, compared
to the canonical ADH site. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and have 2 tightly bound zinc atoms per
subunit, a catalytic zinc at the active site and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine, the ribose of
NAD, a serine, then the alcohol, which allows the
transfer of a hydride to NAD+, creating NADH and a
zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 340
Score = 31.0 bits (71), Expect = 3.4
Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 799 GIKRATDVMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDP 843
+K+A + G V+IG G +G + Q +RAL+ +I +D
Sbjct: 157 AVKKALPYLDPGSTVVVIGVGGLGHIAVQILRALTP-ATVIAVDR 200
>gnl|CDD|240654 cd12177, 2-Hacid_dh_12, Putative D-isomer specific 2-hydroxyacid
dehydrogenases, NAD-binding and catalytic domains.
2-Hydroxyacid dehydrogenases catalyze the conversion of
a wide variety of D-2-hydroxy acids to their
corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 321
Score = 30.8 bits (70), Expect = 4.1
Identities = 25/94 (26%), Positives = 41/94 (43%), Gaps = 8/94 (8%)
Query: 808 IAGKIAVIIGYGDVGKGSAQAMR-ALSAQVWIIEIDP-ICALQAAMEGFLVVTMEYAKKY 865
++GK IIGYG++G A+ ++ +A+V + DP + +G V++E
Sbjct: 145 LSGKTVGIIGYGNIGSRVAEILKEGFNAKV--LAYDPYVSEEVIKKKGAKPVSLEELLAE 202
Query: 866 GDIFVTC----TGNYHVITHDHMRDMKDQAIVCN 895
DI YH+I MK I+ N
Sbjct: 203 SDIISLHAPLTEETYHMINEKAFSKMKKGVILVN 236
>gnl|CDD|240655 cd12178, 2-Hacid_dh_13, Putative D-isomer specific 2-hydroxyacid
dehydrogenases, NAD-binding and catalytic domains.
2-Hydroxyacid dehydrogenases catalyze the conversion of
a wide variety of D-2-hydroxy acids to their
corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 317
Score = 30.7 bits (70), Expect = 4.4
Identities = 22/95 (23%), Positives = 37/95 (38%), Gaps = 6/95 (6%)
Query: 806 VMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYAKKY 865
+AGK IIG G +G+ A+ +A ++ + G V ++ K
Sbjct: 140 HELAGKTLGIIGMGRIGQAVARRAKAFGMKILYYNRHRLSEETEKELGATYVDLDELLKE 199
Query: 866 GDIFVTC-----TGNYHVITHDHMRDMKDQAIVCN 895
D FV+ +H+I + MK A + N
Sbjct: 200 SD-FVSLHAPYTPETHHLIDAAAFKLMKPTAYLIN 233
>gnl|CDD|176198 cd08236, sugar_DH, NAD(P)-dependent sugar dehydrogenases. This
group contains proteins identified as sorbitol
dehydrogenases and other sugar dehydrogenases of the
medium-chain dehydrogenase/reductase family (MDR), which
includes zinc-dependent alcohol dehydrogenase and
related proteins. Sorbitol and aldose reductase are
NAD(+) binding proteins of the polyol pathway, which
interconverts glucose and fructose. Sorbitol
dehydrogenase is tetrameric and has a single catalytic
zinc per subunit. NAD(P)(H)-dependent oxidoreductases
are the major enzymes in the interconversion of alcohols
and aldehydes, or ketones. Related proteins include
threonine dehydrogenase, formaldehyde dehydrogenase, and
butanediol dehydrogenase. The medium chain alcohol
dehydrogenase family (MDR) has a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit. Horse
liver alcohol dehydrogenase is a dimeric enzyme and each
subunit has two domains. The NAD binding domain is in a
Rossmann fold and the catalytic domain contains a zinc
ion to which substrates bind. There is a cleft between
the domains that closes upon formation of the ternary
complex.
Length = 343
Score = 30.7 bits (70), Expect = 4.6
Identities = 12/36 (33%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 809 AGKIAVIIGYGDVGKGSAQAMRALSA-QVWIIEIDP 843
G V+IG G +G + Q ++ L A +V ++ID
Sbjct: 159 LGDTVVVIGAGTIGLLAIQWLKILGAKRVIAVDIDD 194
>gnl|CDD|172660 PRK14172, PRK14172, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 278
Score = 30.1 bits (68), Expect = 4.8
Identities = 30/109 (27%), Positives = 46/109 (42%), Gaps = 28/109 (25%)
Query: 795 SLIDGIKRATDVMIAGKIAVIIGYGD-VGKGSAQAMRALSAQVWII-----EIDPICALQ 848
S+I IK + ++ I GK V+IG + VGK AQ + +A V I + +C
Sbjct: 144 SVITLIK-SLNIDIEGKEVVVIGRSNIVGKPVAQLLLNENATVTICHSKTKNLKEVC--- 199
Query: 849 AAMEGFLVVTMEYAKKYGDIFVTCTGNYHVITHDHMRDMKDQAIVCNIG 897
K DI V G I ++ +K+ AIV ++G
Sbjct: 200 ---------------KKADILVVAIGRPKFIDEEY---VKEGAIVIDVG 230
>gnl|CDD|240653 cd12176, PGDH_3, Phosphoglycerate dehydrogenases, NAD-binding and
catalytic domains. Phosphoglycerate dehydrogenases
(PGDHs) catalyze the initial step in the biosynthesis of
L-serine from D-3-phosphoglycerate. PGDHs come in 3
distinct structural forms, with this first group being
related to 2-hydroxy acid dehydrogenases, sharing
structural similarity to formate and glycerate
dehydrogenases. PGDH in E. coli and Mycobacterium
tuberculosis form tetramers, with subunits containing a
Rossmann-fold NAD binding domain. Formate/glycerate and
related dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-adenosylhomocysteine hydrolase.
Despite often low sequence identity, these proteins
typically have a characteristic arrangement of 2 similar
subdomains of the alpha/beta Rossmann fold NAD+ binding
form. The NAD+ binding domain is inserted within the
linear sequence of the mostly N-terminal catalytic
domain, which has a similar domain structure to the
internal NAD binding domain. Structurally, these domains
are connected by extended alpha helices and create a
cleft in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence.
Length = 304
Score = 30.2 bits (69), Expect = 4.9
Identities = 28/97 (28%), Positives = 39/97 (40%), Gaps = 17/97 (17%)
Query: 808 IAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYAKKYGD 867
+ GK IIGYG +G + AL +V +I L A + V ++E D
Sbjct: 138 VRGKTLGIIGYGHIGSQLSVLAEALGMRVIFYDIAEKLPLGNARQ---VSSLEELLAEAD 194
Query: 868 IFVTCTGNYHV---------ITHDHMRDMKDQAIVCN 895
FVT HV I + + MK AI+ N
Sbjct: 195 -FVT----LHVPATPSTKNMIGAEEIAQMKKGAILIN 226
>gnl|CDD|106361 PRK13403, PRK13403, ketol-acid reductoisomerase; Provisional.
Length = 335
Score = 30.5 bits (68), Expect = 5.4
Identities = 19/69 (27%), Positives = 35/69 (50%), Gaps = 2/69 (2%)
Query: 801 KRATDVMIAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAA-MEGFLVVTM 859
K A ++ GK +IGYG G AQ +R +V ++ + P + + A +GF V+++
Sbjct: 7 KDANVELLQGKTVAVIGYGSQGHAQAQNLRDSGVEV-VVGVRPGKSFEVAKADGFEVMSV 65
Query: 860 EYAKKYGDI 868
A + +
Sbjct: 66 SEAVRTAQV 74
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 29.9 bits (68), Expect = 5.8
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 808 IAGKIAVIIGYG-DVGKGSAQAMRALSAQVWIIEIDPICALQAAME 852
+ GK+ I G +G +A+A+ AL A+V I ++D A + A E
Sbjct: 3 LRGKVVAITGGARGIGLATARALAALGARVAIGDLDEALAKETAAE 48
>gnl|CDD|240660 cd12184, HGDH_like, (R)-2-Hydroxyglutarate Dehydrogenase and
related dehydrogenases, NAD-binding and catalytic
domains. (R)-2-hydroxyglutarate dehydrogenase (HGDH)
catalyzes the NAD-dependent reduction of 2-oxoglutarate
to (R)-2-hydroxyglutarate. HGDH is a member of the
D-2-hydroxyacid NAD(+)-dependent dehydrogenase family;
these proteins typically have a characteristic
arrangement of 2 similar subdomains of the alpha/beta
Rossmann fold NAD+ binding form. The NAD+ binding domain
is inserted within the linear sequence of the mostly
N-terminal catalytic domain, which has a similar domain
structure to the internal NAD binding domain.
Structurally, these domains are connected by extended
alpha helices and create a cleft in which NAD is bound,
primarily to the C-terminal portion of the 2nd
(internal) domain.
Length = 330
Score = 30.0 bits (68), Expect = 6.0
Identities = 24/87 (27%), Positives = 41/87 (47%), Gaps = 10/87 (11%)
Query: 815 IIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYAKKYGDIFVTC-- 872
IIG G +G +A+ + L A+V +I P A + + V+++ K DI ++
Sbjct: 150 IIGTGRIGLTAAKLFKGLGAKVIGYDIYPSDAAKDVVT---FVSLDELLKKSDI-ISLHV 205
Query: 873 ----TGNYHVITHDHMRDMKDQAIVCN 895
N +I + + MKD AI+ N
Sbjct: 206 PYIKGKNDKLINKEFISKMKDGAILIN 232
>gnl|CDD|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed.
Length = 328
Score = 30.1 bits (69), Expect = 6.6
Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 15/58 (25%)
Query: 356 NGKPVAIDTIVLSTQHDPEIPYRSIKEAAIEEIIRPI-IPKNLLKNTRYLINPTGRFV 412
G PV +DT+ + + + IE++ P I + ++ T P GR
Sbjct: 273 GGGPVGLDTLAAALGEERD---------TIEDVYEPYLIQQGFIQRT-----PRGRVA 316
>gnl|CDD|223215 COG0137, ArgG, Argininosuccinate synthase [Amino acid transport and
metabolism].
Length = 403
Score = 30.2 bits (69), Expect = 6.8
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 340 PWLRPDAKSQVTLRYDNGKPVAID 363
P PD +V + ++ G PVA++
Sbjct: 210 PEDAPDEPEEVEIGFEKGVPVALN 233
>gnl|CDD|176222 cd08261, Zn_ADH7, Alcohol dehydrogenases of the MDR family. This
group contains members identified as related to
zinc-dependent alcohol dehydrogenase and other members
of the MDR family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group includes
various activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has a
catalytic role, while structural zinc aids in stability.
ADH-like proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and generally have 2 tightly bound zinc atoms per
subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 337
Score = 29.8 bits (68), Expect = 6.9
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 809 AGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDP 843
AG +++G G +G G Q +A A+V +++ID
Sbjct: 159 AGDTVLVVGAGPIGLGVIQVAKARGARVIVVDIDD 193
>gnl|CDD|235787 PRK06370, PRK06370, mercuric reductase; Validated.
Length = 463
Score = 30.2 bits (69), Expect = 7.0
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 814 VIIGYGDVGKGSAQAMRALSAQVWIIEIDP 843
VIIG G +G AQ R ++V +IE P
Sbjct: 175 VIIGGGYIGLEFAQMFRRFGSEVTVIERGP 204
>gnl|CDD|226455 COG3946, VirJ, Type IV secretory pathway, VirJ component
[Intracellular trafficking and secretion].
Length = 456
Score = 30.1 bits (68), Expect = 7.5
Identities = 12/55 (21%), Positives = 27/55 (49%), Gaps = 2/55 (3%)
Query: 91 DDMEILLRYIQKKYPYLPIILAGFSFGTFVQAKLQKRLDKEI--SIKILILISVA 143
D+ L+R+ +++ ++L G+SFG V RL ++++ L+ +
Sbjct: 310 ADLSRLIRFYARRWGAKRVLLIGYSFGADVLPFAYNRLPPATRQRVRMVSLLGLG 364
>gnl|CDD|143601 cd07577, Ph0642_like, Pyrococcus horikoshii Ph0642 and related
proteins, members of the nitrilase superfamily (putative
class 13 nitrilases). Uncharacterized subgroup of the
nitrilase superfamily. This superfamily is comprised of
nitrile- or amide-hydrolyzing enzymes and
amide-condensing enzymes, which depend on a Glu-Lys-Cys
catalytic triad. Pyrococcus horikoshii Ph0642 is a
hypothetical protein belonging to this subgroup. This
superfamily has been classified in the literature based
on global and structure based sequence analysis into
thirteen different enzyme classes (referred to as 1-13).
This subgroup was classified as belonging to class 13,
which represents proteins that at the time were
difficult to place in a distinct similarity group.
Members of this superfamily generally form homomeric
complexes, the basic building block of which is a
homodimer.
Length = 259
Score = 29.6 bits (67), Expect = 8.1
Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 4/42 (9%)
Query: 4 NTKF--FNING-SVGILHC-AINFPSSIKLLKLKGVVLIAHP 41
+T F F+I +G++ C FP + + L LKG +IAHP
Sbjct: 123 DTGFRVFDIGDIRIGVMICFDWYFPEAARTLALKGADIIAHP 164
>gnl|CDD|222711 pfam14366, DUF4410, Domain of unknown function (DUF4410). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are typically between 187 and 238 amino
acids in length.
Length = 119
Score = 28.5 bits (64), Expect = 8.2
Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 3/50 (6%)
Query: 197 KIADQISDAILDEIFLKDLKARVAAETLCNNNLIVLSGEITTDANIDYVN 246
+ ++DA++ E+ K L A + N +++ G+ T ID N
Sbjct: 29 SAPELLADALVKELKSKGLFAVRSDPPPLPKNALIVEGDFT---KIDEGN 75
>gnl|CDD|217454 pfam03252, Herpes_UL21, Herpesvirus UL21. The UL21 protein appears
to be a dispensable component in herpesviruses.
Length = 515
Score = 30.0 bits (68), Expect = 8.2
Identities = 14/63 (22%), Positives = 24/63 (38%), Gaps = 3/63 (4%)
Query: 786 FDNLYGCRESLIDGIKRATDVMI-AGKIAVIIGYGDVGKGSAQAMR--ALSAQVWIIEID 842
FD + R L R TDV++ + A + G K + + +S V + I
Sbjct: 193 FDGIPVPRPPLSGERTRRTDVIVTGKRAARTVAVGSGRKARRRGKKKTTVSDFVQVKYIP 252
Query: 843 PIC 845
+
Sbjct: 253 RVI 255
>gnl|CDD|143587 cd07197, nitrilase, Nitrilase superfamily, including nitrile- or
amide-hydrolyzing enzymes and amide-condensing enzymes.
This superfamily (also known as the C-N hydrolase
superfamily) contains hydrolases that break
carbon-nitrogen bonds; it includes nitrilases, cyanide
dihydratases, aliphatic amidases, N-terminal amidases,
beta-ureidopropionases, biotinidases, pantotheinase,
N-carbamyl-D-amino acid amidohydrolases, the glutaminase
domain of glutamine-dependent NAD+ synthetase,
apolipoprotein N-acyltransferases, and
N-carbamoylputrescine amidohydrolases, among others.
These enzymes depend on a Glu-Lys-Cys catalytic triad,
and work through a thiol acylenzyme intermediate.
Members of this superfamily generally form homomeric
complexes, the basic building block of which is a
homodimer. These oligomers include dimers, tetramers,
hexamers, octamers, tetradecamers, octadecamers, as well
as variable length helical arrangements and
homo-oligomeric spirals. These proteins have roles in
vitamin and co-enzyme metabolism, in detoxifying small
molecules, in the synthesis of signaling molecules, and
in the post-translational modification of proteins. They
are used industrially, as biocatalysts in the fine
chemical and pharmaceutical industry, in cyanide
remediation, and in the treatment of toxic effluent.
This superfamily has been classified previously in the
literature, based on global and structure-based sequence
analysis, into thirteen different enzyme classes
(referred to as 1-13). This hierarchy includes those
thirteen classes and a few additional subfamilies. A
putative distant relative, the plasmid-borne TraB
family, has not been included in the hierarchy.
Length = 253
Score = 29.2 bits (66), Expect = 8.8
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 3/50 (6%)
Query: 12 GSVGILHCA-INFPSSIKLLKLKGVVLIAHPHPLFGGTMDNKVVQTLVRV 60
G +G+L C + FP + L LKG +I P T + + L+R
Sbjct: 136 GKIGLLICYDLRFPELARELALKGADIILVPA--AWPTARREHWELLLRA 183
>gnl|CDD|240649 cd12172, PGDH_like_2, Putative D-3-Phosphoglycerate Dehydrogenases,
NAD-binding and catalytic domains. Phosphoglycerate
dehydrogenases (PGDHs) catalyze the initial step in the
biosynthesis of L-serine from D-3-phosphoglycerate.
PGDHs come in 3 distinct structural forms, with this
first group being related to 2-hydroxy acid
dehydrogenases, sharing structural similarity to formate
and glycerate dehydrogenases of the D-specific
2-hydroxyacid dehydrogenase superfamily, which also
include groups such as L-alanine dehydrogenase and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. Many, not all, members of this family are
dimeric.
Length = 306
Score = 29.4 bits (67), Expect = 9.0
Identities = 25/92 (27%), Positives = 37/92 (40%), Gaps = 5/92 (5%)
Query: 808 IAGKIAVIIGYGDVGKGSAQAMRALSAQVWIIEIDPICALQAAMEGFLVVTMEYAKKYGD 867
+ GK IIG G +GK A+ + +V + P A G V++E K D
Sbjct: 140 LYGKTLGIIGLGRIGKAVARRLSGFGMKVLAYDPYPD-EEFAKEHGVEFVSLEELLKESD 198
Query: 868 -IFVTCTGN---YHVITHDHMRDMKDQAIVCN 895
I + H+I + MK AI+ N
Sbjct: 199 FISLHLPLTPETRHLINAAELALMKPGAILIN 230
>gnl|CDD|224893 COG1982, LdcC, Arginine/lysine/ornithine decarboxylases [Amino acid
transport and metabolism].
Length = 557
Score = 29.6 bits (67), Expect = 9.6
Identities = 12/55 (21%), Positives = 26/55 (47%), Gaps = 3/55 (5%)
Query: 195 PDKIADQISDAILDEIFLKDLKARVAAETLC---NNNLIVLSGEITTDANIDYVN 246
P++ + ++ + L + RV+AE + +++ GE T+ IDY+
Sbjct: 466 PEEAYQALVRGEVELVALDEAVGRVSAEFVLPYPPGIPLLVPGERITEEVIDYLL 520
>gnl|CDD|220638 pfam10230, DUF2305, Uncharacterized conserved protein (DUF2305).
This family of proteins is conserved from plants to
humans. The function is unknown.
Length = 260
Score = 29.2 bits (66), Expect = 9.9
Identities = 14/45 (31%), Positives = 23/45 (51%)
Query: 96 LLRYIQKKYPYLPIILAGFSFGTFVQAKLQKRLDKEISIKILILI 140
LR K + +IL G S G ++ ++ KRL + IK +L+
Sbjct: 68 FLRAFLPKKTDVKLILIGHSIGAYIALEVLKRLSLKFRIKKCVLL 112
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.138 0.404
Gapped
Lambda K H
0.267 0.0831 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 53,378,805
Number of extensions: 5482743
Number of successful extensions: 5347
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5262
Number of HSP's successfully gapped: 119
Length of query: 1027
Length of database: 10,937,602
Length adjustment: 107
Effective length of query: 920
Effective length of database: 6,191,724
Effective search space: 5696386080
Effective search space used: 5696386080
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 64 (28.2 bits)