RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13746
(294 letters)
>gnl|CDD|235706 PRK06129, PRK06129, 3-hydroxyacyl-CoA dehydrogenase; Validated.
Length = 308
Score = 256 bits (656), Expect = 8e-85
Identities = 103/278 (37%), Positives = 141/278 (50%), Gaps = 46/278 (16%)
Query: 17 GIIG--LIGQAWAMIFASAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPA 74
IIG LIG+AWA++FA AG++V L+D A I L+D L G
Sbjct: 6 AIIGAGLIGRAWAIVFARAGHEVRLWDADPAAAAAAPAYIAGRLEDLAAFDLLDGE---- 61
Query: 75 HAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPEEQFGLISGTPVLRECLE 134
+P+ I T L + +
Sbjct: 62 ----------------------------------------APDAVLARIRVTDSLADAVA 81
Query: 135 DAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHRSQFIVAHP 194
DA ++QES PE L++K ++ +D + IL+SSTS+ L S +EH R + +VAHP
Sbjct: 82 DADYVQESAPENLELKRALFAELDALAPPHAILASSTSALLASAFTEHLAGRERCLVAHP 141
Query: 195 VNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQFAVLNEC 254
+NPPY IP+VE+VPA WT+ + R + G PV L EI GF LNR+Q A+L E
Sbjct: 142 INPPYLIPVVEVVPAPWTAPATLARAEALYRAAGQSPVRLRREIDGFVLNRLQGALLREA 201
Query: 255 YHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPLETIHLN 292
+ LV DGV S DID V+ +GLGLR++F+GP ETI LN
Sbjct: 202 FRLVADGVASVDDIDAVIRDGLGLRWSFMGPFETIDLN 239
>gnl|CDD|224170 COG1250, FadB, 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism].
Length = 307
Score = 193 bits (494), Expect = 2e-60
Identities = 75/218 (34%), Positives = 114/218 (52%), Gaps = 6/218 (2%)
Query: 74 AHAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPEEQFGLISGTPVLRECL 133
A AGY V L D+ E +E A I+ L+ +KG L + I+ T L L
Sbjct: 23 ALAGYDVVLKDISPEALERALAYIEKNLEKLVEKGKLTEE-EADAALARITPTTDL-AAL 80
Query: 134 EDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHRSQFIVAH 193
+DA + E+V E L++K QV+ ++ + IL+S+TSS + L+E +FI H
Sbjct: 81 KDADLVIEAVVEDLELKKQVFAELEALAKPDAILASNTSSLSITELAEALKRPERFIGLH 140
Query: 194 PVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQFAVLNE 253
NP +PLVE++ TS+ + R E +IG PV + ++ GF +NR+ A+LNE
Sbjct: 141 FFNPVPLMPLVEVIRGEKTSDETVERVVEFAKKIGKTPV-VVKDVPGFIVNRLLAALLNE 199
Query: 254 CYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPLETIHL 291
L+ +GV + ++ID M +GLGL GP E L
Sbjct: 200 AIRLLEEGVATPEEIDAAMRQGLGLPM---GPFELADL 234
>gnl|CDD|202367 pfam02737, 3HCDH_N, 3-hydroxyacyl-CoA dehydrogenase, NAD binding
domain. This family also includes lambda crystallin.
Length = 180
Score = 150 bits (382), Expect = 3e-45
Identities = 50/159 (31%), Positives = 79/159 (49%), Gaps = 2/159 (1%)
Query: 74 AHAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPEEQFGLISGTPVLRECL 133
A AG +V L D+ E +E A+ I+ +L +KG + + IS T L +
Sbjct: 19 ARAGLEVVLVDISEEALEKARARIEKSLARLVEKGRITEE-DADAVLARISFTTDLAD-A 76
Query: 134 EDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHRSQFIVAH 193
DA + E+VPE L +K +++ +D + IL+S+TSS + L+ + +FI H
Sbjct: 77 VDADLVIEAVPENLDLKRELFAELDAIAPPDAILASNTSSLSITELAAATKRPERFIGLH 136
Query: 194 PVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPV 232
NPP +PLVE+V TS + + +IG PV
Sbjct: 137 FFNPPPLMPLVEVVRGEKTSPETVATVVALAKKIGKTPV 175
>gnl|CDD|235707 PRK06130, PRK06130, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 311
Score = 154 bits (391), Expect = 5e-45
Identities = 70/219 (31%), Positives = 106/219 (48%), Gaps = 6/219 (2%)
Query: 74 AHAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPEEQFGLISGTPVLRECL 133
A G +V L DV+ +E A+ I+ G G I L +
Sbjct: 24 ARKGLQVVLIDVMEGALERARGVIER------ALGVYAPLGIASAGMGRIRMEAGLAAAV 77
Query: 134 EDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHRSQFIVAH 193
A + E+VPE L++K V+ +D +TI +++TS + +++ T +F+ H
Sbjct: 78 SGADLVIEAVPEKLELKRDVFARLDGLCDPDTIFATNTSGLPITAIAQAVTRPERFVGTH 137
Query: 194 PVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQFAVLNE 253
P IPLVE+V TS + + T ++ IG +PV + +I GF NRIQ A+ E
Sbjct: 138 FFTPADVIPLVEVVRGDKTSPQTVATTMALLRSIGKRPVLVKKDIPGFIANRIQHALARE 197
Query: 254 CYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPLETIHLN 292
L+ GV SA+DID V+ LG+R A GPLE +N
Sbjct: 198 AISLLEKGVASAEDIDEVVKWSLGIRLALTGPLEQRDMN 236
>gnl|CDD|236044 PRK07531, PRK07531, bifunctional 3-hydroxyacyl-CoA
dehydrogenase/thioesterase; Validated.
Length = 495
Score = 158 bits (402), Expect = 5e-45
Identities = 84/214 (39%), Positives = 116/214 (54%), Gaps = 7/214 (3%)
Query: 76 AGYKVSLYDVLSEQIENAKNTIQHTLQDYHQK-GCLKGSLSPEEQFGLISGTPVLRECLE 134
AG V+++D E A+ I L + + L + P E G ++ L E +
Sbjct: 26 AGIDVAVFDPHPE----AERIIGEVLANAERAYAMLTDAPLPPE--GRLTFCASLAEAVA 79
Query: 135 DAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHRSQFIVAHP 194
A +IQESVPE L +K +V ID + ++ SSTS FLPS L E TH + VAHP
Sbjct: 80 GADWIQESVPERLDLKRRVLAEIDAAARPDALIGSSTSGFLPSDLQEGMTHPERLFVAHP 139
Query: 195 VNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQFAVLNEC 254
NP Y +PLVE+V TS I R +EI+ EIGMKPV + EI F +R+ A+ E
Sbjct: 140 YNPVYLLPLVELVGGGKTSPETIRRAKEILREIGMKPVHIAKEIDAFVGDRLLEALWREA 199
Query: 255 YHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPLET 288
LV DG+ + ++ID V+ GLR+A +G ET
Sbjct: 200 LWLVKDGIATTEEIDDVIRYSFGLRWAQMGLFET 233
>gnl|CDD|181340 PRK08269, PRK08269, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 314
Score = 137 bits (346), Expect = 2e-38
Identities = 61/159 (38%), Positives = 93/159 (58%), Gaps = 1/159 (0%)
Query: 131 ECLEDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHRSQFI 190
+ L DA + E+VPE+L K + R + + ++ I++S+TS+FL + L H H +F+
Sbjct: 75 DALADADLVFEAVPEVLDAKREALRWLGRHVDADAIIASTTSTFLVTDLQRHVAHPERFL 134
Query: 191 VAHPVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQFAV 250
AH +NP Y +PLVE+ P+ T V+ R ++ IG PV G+ + RIQ
Sbjct: 135 NAHWLNPAYLMPLVEVSPSDATDPAVVDRLAALLERIGKVPVVCGPS-PGYIVPRIQALA 193
Query: 251 LNECYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPLETI 289
+NE +V +GV SA+DID+ + G GLR+A LG LE I
Sbjct: 194 MNEAARMVEEGVASAEDIDKAIRTGFGLRFAVLGLLEFI 232
>gnl|CDD|168796 PRK07066, PRK07066, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 321
Score = 129 bits (326), Expect = 2e-35
Identities = 60/182 (32%), Positives = 96/182 (52%), Gaps = 8/182 (4%)
Query: 118 EQFGLISGT--------PVLRECLEDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSS 169
E+ GL G + C+ DA FIQES PE +K +++ I + I++S
Sbjct: 58 ERQGLAPGASPARLRFVATIEACVADADFIQESAPEREALKLELHERISRAAKPDAIIAS 117
Query: 170 STSSFLPSVLSEHSTHRSQFIVAHPVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGM 229
STS LP+ +TH + +V HP NP Y +PLVE++ T+ + I +GM
Sbjct: 118 STSGLLPTDFYARATHPERCVVGHPFNPVYLLPLVEVLGGERTAPEAVDAAMGIYRALGM 177
Query: 230 KPVTLTTEIRGFALNRIQFAVLNECYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPLETI 289
+P+ + E+ GF +R+ A+ E HLV++GV + +ID + G G+R++F+G T
Sbjct: 178 RPLHVRKEVPGFIADRLLEALWREALHLVNEGVATTGEIDDAIRFGAGIRWSFMGTFLTY 237
Query: 290 HL 291
L
Sbjct: 238 TL 239
>gnl|CDD|236434 PRK09260, PRK09260, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 288
Score = 109 bits (274), Expect = 3e-28
Identities = 59/217 (27%), Positives = 114/217 (52%), Gaps = 11/217 (5%)
Query: 74 AHAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPEEQFGLISGTPV---LR 130
A +G++ +L D+ EQ+E+A+ I + G +G L+ + ++ L+
Sbjct: 21 AVSGFQTTLVDIKQEQLESAQQEIASIFEQ----GVARGKLTEAARQAALARLSYSLDLK 76
Query: 131 ECLEDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHRSQFI 190
+ DA + E+VPE L++K V+ D + ++++TS+ P+ ++ + + I
Sbjct: 77 AAVADADLVIEAVPEKLELKKAVFETADAHAPAECYIATNTSTMSPTEIASFTKRPERVI 136
Query: 191 VAHPVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQFAV 250
H NP + + LVE++ TS+ + +E+ ++G K + E GF +RI V
Sbjct: 137 AMHFFNPVHKMKLVELIRGLETSDETVQVAKEVAEQMG-KETVVVNEFPGFVTSRISALV 195
Query: 251 LNECYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPLE 287
NE ++++ +GV +A+DID+ + LGL + +GPLE
Sbjct: 196 GNEAFYMLQEGVATAEDIDKAIR--LGLNFP-MGPLE 229
>gnl|CDD|215300 PLN02545, PLN02545, 3-hydroxybutyryl-CoA dehydrogenase.
Length = 295
Score = 109 bits (275), Expect = 3e-28
Identities = 70/217 (32%), Positives = 106/217 (48%), Gaps = 12/217 (5%)
Query: 74 AHAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPEE---QFGLISGTPVLR 130
A AG V L D + ++I +L + KG +S EE G I T L
Sbjct: 24 AAAGMDVWLLDSDPAALSRGLDSISSSLA----RLVKKGKMSQEEADATLGRIRCTTNLE 79
Query: 131 ECLEDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHRSQFI 190
E L DA FI E++ E +K +++ +D + IL+S+TSS + L+ + Q I
Sbjct: 80 E-LRDADFIIEAIVESEDLKKKLFSELDRICKPSAILASNTSSISITRLASATQRPQQVI 138
Query: 191 VAHPVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQFAV 250
H +NPP + LVEI+ A TS+ V T+ + G K V + + GF +NRI +
Sbjct: 139 GMHFMNPPPIMKLVEIIRGADTSDEVFDATKALAERFG-KTVVCSQDYPGFIVNRILMPM 197
Query: 251 LNECYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPLE 287
+NE ++ ++ GV S +DID M G +GPL
Sbjct: 198 INEAFYALYTGVASKEDIDTGMKLGTNHP---MGPLH 231
>gnl|CDD|181359 PRK08293, PRK08293, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 287
Score = 105 bits (265), Expect = 9e-27
Identities = 61/224 (27%), Positives = 96/224 (42%), Gaps = 6/224 (2%)
Query: 74 AHAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPEEQFGLISGTPVLRECL 133
A G+ V++YD+ E +E AK I Y + E I+ T L E +
Sbjct: 23 AFHGFDVTIYDISDEALEKAKERIAKLADRYVRDLEATKEAPAEAALNRITLTTDLAEAV 82
Query: 134 EDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHRSQFIVAH 193
+DA + E+VPE +IK Y + TI ++++S+ LPS +E + +F+ H
Sbjct: 83 KDADLVIEAVPEDPEIKGDFYEELAKVAPEKTIFATNSSTLLPSQFAEATGRPEKFLALH 142
Query: 194 PVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQFAVLNE 253
N + EI+ T V IGM P+ L E G+ LN + L+
Sbjct: 143 FANEIWKNNTAEIMGHPGTDPEVFDTVVAFAKAIGMVPIVLKKEQPGYILNSLLVPFLSA 202
Query: 254 CYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGP---LETIHLNSA 294
L GV + ID+ G A +GP L+ + L++A
Sbjct: 203 ALALWAKGVADPETIDKTWMIATG---APMGPFGILDIVGLDTA 243
>gnl|CDD|180361 PRK06035, PRK06035, 3-hydroxyacyl-CoA dehydrogenase; Validated.
Length = 291
Score = 91.5 bits (227), Expect = 2e-21
Identities = 67/223 (30%), Positives = 112/223 (50%), Gaps = 13/223 (5%)
Query: 74 AHAGYKVSLYDVLSEQIENAKNTIQ---HTLQDYHQKGCLKGSLSPEEQFGLIS--GTPV 128
A GY V++ DV E ++NA I+ + L++ +KG +S +E +++ T
Sbjct: 23 ARTGYDVTIVDVSEEILKNAMELIESGPYGLRNLVEKG----KMSEDEAKAIMARIRTST 78
Query: 129 LRECLEDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHRSQ 188
E L DA FI E+VPE L +K +V+ ++ +S TI++S+TS + + ++ + +
Sbjct: 79 SYESLSDADFIVEAVPEKLDLKRKVFAELERNVSPETIIASNTSGIMIAEIATALERKDR 138
Query: 189 FIVAHPVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQF 248
FI H NP + L+E+V AA TSE T E+ +IG P+ + ++ GF R
Sbjct: 139 FIGMHWFNPAPVMKLIEVVRAALTSEETFNTTVELSKKIGKIPIEV-ADVPGFFTTRFIE 197
Query: 249 AVLNECYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPLETIHL 291
L E G+ + KDID + G +GP E + +
Sbjct: 198 GWLLEAIRSFEIGIATIKDIDEMCKLAFGFP---MGPFELMDI 237
>gnl|CDD|180269 PRK05808, PRK05808, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 282
Score = 87.7 bits (218), Expect = 3e-20
Identities = 63/217 (29%), Positives = 105/217 (48%), Gaps = 14/217 (6%)
Query: 74 AHAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPEEQ---FGLISGTPVLR 130
A AGY V + D+ ++ TI +L + KG ++ ++ I+GT L
Sbjct: 23 AVAGYDVVMVDISDAAVDRGLATITKSLD----RLVKKGKMTEADKEAALARITGTTDL- 77
Query: 131 ECLEDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHR-SQF 189
+ L+DA + E+ E + +K +++ +D IL+++TSS L +T R +
Sbjct: 78 DDLKDADLVIEAATENMDLKKKIFAQLDEIAKPEAILATNTSS-LSITELAAATKRPDKV 136
Query: 190 IVAHPVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQFA 249
I H NP + LVEI+ TS+ + +IG PV + GF +NRI
Sbjct: 137 IGMHFFNPVPVMKLVEIIRGLATSDATHEAVEALAKKIGKTPVEVK-NAPGFVVNRILIP 195
Query: 250 VLNECYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPL 286
++NE ++ +GV +A+DID M LG + +GPL
Sbjct: 196 MINEAIFVLAEGVATAEDIDEGMK--LGCNHP-IGPL 229
>gnl|CDD|181018 PRK07530, PRK07530, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 292
Score = 80.4 bits (199), Expect = 2e-17
Identities = 65/218 (29%), Positives = 109/218 (50%), Gaps = 14/218 (6%)
Query: 74 AHAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPEEQ---FGLISGTPVLR 130
A AGY V L DV ++++E TI L + KG +S E + IS L
Sbjct: 24 ALAGYDVLLNDVSADRLEAGLATINGNL----ARQVAKGKISEEARAAALARISTATDLE 79
Query: 131 ECLEDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHRSQ-F 189
+ L D + E+ E +K +++ + + IL+++TSS + L+ +T R + F
Sbjct: 80 D-LADCDLVIEAATEDETVKRKIFAQLCPVLKPEAILATNTSSISITRLAS-ATDRPERF 137
Query: 190 IVAHPVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQFA 249
I H +NP + LVE++ T E +E +T++G K +T+ + F +NRI
Sbjct: 138 IGIHFMNPVPVMKLVELIRGIATDEATFEAAKEFVTKLG-KTITVAEDFPAFIVNRILLP 196
Query: 250 VLNECYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPLE 287
++NE + +++GV S + ID M LG + +GPLE
Sbjct: 197 MINEAIYTLYEGVGSVEAIDTAMK--LGANHP-MGPLE 231
>gnl|CDD|216084 pfam00725, 3HCDH, 3-hydroxyacyl-CoA dehydrogenase, C-terminal
domain. This family also includes lambda crystallin.
Some proteins include two copies of this domain.
Length = 97
Score = 73.0 bits (180), Expect = 2e-16
Identities = 20/53 (37%), Positives = 29/53 (54%)
Query: 240 GFALNRIQFAVLNECYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPLETIHLN 292
GF +NR+ +LNE LV +GV + +DID M GLGL + + L+
Sbjct: 1 GFVVNRLLAPLLNEAIRLVEEGVATPEDIDAAMRLGLGLPMGPFELSDLVGLD 53
>gnl|CDD|181133 PRK07819, PRK07819, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 286
Score = 75.0 bits (185), Expect = 1e-15
Identities = 59/218 (27%), Positives = 104/218 (47%), Gaps = 14/218 (6%)
Query: 74 AHAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPEEQ---FGLISGTPVLR 130
A AG V +++ E +N I+ +L+ + +G L+ E+ + T L
Sbjct: 25 ARAGVDVLVFETTEELATAGRNRIEKSLE----RAVSRGKLTERERDAALARLRFTTDLG 80
Query: 131 ECLEDAIFIQESVPEILQIKHQVYRAID-IFMSSNTILSSSTSSFLPSVLSEHSTHRSQF 189
+ D + E+V E +K +++ +D + + +L+S+TSS +P + +T R
Sbjct: 81 D-FADRQLVIEAVVEDEAVKTEIFAELDKVVTDPDAVLASNTSS-IPIMKLAAATKRPGR 138
Query: 190 IVA-HPVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQF 248
++ H NP +PLVE+VP TSE + R E +++ K V + GF +N +
Sbjct: 139 VLGLHFFNPVPVLPLVELVPTLVTSEATVARAEEFASDVLGKQVVRAQDRSGFVVNALLV 198
Query: 249 AVLNECYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPL 286
L +V G +A+DID+ M LG + +GPL
Sbjct: 199 PYLLSAIRMVESGFATAEDIDKAMV--LGCAHP-MGPL 233
>gnl|CDD|131493 TIGR02440, FadJ, fatty oxidation complex, alpha subunit FadJ.
Members represent alpha subunit of multifunctional
enzyme complex of the fatty acid degradation cycle.
Plays a minor role in aerobic beta-oxidation of fatty
acids. FadJI complex is necessary for anaerobic growth
on short-chain acids with nitrate as an electron
acceptor. Activities include: enoyl-CoA hydratase (EC
4.2.1.17),3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35),
3-hydroxybutyryl-CoA epimerase (EC 5.1.2.3). A
representative is E. coli FadJ (aka YfcX). This model
excludes the FadB of TIGR02437 equivalog model [Fatty
acid and phospholipid metabolism, Degradation].
Length = 699
Score = 76.0 bits (187), Expect = 2e-15
Identities = 62/215 (28%), Positives = 110/215 (51%), Gaps = 16/215 (7%)
Query: 76 AGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPEE---QFGLISGTPVLREC 132
AG V + D+ + I NA +++ KG + ++P E Q LI+GT R
Sbjct: 327 AGIPVRIKDINPQGINNA---LKYAW-KLLDKGVKRRHMTPAERDNQMALITGTTDYRG- 381
Query: 133 LEDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHRSQFIVA 192
+D + E+V E L +KHQ+ + I+ +++TI +S+TSS ++ ++ I
Sbjct: 382 FKDVDIVIEAVFEDLALKHQMVKDIEQECAAHTIFASNTSSLPIGQIAAAASRPENVIGL 441
Query: 193 HPVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQFAVLN 252
H +P +PLVE++P A TSE+ I T + + G P+ + + GF +NRI +N
Sbjct: 442 HYFSPVEKMPLVEVIPHAGTSEQTIATTVALAKKQGKTPIVVADKA-GFYVNRILAPYMN 500
Query: 253 ECYHLVHDGVLSAKDIDRVMSEGLGLRYAF-LGPL 286
E L+ +G + ID+ + +++ F +GP+
Sbjct: 501 EAARLLLEGE-PVEHIDKAL-----VKFGFPVGPI 529
>gnl|CDD|236211 PRK08268, PRK08268, 3-hydroxy-acyl-CoA dehydrogenase; Validated.
Length = 507
Score = 74.1 bits (183), Expect = 7e-15
Identities = 61/219 (27%), Positives = 96/219 (43%), Gaps = 16/219 (7%)
Query: 74 AHAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPEE-QFGLISGTPV--LR 130
A AG+ V LYD + A++ I L K KG L+ E+ L PV L
Sbjct: 27 AQAGHTVLLYDARAGAAAAARDGIAARLA----KLVEKGKLTAEQADAALARLRPVEALA 82
Query: 131 ECLEDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHRSQFI 190
+ L D + E++ E L +K ++ ++ +S + IL+++TSS S+ + + +
Sbjct: 83 D-LADCDLVVEAIVERLDVKQALFAQLEAIVSPDCILATNTSSL--SITAIAAALKHPER 139
Query: 191 VA--HPVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQF 248
VA H NP + LVE+V T V + G PV + GF +NR
Sbjct: 140 VAGLHFFNPVPLMKLVEVVSGLATDPAVADALYALARAWGKTPV-RAKDTPGFIVNRAAR 198
Query: 249 AVLNECYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPLE 287
E ++ +GV ID ++ E G R +GP E
Sbjct: 199 PYYTEALRVLEEGVADPATIDAILREAAGFR---MGPFE 234
Score = 35.6 bits (83), Expect = 0.028
Identities = 21/58 (36%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 230 KPVTLTTEIRGFALNRIQFAVLNECYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPLE 287
K V++ + GF R ++NE + G+ S DID M LGL Y LGPL
Sbjct: 406 KAVSVIRDSPGFVAQRTVAMIVNEAADIAQQGIASPADIDLAMR--LGLNYP-LGPLA 460
>gnl|CDD|188207 TIGR02279, PaaC-3OHAcCoADH, 3-hydroxyacyl-CoA dehydrogenase PaaC.
This 3-hydroxyacyl-CoA dehydrogenase is involved in the
degradation of phenylacetic acid, presumably in steps
following the opening of the phenyl ring. The sequences
included in this model are all found in aparrent operons
with other related genes such as paaA, paaB, paaD, paaE,
paaF and paaN. Some genomes contain these other genes
without an apparent paaC in the same operon - possibly
in these cases a different dehydrogenase involved in
fatty acid degradation may fill in the needed activity.
This enzyme has domains which are members of the
pfam02737 and pfam00725 families.
Length = 503
Score = 71.5 bits (175), Expect = 5e-14
Identities = 57/219 (26%), Positives = 96/219 (43%), Gaps = 8/219 (3%)
Query: 74 AHAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPEEQFGLISGTPVLR-EC 132
A AG++V LYD+ +E + A I+ L KG L E + L PV
Sbjct: 25 ASAGHQVLLYDIRAEALARAIAGIEARLNSLVTKGKLTAE---ECERTLKRLIPVTDLHA 81
Query: 133 LEDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHRSQFIVA 192
L DA + E++ E L++K ++ ++ ++TI++S+TSS + ++ +
Sbjct: 82 LADAGLVIEAIVENLEVKKALFAQLEELCPADTIIASNTSSLSITAIAAGLARPERVAGL 141
Query: 193 HPVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQFAVLN 252
H NP + LVE+V T+ V + E G +PV GF +NR+
Sbjct: 142 HFFNPAPVMALVEVVSGLATAAEVAEQLYETALAWGKQPVH-CHSTPGFIVNRVARPYYA 200
Query: 253 ECYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPLETIHL 291
E + + V + +D + +G G +GP E L
Sbjct: 201 EALRALEEQVAAPAVLDAALRDGAGFP---MGPFELTDL 236
Score = 32.6 bits (74), Expect = 0.27
Identities = 18/50 (36%), Positives = 26/50 (52%)
Query: 20 GLIGQAWAMIFASAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKG 69
G +G A + ASAG++V LYD+ +E + A I+ L KG L
Sbjct: 14 GAMGAGIAQVAASAGHQVLLYDIRAEALARAIAGIEARLNSLVTKGKLTA 63
Score = 28.8 bits (64), Expect = 4.2
Identities = 20/57 (35%), Positives = 25/57 (43%), Gaps = 3/57 (5%)
Query: 230 KPVTLTTEIRGFALNRIQFAVLNECYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPL 286
K V + G + R + NE V GV SA+DID M G+ Y GPL
Sbjct: 405 KKVLQIADYPGLLILRTVAMLANEAADAVLQGVASAQDIDTAMRLGVNYPY---GPL 458
>gnl|CDD|131490 TIGR02437, FadB, fatty oxidation complex, alpha subunit FadB.
Members represent alpha subunit of multifunctional
enzyme complex of the fatty acid degradation cycle.
Activities include: enoyl-CoA hydratase (EC 4.2.1.17),
dodecenoyl-CoA delta-isomerase activity (EC 5.3.3.8),
3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35),
3-hydroxybutyryl-CoA epimerase (EC 5.1.2.3). A
representative is E. coli FadB. This model excludes the
FadJ family represented by SP:P77399 [Fatty acid and
phospholipid metabolism, Degradation].
Length = 714
Score = 67.9 bits (166), Expect = 9e-13
Identities = 44/169 (26%), Positives = 85/169 (50%), Gaps = 4/169 (2%)
Query: 111 KGSLSPEEQFGLISG-TPVLREC-LEDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILS 168
+G ++P + G+++G TP L ++ + E+V E ++K V ++ + + IL+
Sbjct: 366 RGRITPAKMAGVLNGITPTLSYAGFDNVDIVVEAVVENPKVKAAVLAEVEQHVREDAILA 425
Query: 169 SSTSSFLPSVLSEHSTHRSQFIVAHPVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIG 228
S+TS+ S+L++ F H NP + +PLVE++ +S+ I +++G
Sbjct: 426 SNTSTISISLLAKALKRPENFCGMHFFNPVHRMPLVEVIRGEKSSDETIATVVAYASKMG 485
Query: 229 MKPVTLTTEIRGFALNRIQFAVLNECYHLVHDGVLSAKDIDRVMSEGLG 277
P+ + + GF +NR+ F L+ DG + ID+VM + G
Sbjct: 486 KTPI-VVNDCPGFFVNRVLFPYFGGFSKLLRDGADFVR-IDKVMEKQFG 532
>gnl|CDD|236864 PRK11154, fadJ, multifunctional fatty acid oxidation complex
subunit alpha; Reviewed.
Length = 708
Score = 64.5 bits (158), Expect = 1e-11
Identities = 60/205 (29%), Positives = 94/205 (45%), Gaps = 12/205 (5%)
Query: 70 SLSPAHAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPEE---QFGLISGT 126
++ AG V + D+ + I +A L K + L P E Q LISGT
Sbjct: 326 YVTATKAGLPVRIKDINPQGINHALKYSWDLLD----KKVKRRHLKPSERDKQMALISGT 381
Query: 127 PVLRECLEDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLP-SVLSEHSTH 185
R + A + E+V E L +K Q+ ++ + +TI +S+TSS LP ++ +
Sbjct: 382 TDYRG-FKHADVVIEAVFEDLALKQQMVAEVEQNCAPHTIFASNTSS-LPIGQIAAAAAR 439
Query: 186 RSQFIVAHPVNPPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNR 245
Q I H +P +PLVE++P A TS I T + + G P+ + GF +NR
Sbjct: 440 PEQVIGLHYFSPVEKMPLVEVIPHAKTSAETIATTVALAKKQGKTPIVVRDGA-GFYVNR 498
Query: 246 IQFAVLNECYHLVHDGVLSAKDIDR 270
I +NE L+ +G + ID
Sbjct: 499 ILAPYINEAARLLLEGE-PIEHIDA 522
>gnl|CDD|183293 PRK11730, fadB, multifunctional fatty acid oxidation complex
subunit alpha; Reviewed.
Length = 715
Score = 62.6 bits (153), Expect = 5e-11
Identities = 46/170 (27%), Positives = 84/170 (49%), Gaps = 6/170 (3%)
Query: 111 KGSLSPEEQFGLISG-TPVLR-ECLEDAIFIQESVPEILQIKHQVYRAIDIFMSSNTILS 168
+G + + G++S P L E + E+V E ++K V ++ + +TIL+
Sbjct: 366 RGKIDGAKMAGVLSSIRPTLDYAGFERVDVVVEAVVENPKVKAAVLAEVEQKVREDTILA 425
Query: 169 SSTSSFLPSVLSEHSTHRSQ-FIVAHPVNPPYFIPLVEIVPAAWTSERVITRTREIMTEI 227
S+TS+ S+L++ + R + F H NP + +PLVE++ TS+ I +++
Sbjct: 426 SNTSTISISLLAK-ALKRPENFCGMHFFNPVHRMPLVEVIRGEKTSDETIATVVAYASKM 484
Query: 228 GMKPVTLTTEIRGFALNRIQFAVLNECYHLVHDGVLSAKDIDRVMSEGLG 277
G P+ + + GF +NR+ F L+ DG + ID+VM + G
Sbjct: 485 GKTPI-VVNDCPGFFVNRVLFPYFAGFSQLLRDGADFRQ-IDKVMEKQFG 532
>gnl|CDD|131494 TIGR02441, fa_ox_alpha_mit, fatty acid oxidation complex, alpha
subunit, mitochondrial. Members represent alpha subunit
of mitochondrial multifunctional fatty acid degradation
enzyme complex. Subunit activities include: enoyl-CoA
hydratase (EC 4.2.1.17) & 3-hydroxyacyl-CoA
dehydrogenase (EC 1.1.1.35). Some characterization in
human , pig , and rat. The beta subunit has activity:
acetyl-CoA C-acyltransferase (EC 2.3.1.16).
Length = 737
Score = 48.3 bits (115), Expect = 2e-06
Identities = 42/195 (21%), Positives = 88/195 (45%), Gaps = 4/195 (2%)
Query: 77 GYKVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPEEQFGLISGTPVLRECLEDA 136
G K L D ++ + + L ++ + SL + ++ T + ++A
Sbjct: 358 GLKTVLKDATPAGLDRGQQQVFKGLNKKVKRKKIT-SLERDSILSNLTPT-LDYSGFKNA 415
Query: 137 IFIQESVPEILQIKHQVYRAIDIFMSSNTILSSSTSSFLPSVLSEHSTHRSQFIVAHPVN 196
+ E+V E L +KH+V + ++ + + I++S+TS+ ++ S+ + I H +
Sbjct: 416 DMVIEAVFEDLSLKHKVIKEVEAVVPPHCIIASNTSALPIKDIAAVSSRPEKVIGMHYFS 475
Query: 197 PPYFIPLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRIQFAVLNECYH 256
P + L+EI+ TS+ + + + G K V + + GF R +L E
Sbjct: 476 PVDKMQLLEIITHDGTSKDTLASAVAVGLKQG-KVVIVVKDGPGFYTTRCLGPMLAEVIR 534
Query: 257 LVHDGVLSAKDIDRV 271
L+ +GV K +D++
Sbjct: 535 LLQEGV-DPKKLDKL 548
>gnl|CDD|220077 pfam08938, DUF1916, Domain of unknown function (DUF1916). This
domain is found in various eukaryotic HBS1-like
proteins.
Length = 148
Score = 32.8 bits (75), Expect = 0.085
Identities = 17/69 (24%), Positives = 28/69 (40%), Gaps = 3/69 (4%)
Query: 113 SLSPEEQFGLISGTPVLRECLEDAIFIQESVPEILQIKHQVYRAIDIFMSSNT---ILSS 169
L +Q L S +RE L D++ + V +L+ V +A+D ++S T S
Sbjct: 80 QLDELDQARLYSCLDEMREVLGDSVSDRTLVEAVLKHDFDVQKALDEILNSETNQPASSK 139
Query: 170 STSSFLPSV 178
S
Sbjct: 140 SKKEDAIKA 148
>gnl|CDD|223749 COG0677, WecC, UDP-N-acetyl-D-mannosaminuronate dehydrogenase
[Cell envelope biogenesis, outer membrane].
Length = 436
Score = 32.2 bits (74), Expect = 0.31
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 17 GIIGL--IGQAWAMIFASAGYKVSLYDVLSEQIENAKNTIQHTL 58
G+IGL +G A FASAG+KV D+ ++++ +
Sbjct: 13 GVIGLGYVGLPLAAAFASAGFKVIGVDINQKKVDKLNRGESYIE 56
>gnl|CDD|227475 COG5146, PanK, Pantothenate kinase, acetyl-CoA regulated
[Coenzyme metabolism].
Length = 342
Score = 31.5 bits (71), Expect = 0.50
Identities = 12/56 (21%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 36 KVSLYDVLSEQIENAKNTIQHTLQDYHQKGCLKGSLSPAHAGYKVSLYDVLSEQIE 91
+++ +++I+ + + L H+K CL A G YD +S+Q++
Sbjct: 41 RLTFKTEETKKIDQVVEWL-NNLIQQHEKLCLTKITLIATGGGAYKFYDRMSKQLD 95
>gnl|CDD|217312 pfam03000, NPH3, NPH3 family. Phototropism of Arabidopsis thaliana
seedlings in response to a blue light source is
initiated by nonphototropic hypocotyl 1 (NPH1), a
light-activated serine-threonine protein kinase.
Mutations in NPH3 disrupt early signaling occurring
downstream of the NPH1 photoreceptor. The NPH3 gene
encodes a NPH1-interacting protein. NPH3 is a member of
a large protein family, apparently specific to higher
plants, and may function as an adapter or scaffold
protein to bring together the enzymatic components of a
NPH1-activated phosphorelay.
Length = 249
Score = 30.3 bits (69), Expect = 0.91
Identities = 13/31 (41%), Positives = 21/31 (67%), Gaps = 1/31 (3%)
Query: 141 ESVPEILQIKH-QVYRAIDIFMSSNTILSSS 170
E+VP+ + H +YRAIDI++ ++ LS S
Sbjct: 200 EAVPDSARPSHDGLYRAIDIYLKAHPNLSES 230
>gnl|CDD|240287 PTZ00142, PTZ00142, 6-phosphogluconate dehydrogenase;
Provisional.
Length = 470
Score = 30.1 bits (68), Expect = 1.4
Identities = 15/34 (44%), Positives = 23/34 (67%), Gaps = 2/34 (5%)
Query: 17 GIIGL--IGQAWAMIFASAGYKVSLYDVLSEQIE 48
G+IGL +GQ A+ AS G+K+S+Y+ E+ E
Sbjct: 5 GLIGLAVMGQNLALNIASRGFKISVYNRTYEKTE 38
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 29.7 bits (68), Expect = 1.5
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 22 IGQAWAMIFASAGYKVSLYDVLSEQIENAKNTIQ 55
IG+A A+ A+ G KV +YD E E ++
Sbjct: 17 IGRAIALRLAADGAKVVIYDSNEEAAEALAAELR 50
>gnl|CDD|179902 PRK04965, PRK04965, NADH:flavorubredoxin oxidoreductase;
Provisional.
Length = 377
Score = 29.1 bits (66), Expect = 2.5
Identities = 20/74 (27%), Positives = 31/74 (41%), Gaps = 10/74 (13%)
Query: 20 GLIGQAWAMIFASAGYKVSLYD----VLSEQI-ENAKNTIQHTLQD----YHQKGCLKGS 70
GLIG AM AG V+L D +L+ + + +QH L + K L+
Sbjct: 150 GLIGTELAMDLCRAGKAVTLVDNAASLLASLMPPEVSSRLQHRLTEMGVHLLLKSQLQ-G 208
Query: 71 LSPAHAGYKVSLYD 84
L +G + +L
Sbjct: 209 LEKTDSGIRATLDS 222
>gnl|CDD|215878 pfam00362, Integrin_beta, Integrin, beta chain. Integrins have
been found in animals and their homologues have also
been found in cyanobacteria, probably due to horizontal
gene transfer. The sequences repeats have been trimmed
due to an overlap with EGF.
Length = 424
Score = 29.1 bits (66), Expect = 2.8
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 29 IFASAGYKVSLYDVLSEQIENA 50
IFA V LY+ LSE I +
Sbjct: 295 IFAVTENVVDLYEELSELIPGS 316
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 28.8 bits (65), Expect = 3.0
Identities = 10/21 (47%), Positives = 17/21 (80%)
Query: 22 IGQAWAMIFASAGYKVSLYDV 42
IG+A A++FA+ G++V YD+
Sbjct: 13 IGRATALLFAAEGWRVGAYDI 33
>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 = 28.8 bits (65), Expect = 3.6
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 17 GIIGL--IGQAWAMIFASAGYKVSLYDV-LSEQIEN 49
G++G IG+A A G KV YD + ++E+
Sbjct: 147 GVVGTGKIGRAVAQRAKGFGMKVIAYDPFRNPELED 182
>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 = 28.7 bits (65), Expect = 4.2
Identities = 15/28 (53%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 17 GIIGL--IGQAWAMIFASAGYKVSLYDV 42
GIIG IG A A IF G KV YD
Sbjct: 149 GIIGTGRIGSAAAKIFKGFGAKVIAYDP 176
>gnl|CDD|224657 COG1743, COG1743, Adenine-specific DNA methylase containing a
Zn-ribbon [DNA replication, recombination, and repair].
Length = 875
Score = 28.6 bits (64), Expect = 4.3
Identities = 20/105 (19%), Positives = 41/105 (39%), Gaps = 8/105 (7%)
Query: 143 VPEILQIKHQVYRAID-IFMSSNTILSSSTSSFLPSVLSEHSTHRSQFIVAHPVNPPYFI 201
+ + ++ + + S L +T L + + IV +PPY+
Sbjct: 445 IDSVNRVLRALEYLPSALSGSVQVTLDDATEKVLSGSAGSLNLEKFDVIV---TDPPYY- 500
Query: 202 PLVEIVPAAWTSERVITRTREIMTEIGMKPVTLTTEIRGFALNRI 246
+ VP A S+ + I+ IG K + + T+ + FA + +
Sbjct: 501 ---DDVPYAELSDFFYVWLKRILGRIGGKWLEIATQWQEFAKDEV 542
>gnl|CDD|200948 pfam00038, Filament, Intermediate filament protein.
Length = 312
Score = 28.3 bits (64), Expect = 5.0
Identities = 11/67 (16%), Positives = 30/67 (44%), Gaps = 10/67 (14%)
Query: 43 LSEQIENAKNT---IQHTLQDYHQKGCLKGSLSPAHAGYKVSLYDVLSEQIENAKNTIQH 99
L ++++ K ++ L + L+ A Y+ ++ + L E+++ K +
Sbjct: 228 LEIELQSLKKQKASLERQLAE------LEERYELELADYQDTISE-LEEELQQLKAEMAR 280
Query: 100 TLQDYHQ 106
L++Y +
Sbjct: 281 QLREYQE 287
>gnl|CDD|215789 pfam00208, ELFV_dehydrog, Glutamate/Leucine/Phenylalanine/Valine
dehydrogenase.
Length = 237
Score = 27.9 bits (63), Expect = 5.2
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 211 WTSERVITRTREIMTEI 227
WT E V + +IMT I
Sbjct: 186 WTEEEVDEKLEKIMTNI 202
>gnl|CDD|222417 pfam13851, GAS, Growth-arrest specific micro-tubule binding. This
family is the highly conserved central region of a
number of metazoan proteins referred to as growth-arrest
proteins. In mouse, Gas8 is predominantly a testicular
protein, whose expression is developmentally regulated
during puberty and spermatogenesis. In humans, it is
absent in infertile males who lack the ability to
generate gametes. The localisation of Gas8 in the
motility apparatus of post-meiotic gametocytes and
mature spermatozoa, together with the detection of Gas8
also in cilia at the apical surfaces of epithelial cells
lining the pulmonary bronchi and Fallopian tubes
suggests that the Gas8 protein may have a role in the
functioning of motile cellular appendages. Gas8 is a
microtubule-binding protein localised to regions of
dynein regulation in mammalian cells.
Length = 201
Score = 28.0 bits (63), Expect = 5.5
Identities = 23/91 (25%), Positives = 39/91 (42%), Gaps = 22/91 (24%)
Query: 43 LSEQIENAK---NTIQHTLQDYHQKGCLKGSLSPAHAGYKV------SL---YDVLS--- 87
L E ++ A+ ++ L+DY + K SL A K +L +VL
Sbjct: 60 LVEPLKKAEEEVEELRKKLKDYEK---DKQSLKNLKARLKELEKELKNLKWESEVLEQRF 116
Query: 88 EQIENAKNTI----QHTLQDYHQKGCLKGSL 114
E++E ++ + + +QD QK LK L
Sbjct: 117 EKVERERDELYDKFEAAIQDVQQKTGLKNLL 147
>gnl|CDD|187636 cd08931, SDR_c9, classical (c) SDR, subgroup 9. This subgroup
has the canonical active site tetrad and NAD-binding
motif of the classical SDRs. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 227
Score = 27.8 bits (62), Expect = 6.3
Identities = 10/35 (28%), Positives = 18/35 (51%)
Query: 22 IGQAWAMIFASAGYKVSLYDVLSEQIENAKNTIQH 56
IG+ A++FA G+ V LYD+ + + +
Sbjct: 12 IGRETALLFARNGWFVGLYDIDEDGLAALAAELGA 46
>gnl|CDD|215691 pfam00070, Pyr_redox, Pyridine nucleotide-disulphide
oxidoreductase. This family includes both class I and
class II oxidoreductases and also NADH oxidases and
peroxidases. This domain is actually a small NADH
binding domain within a larger FAD binding domain.
Length = 82
Score = 26.0 bits (58), Expect = 6.7
Identities = 12/45 (26%), Positives = 19/45 (42%)
Query: 20 GLIGQAWAMIFASAGYKVSLYDVLSEQIENAKNTIQHTLQDYHQK 64
G IG +A A G KV++ + + I LQ+ +K
Sbjct: 8 GYIGLEFASALAKLGSKVTVVERRDRLLRGFDEEIAKILQEKLEK 52
>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 = 27.9 bits (63), Expect = 7.0
Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 17 GIIGL--IGQAWAMIFASAGYKVSLYDVLSEQIENAKNTIQ 55
GIIG IG+ A I + G V YD + + + ++
Sbjct: 143 GIIGFGRIGREVAKIARALGMNVIAYDPYPKDEQAVELGVK 183
>gnl|CDD|99971 cd03798, GT1_wlbH_like, This family is most closely related to the
GT1 family of glycosyltransferases. wlbH in Bordetella
parapertussis has been shown to be required for the
biosynthesis of a trisaccharide that, when attached to
the B. pertussis lipopolysaccharide (LPS) core (band B),
generates band A LPS.
Length = 377
Score = 27.7 bits (62), Expect = 7.7
Identities = 13/45 (28%), Positives = 17/45 (37%)
Query: 242 ALNRIQFAVLNECYHLVHDGVLSAKDIDRVMSEGLGLRYAFLGPL 286
AL R+ + +V DG L GL R FLG +
Sbjct: 223 ALARLLKKRPDVHLVIVGDGPLREALEALAAELGLEDRVTFLGAV 267
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 27.7 bits (62), Expect = 8.1
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 22 IGQAWAMIFASAGYKVSLYDVLSEQIENA 50
G A+A I A+ G K+ L DV + ++ A
Sbjct: 18 FGLAFARIGAALGMKLVLADVQQDALDRA 46
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 0.135 0.393
Gapped
Lambda K H
0.267 0.0724 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,908,056
Number of extensions: 1410347
Number of successful extensions: 1611
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1584
Number of HSP's successfully gapped: 69
Length of query: 294
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 198
Effective length of database: 6,679,618
Effective search space: 1322564364
Effective search space used: 1322564364
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: 59 (26.5 bits)