RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7539
(318 letters)
>gnl|CDD|187547 cd05236, FAR-N_SDR_e, fatty acyl CoA reductases (FARs), extended
(e) SDRs. SDRs are Rossmann-fold NAD(P)H-binding
proteins, many of which may function as fatty acyl CoA
reductases (FAR), acting on medium and long chain fatty
acids, and have been reported to be involved in diverse
processes such as biosynthesis of insect pheromones,
plant cuticular wax production, and mammalian wax
biosynthesis. In Arabidopsis thaliana, proteins with
this particular architecture have also been identified
as the MALE STERILITY 2 (MS2) gene product, which is
implicated in male gametogenesis. Mutations in MS2
inhibit the synthesis of exine (sporopollenin),
rendering plants unable to reduce pollen wall fatty
acids to corresponding alcohols. This N-terminal domain
shares the catalytic triad (but not the upstream Asn)
and characteristic NADP-binding motif of the extended
SDR family. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 320
Score = 301 bits (772), Expect = e-102
Identities = 118/309 (38%), Positives = 179/309 (57%), Gaps = 4/309 (1%)
Query: 1 KVLLEKILRTCENV-KIYILLRPKKNKNSRERLEEIFQSPLYEALKKEQSESAIFEKVIP 59
KVLLEK+LR+C ++ KIY+L+R K +++ ERL E+ + L++ + K++P
Sbjct: 14 KVLLEKLLRSCPDIGKIYLLIRGKSGQSAEERLRELLKDKLFDRGRNLNPLF--ESKIVP 71
Query: 60 INGDVAVPDLGISAEDRQMLSETIHIVYHIAATVRFDDYMQTYVFLNTRGTRDMLNLSKQ 119
I GD++ P+LG+S ED Q L E ++I+ H AATV FD+ + + +N GT +L L+K+
Sbjct: 72 IEGDLSEPNLGLSDEDLQTLIEEVNIIIHCAATVTFDERLDEALSINVLGTLRLLELAKR 131
Query: 120 MIHLQLFVYVSTAYCHPKEKVLEEKTYPPPVSPHNVIEKAELLSKNELELLKQELLQDFP 179
L+ FV+VSTAY + +++EEK YPPP P +I+ EL+ ELE +LL P
Sbjct: 132 CKKLKAFVHVSTAYVNGDRQLIEEKVYPPPADPEKLIDILELMDDLELERATPKLLGGHP 191
Query: 180 NGYAYTKCLCEGVVTEYMEAGMPCMILRPSIIIPIWKDPLPGWTDNINGPTGLLIGAGKG 239
N Y +TK L E +V + +P +I+RPSI+ K+P PGW DN NGP GL + GKG
Sbjct: 192 NTYTFTKALAERLVLKERG-NLPLVIVRPSIVGATLKEPFPGWIDNFNGPDGLFLAYGKG 250
Query: 240 IIRTMYCDYSTCADFLPVDVLVNGVLLSTWNFLSNPGNTMRVINLTANKDFQITWYDIIE 299
I+RTM D + AD +PVDV+ N +L + + V + ++ TW + E
Sbjct: 251 ILRTMNADPNAVADIIPVDVVANALLAAAAYSGVRKPRELEVYHCGSSDVNPFTWGEAEE 310
Query: 300 NGKDIARNK 308
+
Sbjct: 311 LINQYLKKN 319
>gnl|CDD|219687 pfam07993, NAD_binding_4, Male sterility protein. This family
represents the C-terminal region of the male sterility
protein in a number of arabidopsis and drosophila. A
sequence-related jojoba acyl CoA reductase is also
included.
Length = 245
Score = 237 bits (606), Expect = 1e-77
Identities = 97/266 (36%), Positives = 142/266 (53%), Gaps = 32/266 (12%)
Query: 1 KVLLEKILRTCENVKIYILLRPKKNKNSRERL-EEIFQSPLYEALKKEQSESAIFEKVIP 59
KVLLEK+LR+ VKIY L+R K +++ ERL +E+ + L++ LK E++IP
Sbjct: 10 KVLLEKLLRSTPEVKIYCLVRAKDGESALERLRQELLKYGLFDRLK-------ALERIIP 62
Query: 60 INGDVAVPDLGISAEDRQMLSETIHIVYHIAATVRFDDYMQTYVFLNTRGTRDMLNLSKQ 119
+ GD++ P+LG+S ED Q L+E + ++ H AATV F + N GTR++L L+KQ
Sbjct: 63 VAGDLSEPNLGLSDEDFQELAEEVDVIIHNAATVNFVEPYSDLRATNVLGTREVLRLAKQ 122
Query: 120 MIHLQLFVYVSTAYCHPKEKVLEEKTYPPPVSPHNVIEKAELLSKNELELLKQELLQDFP 179
M L F +VSTAY + + + EK L + + LL P
Sbjct: 123 MKKLP-FHHVSTAYVNGER-------------GGLLEEKPYKLDE-----DEPALLGGLP 163
Query: 180 NGYAYTKCLCEGVVTEYMEAGMPCMILRPSIIIPIWKDPLPGWTDNIN-GPTGLLIGAGK 238
NGY +K L E +V E G+P +I RPSII + GW + + GP GLL GAG
Sbjct: 164 NGYTQSKWLAEQLVREAAG-GLPVVIYRPSIITG---ESRTGWINGDDFGPRGLLGGAGL 219
Query: 239 GIIRTMYCDYSTCADFLPVDVLVNGV 264
G++ + D D +PVD + N +
Sbjct: 220 GVLPDILGDPDARLDLVPVDYVANAI 245
>gnl|CDD|215538 PLN02996, PLN02996, fatty acyl-CoA reductase.
Length = 491
Score = 153 bits (388), Expect = 1e-42
Identities = 91/308 (29%), Positives = 162/308 (52%), Gaps = 53/308 (17%)
Query: 1 KVLLEKILRTCENV-KIYILLRPKKNKNSRERL-EEIFQSPLYEALKK---EQSESAIFE 55
K+ +EKILR NV K+Y+LLR K++ +RL +E+ L++ L++ E S I E
Sbjct: 25 KIFVEKILRVQPNVKKLYLLLRASDAKSATQRLHDEVIGKDLFKVLREKLGENLNSLISE 84
Query: 56 KVIPINGDVAVPDLGISAED--RQMLSETIHIVYHIAATVRFDDYMQTYVFLNTRGTRDM 113
KV P+ GD++ DLG+ + +M E I IV ++AAT FD+ + +NT G ++
Sbjct: 85 KVTPVPGDISYDDLGVKDSNLREEMWKE-IDIVVNLAATTNFDERYDVALGINTLGALNV 143
Query: 114 LNLSKQMIHLQLFVYVSTAY-CHPKEKVLEEKTYPPPVSPHNVIEKAELLSKN------- 165
LN +K+ + +++ ++VSTAY C K ++ EK + E L+ N
Sbjct: 144 LNFAKKCVKVKMLLHVSTAYVCGEKSGLILEKPFH----------MGETLNGNRKLDINE 193
Query: 166 ELELLKQEL----------------LQDF----------PNGYAYTKCLCEGVVTEYMEA 199
E +L+K++L ++D PN Y +TK + E ++ + E
Sbjct: 194 EKKLVKEKLKELNEQDASEEEITQAMKDLGMERAKLHGWPNTYVFTKAMGEMLLGNFKE- 252
Query: 200 GMPCMILRPSIIIPIWKDPLPGWTDNINGPTGLLIGAGKGIIRTMYCDYSTCADFLPVDV 259
+P +I+RP++I +K+P PGW + + +++G GKG + D ++ D +P D+
Sbjct: 253 NLPLVIIRPTMITSTYKEPFPGWIEGLRTIDSVIVGYGKGKLTCFLADPNSVLDVIPADM 312
Query: 260 LVNGVLLS 267
+VN ++++
Sbjct: 313 VVNAMIVA 320
>gnl|CDD|215279 PLN02503, PLN02503, fatty acyl-CoA reductase 2.
Length = 605
Score = 120 bits (303), Expect = 1e-30
Identities = 90/306 (29%), Positives = 153/306 (50%), Gaps = 43/306 (14%)
Query: 1 KVLLEKILRTCENV-KIYILLRPKKNKNSRERLE-EIFQSPLYEALKK---EQSESAIFE 55
KVL+EKILRT +V KIY+L++ K + + ERL+ E+ + L++ L++ + +S +
Sbjct: 133 KVLIEKILRTNPDVGKIYLLIKAKDKEAAIERLKNEVIDAELFKCLQETHGKSYQSFMLS 192
Query: 56 KVIPINGDVAVPDLGISAEDRQMLSETIHIVYHIAATVRFDDYMQTYVFLNTRGTRDMLN 115
K++P+ G+V +LG+ + +++ + ++ + AA FD+ + +NTRG +++
Sbjct: 193 KLVPVVGNVCESNLGLEPDLADEIAKEVDVIINSAANTTFDERYDVAIDINTRGPCHLMS 252
Query: 116 LSKQMIHLQLFVYVSTAYCH-PKEKVLEEKTY-----------PPPVSPHNV----IE-- 157
+K+ L+LF+ VSTAY + ++ + EK + PHN IE
Sbjct: 253 FAKKCKKLKLFLQVSTAYVNGQRQGRIMEKPFRMGDCIARELGISNSLPHNRPALDIEAE 312
Query: 158 -KAELLSKNE---------------LELLKQELLQDFPNGYAYTKCLCEGVVTEYMEAGM 201
K L SK LE K QD Y +TK + E V+ M +
Sbjct: 313 IKLALDSKRHGFQSNSFAQKMKDLGLERAKLYGWQD---TYVFTKAMGEMVINS-MRGDI 368
Query: 202 PCMILRPSIIIPIWKDPLPGWTDNINGPTGLLIGAGKGIIRTMYCDYSTCADFLPVDVLV 261
P +I+RPS+I WKDP PGW + +++ GKG + D + D +P D++V
Sbjct: 369 PVVIIRPSVIESTWKDPFPGWMEGNRMMDPIVLYYGKGQLTGFLADPNGVLDVVPADMVV 428
Query: 262 NGVLLS 267
N L +
Sbjct: 429 NATLAA 434
>gnl|CDD|187546 cd05235, SDR_e1, extended (e) SDRs, subgroup 1. This family
consists of an SDR module of multidomain proteins
identified as putative polyketide sythases fatty acid
synthases (FAS), and nonribosomal peptide synthases,
among others. However, unlike the usual ketoreductase
modules of FAS and polyketide synthase, these domains
are related to the extended SDRs, and have canonical
NAD(P)-binding motifs and an active site tetrad.
Extended SDRs are distinct from classical SDRs. In
addition to the Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) core region typical
of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 290
Score = 105 bits (265), Expect = 1e-26
Identities = 61/268 (22%), Positives = 105/268 (39%), Gaps = 50/268 (18%)
Query: 2 VLLEKILRTCENVKIYILLRPKKNKNSRERLEEIFQSPLYEALKKEQSESAIFEKVIPIN 61
LL ++L+ KIY L+R K + + ERL + + + ++ +
Sbjct: 14 YLLRELLKRKNVSKIYCLVRAKDEEAALERLIDNLKE-----YGLNLWDELELSRIKVVV 68
Query: 62 GDVAVPDLGISAEDRQMLSETIHIVYHIAATVRFDDYMQTYVFLNTRGTRDMLNLSKQMI 121
GD++ P+LG+S +D Q L+E + ++ H A V + + N GT+++L L+
Sbjct: 69 GDLSKPNLGLSDDDYQELAEEVDVIIHNGANVNWVYPYEELKPANVLGTKELLKLAATG- 127
Query: 122 HLQLFVYVSTAYCHPKEKVLEEKTYPPPVSPHNVIEKAELLSKNELELLKQEL--LQDFP 179
L+ +VST + AE + + E L P
Sbjct: 128 KLKPLHFVSTLS----------------------VFSAEEYNALDDEESDDMLESQNGLP 165
Query: 180 NGYAYTKCLCEGVVTEYMEAGMPCMILRPSIIIPIWKDPLPGWTDNINGPT------GLL 233
NGY +K + E ++ E G+P I+RP I D+ G L
Sbjct: 166 NGYIQSKWVAEKLLREAANRGLPVAIIRPGNIFG----------DSETGIGNTDDFFWRL 215
Query: 234 IGAGKGIIRT-MYCDYSTCADFLPVDVL 260
+ KG ++ +Y D PVD +
Sbjct: 216 L---KGCLQLGIYPISGAPLDLSPVDWV 240
>gnl|CDD|187573 cd05263, MupV_like_SDR_e, Pseudomonas fluorescens MupV-like,
extended (e) SDRs. This subgroup of extended SDR family
domains have the characteristic active site tetrad and a
well-conserved NAD(P)-binding motif. This subgroup is
not well characterized, its members are annotated as
having a variety of putative functions. One
characterized member is Pseudomonas fluorescens MupV a
protein involved in the biosynthesis of Mupirocin, a
polyketide-derived antibiotic. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 293
Score = 86.7 bits (215), Expect = 1e-19
Identities = 68/291 (23%), Positives = 114/291 (39%), Gaps = 60/291 (20%)
Query: 3 LLEKILRTCENVKIYILLRPKKNKNSRERLEEIFQSPLYEALKKEQSESAIFEKVIPING 62
L++++L K+ +L+R + + ER+EE ++V + G
Sbjct: 14 LVKRLLEN--GFKVLVLVRSESLGEAHERIEE---------------AGLEADRVRVLEG 56
Query: 63 DVAVPDLGISAEDRQMLSETIHIVYHIAATVRF----DDYMQTYVFLNTRGTRDMLNLSK 118
D+ P+LG+SA + L+ + V H AA+ F +D +T N GT +L L+
Sbjct: 57 DLTQPNLGLSAAASRELAGKVDHVIHCAASYDFQAPNEDAWRT----NIDGTEHVLELAA 112
Query: 119 QMIHLQLFVYVSTAYCHPKEKVLEEKTYPPPVSPHNVIEKAELLSKNELELLKQELLQDF 178
+ + +Q F YVSTAY + E EL Q+F
Sbjct: 113 R-LDIQRFHYVSTAYV------------AGNREGNI----------RETELNPG---QNF 146
Query: 179 PNGYAYTKCLCEGVVTEYMEAGMPCMILRPSIIIPIWKDPLPGWTDNINGPTGLLIG-AG 237
N Y +K E +V +P + RPSI + D G + I+G LL A
Sbjct: 147 KNPYEQSKAEAEQLVRAAATQ-IPLTVYRPSI---VVGDSKTGRIEKIDGLYELLNLLAK 202
Query: 238 KGIIRTMYCDYSTCADFLPVDVLVNGVLLSTWNFLSNPGNTMRVINLTANK 288
G M + + +PVD + + ++ P ++ +LT
Sbjct: 203 LGRWLPMPGNKGARLNLVPVDYVADAIVY----LSKKPEANGQIFHLTDPT 249
>gnl|CDD|233557 TIGR01746, Thioester-redct, thioester reductase domain. This model
includes the terminal domain from the fungal alpha
aminoadipate reductase enzyme (also known as
aminoadipate semialdehyde dehydrogenase) which is
involved in the biosynthesis of lysine , as well as the
reductase-containing component of the myxochelin
biosynthetic gene cluster, MxcG. The mechanism of
reduction involves activation of the substrate by
adenylation and transfer to a covalently-linked
pantetheine cofactor as a thioester. This thioester is
then reduced to give an aldehyde (thus releasing the
product) and a regenerated pantetheine thiol. (In
myxochelin biosynthesis this aldehyde is further reduced
to an alcohol or converted to an amine by an
aminotransferase.) This is a fundamentally different
reaction than beta-ketoreductase domains of polyketide
synthases which act at a carbonyl two carbons removed
from the thioester and forms an alcohol as a product.
This domain is invariably found at the C-terminus of the
proteins which contain it (presumably because it results
in the release of the product). The majority of hits to
this model are non-ribosomal peptide synthetases in
which this domain is similarly located proximal to a
thiolation domain (pfam00550). In some cases this domain
is found at the end of a polyketide synthetase enzyme,
but is unlike ketoreductase domains which are found
before the thiolase domains. Exceptions to this observed
relationship with the thiolase domain include three
proteins which consist of stand-alone reductase domains
(GP|466833 from M. leprae, GP|435954 from Anabaena and
OMNI|NTL02SC1199 from Strep. coelicolor) and one protein
(OMNI|NTL01NS2636 from Nostoc) which contains N-terminal
homology with a small group of hypothetical proteins but
no evidence of a thiolation domain next to the putative
reductase domain. Below the noise cutoff to this model
are proteins containing more distantly related
ketoreductase and dehydratase/epimerase domains. It has
been suggested that a NADP-binding motif can be found in
the N-terminal portion of this domain that may form a
Rossman-type fold.
Length = 367
Score = 86.3 bits (214), Expect = 4e-19
Identities = 55/213 (25%), Positives = 91/213 (42%), Gaps = 35/213 (16%)
Query: 3 LLEKILRTCENVKIYILLRPKKNKNSRERLEEIFQSPLYEALKKEQSESAIFEKVIPING 62
LLE++LR K+ L+R +++ ERL E +S L E E++ + G
Sbjct: 15 LLEELLRRSTQAKVICLVRAASEEHAMERLREALRS---YRL---WHEDLARERIEVVAG 68
Query: 63 DVAVPDLGISAEDRQMLSETIHIVYHIAATVRFDDYMQTYVFL---NTRGTRDMLNLSKQ 119
D++ P LG+S + + L+E + + H A V +++ Y L N GTR++L L+
Sbjct: 69 DLSEPRLGLSDAEWERLAENVDTIVHNGALV---NWVYPYSELRGANVLGTREVLRLA-A 124
Query: 120 MIHLQLFVYVSTAYCHPKEKVLEEKTYPPPVSPHNVIEKAELLSKNELELLKQELLQDFP 179
+ YVST V + V E ++
Sbjct: 125 SGRAKPLHYVSTI------SVG------AAIDLSTVTEDDATVTP----------PPGLA 162
Query: 180 NGYAYTKCLCEGVVTEYMEAGMPCMILRPSIII 212
GYA +K + E +V E + G+P I+RP I+
Sbjct: 163 GGYAQSKWVAELLVREASDRGLPVTIVRPGRIL 195
>gnl|CDD|225857 COG3320, COG3320, Putative dehydrogenase domain of multifunctional
non-ribosomal peptide synthetases and related enzymes
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 382
Score = 78.2 bits (193), Expect = 3e-16
Identities = 57/213 (26%), Positives = 93/213 (43%), Gaps = 33/213 (15%)
Query: 3 LLEKILRTCENVKIYILLRPKKNKNSRERLEEIFQSPLYEALKKEQSESAIFEKVIPING 62
LL ++L + K+ L+R + ++ + RLE+ F LY E S ++V + G
Sbjct: 16 LLLELLDR-SDAKVICLVRAQSDEAALARLEKTF--DLY-RHWDELSA----DRVEVVAG 67
Query: 63 DVAVPDLGISAEDRQMLSETIHIVYHIAATVRFDDYMQTYVFL---NTRGTRDMLNLSKQ 119
D+A PDLG+S Q L+E + ++ H AA V +++ Y L N GT ++L L+
Sbjct: 68 DLAEPDLGLSERTWQELAENVDLIIHNAALV---NHVFPYSELRGANVLGTAEVLRLA-A 123
Query: 120 MIHLQLFVYVSTAYCHPKEKVLEEKTYPPPVSPHNVIEKAELLSKNELELLKQELLQDFP 179
+ YVS+ V E N + +S + + Q
Sbjct: 124 TGKPKPLHYVSSI------SVGE------TEYYSNFTVDFDEISPT------RNVGQGLA 165
Query: 180 NGYAYTKCLCEGVVTEYMEAGMPCMILRPSIII 212
GY +K + E +V E + G+P I RP I
Sbjct: 166 GGYGRSKWVAEKLVREAGDRGLPVTIFRPGYIT 198
>gnl|CDD|212494 cd08946, SDR_e, extended (e) SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 200
Score = 60.0 bits (146), Expect = 8e-11
Identities = 44/193 (22%), Positives = 71/193 (36%), Gaps = 51/193 (26%)
Query: 85 IVYHIAATVRFDDYMQ--TYVFL-NTRGTRDMLNLSKQMIHLQLFVYVSTA--YCHPKEK 139
+V H+AA V F N GT ++L +++ ++ FVY S+A Y P+
Sbjct: 33 VVVHLAALVGVPASWDNPDEDFETNVVGTLNLLEAARKA-GVKRFVYASSASVYGSPEGL 91
Query: 140 VLEEKTYPPPVSPHNVIEKAELLSKNELELLKQELLQDFPNGYAYTKCLCEGVVTEYMEA 199
EE+T P P+SP Y +K E ++ Y E+
Sbjct: 92 PEEEETPPRPLSP-----------------------------YGVSKLAAEHLLRSYGES 122
Query: 200 -GMPCMILRPSIII-----PIWKDPLPGWTDNINGPTGLLIGAGKGIIRTMYCDYSTCAD 253
G+P +ILR + + P + + L + G R D
Sbjct: 123 YGLPVVILRLANVYGPGQRPRLDGVVNDFIRRALEGKPLTVFGGGNQTR----------D 172
Query: 254 FLPVDVLVNGVLL 266
F+ VD +V +L
Sbjct: 173 FIHVDDVVRAILH 185
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 61.1 bits (149), Expect = 2e-10
Identities = 56/237 (23%), Positives = 93/237 (39%), Gaps = 69/237 (29%)
Query: 3 LLEKILRTCENVKIYILLRPKKNKNSRERLEEIFQSPLYEALKKEQSESAIFEKVIPING 62
L+ ++L +++L+R + S RLE AL ++V+P+ G
Sbjct: 16 LVSRLLDRRREATVHVLVRRQ----SLSRLE---------ALAAYWGA----DRVVPLVG 58
Query: 63 DVAVPDLGISAEDRQMLSETIHIVYHIAA----TVRFDDYMQTYVFLNTRGTRDMLNLSK 118
D+ P LG+S D L + H V H+AA T + N GTR+++ L++
Sbjct: 59 DLTEPGLGLSEADIAELGDIDH-VVHLAAIYDLTADEEAQRAA----NVDGTRNVVELAE 113
Query: 119 QMIHLQLFVYVST---AYCHP---KEKVLEEKTYPPPVSPHNVIEKAELLSKNELELLKQ 172
+ + F +VS+ A + +E +E
Sbjct: 114 R-LQAATFHHVSSIAVAGDYEGVFREDDFDEG---------------------------- 144
Query: 173 ELLQDFPNGYAYTKCLCEGVVTEYMEAGMPCMILRPSIIIPIWKDPLPGWTDNINGP 229
Q P Y TK E +V E E G+P + RP++++ D G D I+GP
Sbjct: 145 ---QGLPTPYHRTKFEAEKLVRE--ECGLPWRVYRPAVVV---GDSRTGEMDKIDGP 193
>gnl|CDD|223528 COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell
envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 314
Score = 56.1 bits (135), Expect = 5e-09
Identities = 54/264 (20%), Positives = 96/264 (36%), Gaps = 60/264 (22%)
Query: 60 INGDVAVPDLGISAEDRQMLSETIHIVYHIAATVRFDDYM----QTYVFLNTRGTRDMLN 115
+ D+ DL ++ V H+AA D ++ +N GT ++L
Sbjct: 47 VVLDLTDRDL-----VDELAKGVPDAVIHLAAQSSVPDSNASDPAEFLDVNVDGTLNLLE 101
Query: 116 LSKQMIHLQLFVYVSTAYC----HPKEKVLEEKTYPPPVSPHNVIEKAELLSKNELELLK 171
++ ++ FV+ S+ P + E+ P P++P
Sbjct: 102 AARAA-GVKRFVFASSVSVVYGDPPPLPIDEDLGPPRPLNP------------------- 141
Query: 172 QELLQDFPNGYAYTKCLCEGVVTEYMEA-GMPCMILRPSIIIPIWKDPLPGWTDNING-- 228
Y +K E ++ Y G+P +ILRP + PG +++
Sbjct: 142 ----------YGVSKLAAEQLLRAYARLYGLPVVILRPFNVYG------PGDKPDLSSGV 185
Query: 229 PTGLLIGAGKGI-IRTMYCDYSTCADFLPVDVLVNGVLLSTWNFLSNPGNTMRVINLTAN 287
+ + KG I + D S DF+ VD + + +LL L NP V N+ +
Sbjct: 186 VSAFIRQLLKGEPIIVIGGDGSQTRDFVYVDDVADALLL----ALENPDG--GVFNIGSG 239
Query: 288 KDFQITWYDIIENGKDIARNKVPL 311
IT ++ E + +K PL
Sbjct: 240 TAE-ITVRELAEAVAEAVGSKAPL 262
>gnl|CDD|187539 cd05228, AR_FR_like_1_SDR_e, uncharacterized subgroup of aldehyde
reductase and flavonoid reductase related proteins,
extended (e) SDRs. This subgroup contains proteins of
unknown function related to aldehyde reductase and
flavonoid reductase of the extended SDR-type. Aldehyde
reductase I (aka carbonyl reductase) is an NADP-binding
SDR; it has an NADP-binding motif consensus that is
slightly different from the canonical SDR form and lacks
the Asn of the extended SDR active site tetrad. Aldehyde
reductase I catalyzes the NADP-dependent reduction of
ethyl 4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. The related flavonoid
reductases act in the NADP-dependent reduction of
flavonoids, ketone-containing plant secondary
metabolites. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 318
Score = 38.4 bits (90), Expect = 0.003
Identities = 30/137 (21%), Positives = 50/137 (36%), Gaps = 42/137 (30%)
Query: 85 IVYHIAATVRF-----DDYMQTYVFLNTRGTRDMLN--LSKQMIHLQLFVYVST--AYCH 135
V+H+AA + +T N GTR++L+ L ++ V+ S+ A
Sbjct: 65 RVFHLAAFTSLWAKDRKELYRT----NVEGTRNVLDAALEAG---VRRVVHTSSIAALGG 117
Query: 136 PKEKVLEEKTYPPPVSPHNVIEKAELLSKNELELLKQELLQDFPNGYAYTKCLCEGVVTE 195
P + ++E T + FPN Y +K L E V E
Sbjct: 118 PPDGRIDETTPWNE--------------------------RPFPNDYYRSKLLAELEVLE 151
Query: 196 YMEAGMPCMILRPSIII 212
G+ +I+ PS +
Sbjct: 152 AAAEGLDVVIVNPSAVF 168
>gnl|CDD|234212 TIGR03443, alpha_am_amid, L-aminoadipate-semialdehyde dehydrogenase.
Members of this protein family are
L-aminoadipate-semialdehyde dehydrogenase (EC 1.2.1.31),
product of the LYS2 gene. It is also called
alpha-aminoadipate reductase. In fungi, lysine is
synthesized via aminoadipate. Currently, all members of
this family are fungal.
Length = 1389
Score = 38.9 bits (91), Expect = 0.003
Identities = 47/213 (22%), Positives = 88/213 (41%), Gaps = 34/213 (15%)
Query: 3 LLEKILRTCENVKIYILLRPKKNKNSRERLEEIFQSPLYEALKKEQSESAIFEKVIPING 62
LL + R+ N K++ +R K + ERL + + Y +E + ++ + G
Sbjct: 991 LLTR--RSNSNFKVFAHVRAKSEEAGLERLRKTGTT--YGIWDEEWAS-----RIEVVLG 1041
Query: 63 DVAVPDLGISAEDRQMLSETIHIVYHIAATVRFDDYMQTYVFL---NTRGTRDMLNLSKQ 119
D++ G+S E L+ + ++ H A V ++ Y L N GT ++LNL +
Sbjct: 1042 DLSKEKFGLSDEKWSDLTNEVDVIIHNGALVH---WVYPYSKLRDANVIGTINVLNLCAE 1098
Query: 120 MIHLQLFVYVSTAYCHPKEKVLEEKTYPPPVSPHNVIEKAELLSKNELELLKQELLQ--- 176
+ F +VS+ L+ + Y V EL+ + + + L
Sbjct: 1099 G-KAKQFSFVSST------SALDTEYY--------VNLSDELVQAGGAGIPESDDLMGSS 1143
Query: 177 -DFPNGYAYTKCLCEGVVTEYMEAGMPCMILRP 208
GY +K + E ++ E + G+ I+RP
Sbjct: 1144 KGLGTGYGQSKWVAEYIIREAGKRGLRGCIVRP 1176
>gnl|CDD|187566 cd05256, UDP_AE_SDR_e, UDP-N-acetylglucosamine 4-epimerase,
extended (e) SDRs. This subgroup contains
UDP-N-acetylglucosamine 4-epimerase of Pseudomonas
aeruginosa, WbpP, an extended SDR, that catalyzes the
NAD+ dependent conversion of UDP-GlcNAc and UDPGalNA to
UDP-Glc and UDP-Gal. This subgroup has the
characteristic active site tetrad and NAD-binding motif
of the extended SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 304
Score = 32.6 bits (75), Expect = 0.23
Identities = 25/101 (24%), Positives = 44/101 (43%), Gaps = 12/101 (11%)
Query: 60 INGDVAVPDLGISAEDRQMLSETIHIVYHIAA---TVRFDDYMQTYVFLNTRGTRDMLNL 116
I GD+ E + E + V+H AA R + +N GT ++L
Sbjct: 50 IEGDIR------DDELVEFAFEGVDYVFHQAAQASVPRSIEDPIKDHEVNVLGTLNLLEA 103
Query: 117 SKQMIHLQLFVYVSTAYCHPKEKVL--EEKTYPPPVSPHNV 155
+++ ++ FVY S++ + L +E P P+SP+ V
Sbjct: 104 ARKA-GVKRFVYASSSSVYGDPPYLPKDEDHPPNPLSPYAV 143
>gnl|CDD|187552 cd05241, 3b-HSD-like_SDR_e, 3beta-hydroxysteroid dehydrogenases
(3b-HSD)-like, extended (e) SDRs. Extended SDR family
domains belonging to this subgroup have the
characteristic active site tetrad and a fairly
well-conserved NAD(P)-binding motif. 3b-HSD catalyzes
the NAD-dependent conversion of various steroids, such
as pregnenolone to progesterone, or androstenediol to
testosterone. This subgroup includes an unusual
bifunctional 3b-HSD/C-4 decarboxylase from Arabidopsis
thaliana, and Saccharomyces cerevisiae ERG26, a
3b-HSD/C-4 decarboxylase, involved in the synthesis of
ergosterol, the major sterol of yeast. It also includes
human 3 beta-HSD/HSD3B1 and C(27) 3beta-HSD/
[3beta-hydroxy-delta(5)-C(27)-steroid oxidoreductase;
HSD3B7]. C(27) 3beta-HSD/HSD3B7 is a membrane-bound
enzyme of the endoplasmic reticulum, that catalyzes the
isomerization and oxidation of 7alpha-hydroxylated
sterol intermediates, an early step in bile acid
biosynthesis. Mutations in the human NSDHL (NAD(P)H
steroid dehydrogenase-like protein) cause CHILD syndrome
(congenital hemidysplasia with ichthyosiform nevus and
limb defects), an X-linked dominant, male-lethal trait.
Mutations in the human gene encoding C(27) 3beta-HSD
underlie a rare autosomal recessive form of neonatal
cholestasis. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid sythase have
a GGXGXXG NAD(P)-binding motif and an altered active
site motif (YXXXN). Fungal type ketoacyl reductases have
a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 331
Score = 31.2 bits (71), Expect = 0.62
Identities = 32/130 (24%), Positives = 50/130 (38%), Gaps = 26/130 (20%)
Query: 83 IHIVYHIAATVRFDDYMQTYVFLNTRGTRDMLNLSKQMIHLQLFVYVSTAYCHPKEKVLE 142
V+H AA V Y +N GT+++L+ ++ +Q FVY S++
Sbjct: 67 ADCVFHTAAIVPLAGPRDLYWEVNVGGTQNVLDACQRC-GVQKFVYTSSS---------- 115
Query: 143 EKTYPPPVSPHNVIEKAELLSKNELELLKQELLQDFPNGYAYTKCLCEGVVTEYM-EAGM 201
+VI + + N E L L YA TK + E +V E +
Sbjct: 116 -----------SVIFGGQNI-HNGDETLPYPPLDSDM--YAETKAIAEIIVLEANGRDDL 161
Query: 202 PCMILRPSII 211
LRP+ I
Sbjct: 162 LTCALRPAGI 171
>gnl|CDD|187575 cd05265, SDR_a1, atypical (a) SDRs, subgroup 1. Atypical SDRs in
this subgroup are poorly defined and have been
identified putatively as isoflavones reductase, sugar
dehydratase, mRNA binding protein etc. Atypical SDRs are
distinct from classical SDRs. Members of this subgroup
retain the canonical active site triad (though not the
upstream Asn found in most SDRs) but have an unusual
putative glycine-rich NAD(P)-binding motif, GGXXXXG, in
the usual location. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 250
Score = 30.3 bits (69), Expect = 1.2
Identities = 11/30 (36%), Positives = 13/30 (43%), Gaps = 2/30 (6%)
Query: 182 YAYTKCLCEGVVTEYMEAGMPCMILRPSII 211
Y K E V+ E A P I+RP I
Sbjct: 129 YGRGKRAAEDVLIEA--AAFPYTIVRPPYI 156
>gnl|CDD|206649 cd01850, CDC_Septin, CDC/Septin GTPase family. Septins are a
conserved family of GTP-binding proteins associated with
diverse processes in dividing and non-dividing cells.
They were first discovered in the budding yeast S.
cerevisiae as a set of genes (CDC3, CDC10, CDC11 and
CDC12) required for normal bud morphology. Septins are
also present in metazoan cells, where they are required
for cytokinesis in some systems, and implicated in a
variety of other processes involving organization of the
cell cortex and exocytosis. In humans, 12 septin genes
generate dozens of polypeptides, many of which comprise
heterooligomeric complexes. Since septin mutants are
commonly defective in cytokinesis and formation of the
neck formation of the neck filaments/septin rings,
septins have been considered to be the primary
constituents of the neck filaments. Septins belong to
the GTPase superfamily for their conserved GTPase motifs
and enzymatic activities.
Length = 275
Score = 30.2 bits (69), Expect = 1.4
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 155 VIEKAELLSKNELELLKQELLQDF 178
VI KA+ L+ EL K+ +++D
Sbjct: 148 VIAKADTLTPEELTEFKKRIMEDI 171
>gnl|CDD|165102 PHA02735, PHA02735, putative DNA polymerase type B; Provisional.
Length = 716
Score = 28.5 bits (63), Expect = 4.9
Identities = 15/56 (26%), Positives = 26/56 (46%), Gaps = 5/56 (8%)
Query: 66 VPDLGISAEDRQMLSETIHIVYHIAATVRFDDYMQTYVFLNTRGTRDMLNLSKQMI 121
VPD + + R+ L + + + A RF+ + +Y+ TR L L KQ+
Sbjct: 481 VPDFSLPKKIREALGDDEIFIEELEAGARFNPFFASYITGLTR-----LELHKQIC 531
>gnl|CDD|222801 PHA00476, PHA00476, hypothetical protein.
Length = 110
Score = 26.7 bits (59), Expect = 7.7
Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 238 KGIIRTMYCDYSTCADFLPVDVLVNGVLLSTWNFLSNPGNTMRVINLTANKDFQIT 293
KGI T+ S+ F V +LV VLL TW+ P R+ L A K+ +I
Sbjct: 33 KGICLTL----SSFV-FSSVALLVILVLLGTWSTTRKPDGLNRLATL-AEKEKEIL 82
>gnl|CDD|187536 cd05193, AR_like_SDR_e, aldehyde reductase, flavonoid reductase,
and related proteins, extended (e) SDRs. This subgroup
contains aldehyde reductase and flavonoid reductase of
the extended SDR-type and related proteins. Proteins in
this subgroup have a complete SDR-type active site
tetrad and a close match to the canonical extended SDR
NADP-binding motif. Aldehyde reductase I (aka carbonyl
reductase) is an NADP-binding SDR; it catalyzes the
NADP-dependent reduction of ethyl
4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. The related flavonoid
reductases act in the NADP-dependent reduction of
flavonoids, ketone-containing plant secondary
metabolites. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 295
Score = 27.6 bits (61), Expect = 8.5
Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 1/50 (2%)
Query: 86 VYHIAATVRFDDYMQTYVFL-NTRGTRDMLNLSKQMIHLQLFVYVSTAYC 134
V+H+A V F V GT + L + ++ FV S+A
Sbjct: 74 VFHVATPVSFSSKDPNEVIKPAIGGTLNALKAAAAAKSVKRFVLTSSAGS 123
>gnl|CDD|132408 TIGR03365, Bsubt_queE, 7-cyano-7-deazaguanosine (preQ0)
biosynthesis protein QueE. This uncharacterized enzyme,
designated QueE, participates in the biosynthesis, from
GTP, of 7-cyano-7-deazaguanosine, also called preQ0
because in many species it is a precursor of queuosine.
In most Archaea, it is instead the precursor of a
different tRNA modified base, archaeosine [Protein
synthesis, tRNA and rRNA base modification].
Length = 238
Score = 27.3 bits (61), Expect = 8.8
Identities = 13/31 (41%), Positives = 17/31 (54%), Gaps = 5/31 (16%)
Query: 226 INGPT----GLLIGAGKGIIRTMYCDYSTCA 252
I GPT G++IG +RT CDY C+
Sbjct: 8 IFGPTIQGEGMVIGQKTMFVRTGGCDYR-CS 37
>gnl|CDD|187567 cd05257, Arna_like_SDR_e, Arna decarboxylase_like, extended (e)
SDRs. Decarboxylase domain of ArnA. ArnA, is an enzyme
involved in the modification of outer membrane protein
lipid A of gram-negative bacteria. It is a bifunctional
enzyme that catalyzes the NAD-dependent decarboxylation
of UDP-glucuronic acid and
N-10-formyltetrahydrofolate-dependent formylation of
UDP-4-amino-4-deoxy-l-arabinose; its NAD-dependent
decaboxylating activity is in the C-terminal 360
residues. This subgroup belongs to the extended SDR
family, however the NAD binding motif is not a perfect
match and the upstream Asn of the canonical active site
tetrad is not conserved. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 316
Score = 27.6 bits (62), Expect = 9.8
Identities = 18/85 (21%), Positives = 37/85 (43%), Gaps = 10/85 (11%)
Query: 50 ESAIFEKVIPINGDVAVPDLGISAEDRQMLSETIHIVYHIAATVRFDDYMQ---TYVFLN 106
++A+ ++ I+GDV + +V+H+AA + +YV N
Sbjct: 42 DNAVHDRFHFISGDVRDASEVEYL------VKKCDVVFHLAALIAIPYSYTAPLSYVETN 95
Query: 107 TRGTRDMLNLSKQMIHLQLFVYVST 131
GT ++L + + + + V+ ST
Sbjct: 96 VFGTLNVLEAACVL-YRKRVVHTST 119
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
0.320 0.138 0.418
Gapped
Lambda K H
0.267 0.0778 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,613,857
Number of extensions: 1623275
Number of successful extensions: 1454
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1423
Number of HSP's successfully gapped: 30
Length of query: 318
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 221
Effective length of database: 6,635,264
Effective search space: 1466393344
Effective search space used: 1466393344
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 (26.4 bits)