RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14072
(205 letters)
>gnl|CDD|238073 cd00127, DSPc, Dual specificity phosphatases (DSP); Ser/Thr and Tyr
protein phosphatases. Structurally similar to
tyrosine-specific phosphatases but with a shallower
active site cleft and a distinctive active site
signature motif, HCxxGxxR. Characterized as VHR- or
Cdc25-like.
Length = 139
Score = 146 bits (371), Expect = 2e-45
Identities = 47/139 (33%), Positives = 78/139 (56%), Gaps = 5/139 (3%)
Query: 36 EVTEVCPGLLLCGATMVGR----TNHPVTCIVNAAPELP-DPPLADTIKTVKIHILDSAT 90
++E+ PGL L +T ++N A E+P + + + ILD +
Sbjct: 1 PLSEITPGLYLGSYPAASDKELLKKLGITHVLNVAKEVPNENLFLSDFNYLYVPILDLPS 60
Query: 91 EPLDSYFDQVADLVQKIKDEGGCTLIHCVAGVSRSASLCLAYLIKYNQMNFHQAFHYLRS 150
+ + YFD+ D + +++GG L+HC+AGVSRSA+L +AYL+K ++ +A+ +++S
Sbjct: 61 QDISKYFDEAVDFIDDAREKGGKVLVHCLAGVSRSATLVIAYLMKTLGLSLREAYEFVKS 120
Query: 151 LRPCIRPNLGFFKQLINYE 169
RP I PN GF +QL YE
Sbjct: 121 RRPIISPNAGFMRQLKEYE 139
>gnl|CDD|214551 smart00195, DSPc, Dual specificity phosphatase, catalytic domain.
Length = 138
Score = 119 bits (301), Expect = 8e-35
Identities = 44/139 (31%), Positives = 76/139 (54%), Gaps = 5/139 (3%)
Query: 37 VTEVCPGLLLCGATMVGR----TNHPVTCIVNAAPELPDPPLADTIKTVKIHILDSATEP 92
+E+ P L L + +T ++N E+P+ +D + + I D+
Sbjct: 1 PSEILPHLYLGSYSDALNLALLKKLGITHVINVTNEVPNYNGSD-FTYLGVPIDDNTETK 59
Query: 93 LDSYFDQVADLVQKIKDEGGCTLIHCVAGVSRSASLCLAYLIKYNQMNFHQAFHYLRSLR 152
+ YF + + ++ + +GG L+HC AGVSRSA+L +AYL+K M+ + A+ +++ R
Sbjct: 60 ISPYFPEAVEFIEDAESKGGKVLVHCQAGVSRSATLIIAYLMKTRNMSLNDAYDFVKDRR 119
Query: 153 PCIRPNLGFFKQLINYEKR 171
P I PN GF +QLI YE++
Sbjct: 120 PIISPNFGFLRQLIEYERK 138
>gnl|CDD|216117 pfam00782, DSPc, Dual specificity phosphatase, catalytic domain.
Ser/Thr and Tyr protein phosphatases. The enzyme's
tertiary fold is highly similar to that of
tyrosine-specific phosphatases, except for a
"recognition" region.
Length = 131
Score = 111 bits (279), Expect = 2e-31
Identities = 37/117 (31%), Positives = 67/117 (57%)
Query: 55 TNHPVTCIVNAAPELPDPPLADTIKTVKIHILDSATEPLDSYFDQVADLVQKIKDEGGCT 114
+T ++N E+P+ L I + I + D+ + Y + + + +GG
Sbjct: 15 EKLGITHVINVTREVPNSNLNSGILYLGIPVEDNHETNISKYLPEAVEFIDDAIQKGGKV 74
Query: 115 LIHCVAGVSRSASLCLAYLIKYNQMNFHQAFHYLRSLRPCIRPNLGFFKQLINYEKR 171
L+HC AG+SRSA+L +AYL+K ++ ++A+ +++ RP I PN GF +QL+ YE++
Sbjct: 75 LVHCQAGISRSATLIIAYLMKTRNLSLNEAYSFVKERRPIISPNFGFKRQLLEYERK 131
>gnl|CDD|225297 COG2453, CDC14, Predicted protein-tyrosine phosphatase [Signal
transduction mechanisms].
Length = 180
Score = 51.3 bits (123), Expect = 2e-08
Identities = 19/102 (18%), Positives = 41/102 (40%), Gaps = 9/102 (8%)
Query: 52 VGRTNHPVTCIVNAAPELPDPPLADTIKTVKIHILDSATEPLDSYFDQVADLVQKIKDEG 111
+ + + I+ + + ILD T P D++ D +++ +G
Sbjct: 55 ELELLGALYNVAIEENDG--------IQVLHLPILDG-TVPDLEDLDKIVDFIEEALSKG 105
Query: 112 GCTLIHCVAGVSRSASLCLAYLIKYNQMNFHQAFHYLRSLRP 153
++HC G+ RS ++ AYL+ Y ++ ++ R
Sbjct: 106 KKVVVHCQGGIGRSGTVIAAYLMLYGGLSLADEAIAVKRRRR 147
>gnl|CDD|214649 smart00404, PTPc_motif, Protein tyrosine phosphatase, catalytic
domain motif.
Length = 105
Score = 45.4 bits (108), Expect = 8e-07
Identities = 13/65 (20%), Positives = 25/65 (38%), Gaps = 7/65 (10%)
Query: 95 SYFDQVADLVQKIKDEGGCTLIHCVAGVSRSASLCLAYLIKYN------QMNFHQAFHYL 148
V + + + G ++HC AGV R+ + ++ +++ L
Sbjct: 24 ELLRAVKKNLNQSESSGP-VVVHCSAGVGRTGTFVAIDILLQQLEAEAGEVDIFDTVKEL 82
Query: 149 RSLRP 153
RS RP
Sbjct: 83 RSQRP 87
>gnl|CDD|214469 smart00012, PTPc_DSPc, Protein tyrosine phosphatase, catalytic
domain, undefined specificity. Protein tyrosine
phosphatases. Homologues detected by this profile and
not by those of "PTPc" or "DSPc" are predicted to be
protein phosphatases with a similar fold to DSPs and
PTPs, yet with unpredicted specificities.
Length = 105
Score = 45.4 bits (108), Expect = 8e-07
Identities = 13/65 (20%), Positives = 25/65 (38%), Gaps = 7/65 (10%)
Query: 95 SYFDQVADLVQKIKDEGGCTLIHCVAGVSRSASLCLAYLIKYN------QMNFHQAFHYL 148
V + + + G ++HC AGV R+ + ++ +++ L
Sbjct: 24 ELLRAVKKNLNQSESSGP-VVVHCSAGVGRTGTFVAIDILLQQLEAEAGEVDIFDTVKEL 82
Query: 149 RSLRP 153
RS RP
Sbjct: 83 RSQRP 87
>gnl|CDD|227653 COG5350, COG5350, Predicted protein tyrosine phosphatase [General
function prediction only].
Length = 172
Score = 46.7 bits (111), Expect = 1e-06
Identities = 30/127 (23%), Positives = 47/127 (37%), Gaps = 11/127 (8%)
Query: 40 VCPGLLLCGATMVGRTNHP-VTCIVNAAPELPDPPLADTIKTVKIHILDSATE------P 92
V P L A R + ++ P + + + +H D A P
Sbjct: 18 VSP--LSVIAETAARHGPTHMLSLLAKGTYFHRPAVIAAERHLTLHFNDIAEPDDGWIAP 75
Query: 93 LDSYFDQVADLVQKIKDEGGCTLIHCVAGVSRSASLCL-AYLIKYNQMNFHQAFHYLRSL 151
+++ + D + LIHC AG+SRS + L A L M+ + LR+L
Sbjct: 76 GEAHVRAIIDFADEW-PRFAPLLIHCYAGISRSTAAALIAALALAPDMDETELAERLRAL 134
Query: 152 RPCIRPN 158
P PN
Sbjct: 135 SPYATPN 141
>gnl|CDD|185524 PTZ00242, PTZ00242, protein tyrosine phosphatase; Provisional.
Length = 166
Score = 40.4 bits (95), Expect = 2e-04
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 8/79 (10%)
Query: 81 VKIHIL---DSATEP---LDSYFDQVADLVQKIKDEGGCTLIHCVAGVSRSASL-CLAYL 133
+++H D A P +D++ + K +HCVAG+ R+ L LA L
Sbjct: 62 IEVHDWPFDDGAPPPKAVIDNWLRLLDQEFAKQSTPPETIAVHCVAGLGRAPILVALA-L 120
Query: 134 IKYNQMNFHQAFHYLRSLR 152
++Y M A ++R R
Sbjct: 121 VEYGGMEPLDAVGFVREKR 139
>gnl|CDD|215717 pfam00102, Y_phosphatase, Protein-tyrosine phosphatase.
Length = 233
Score = 40.4 bits (95), Expect = 3e-04
Identities = 17/69 (24%), Positives = 29/69 (42%), Gaps = 10/69 (14%)
Query: 95 SYFDQVADLVQKIK-----DEGGCTLIHCVAGVSRSASLCLAY-----LIKYNQMNFHQA 144
+ DL++K++ G ++HC AGV R+ + L +++ Q
Sbjct: 147 ESPKSLLDLIRKVRKSQADPRSGPIVVHCSAGVGRTGTFIAIDILLQQLEAEGEVDVFQI 206
Query: 145 FHYLRSLRP 153
LRS RP
Sbjct: 207 VKELRSQRP 215
>gnl|CDD|214550 smart00194, PTPc, Protein tyrosine phosphatase, catalytic domain.
Length = 259
Score = 36.9 bits (86), Expect = 0.004
Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 5/66 (7%)
Query: 94 DSYFDQVADLVQKIKDEGGCTLIHCVAGVSRSASLCLAY-----LIKYNQMNFHQAFHYL 148
+S D + + + G ++HC AGV R+ + L +++ + L
Sbjct: 177 ESILDLIRAVRKSQSTSTGPIVVHCSAGVGRTGTFIAIDILLQQLEAGKEVDIFEIVKEL 236
Query: 149 RSLRPC 154
RS RP
Sbjct: 237 RSQRPG 242
>gnl|CDD|183473 PRK12361, PRK12361, hypothetical protein; Provisional.
Length = 547
Score = 35.8 bits (83), Expect = 0.012
Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 4/59 (6%)
Query: 115 LIHCVAGVSRSASLCLAYLI-KYNQMNFHQAFHYLRSLRPCIRPNLGFFKQLINYEKRF 172
++HC G RS + AYL+ K + + ++ +R R N +QL EK
Sbjct: 179 VVHCALGRGRSVLVLAAYLLCKDPDLTVEEVLQQIKQIRKTARLN---KRQLRALEKML 234
>gnl|CDD|238006 cd00047, PTPc, Protein tyrosine phosphatases (PTP) catalyze the
dephosphorylation of phosphotyrosine peptides; they
regulate phosphotyrosine levels in signal transduction
pathways. The depth of the active site cleft renders the
enzyme specific for phosphorylated Tyr (pTyr) residues,
instead of pSer or pThr. This family has a distinctive
active site signature motif, HCSAGxGRxG. Characterized
as either transmembrane, receptor-like or
non-transmembrane (soluble) PTPs. Receptor-like PTP
domains tend to occur in two copies in the cytoplasmic
region of the transmembrane proteins, only one copy may
be active.
Length = 231
Score = 34.9 bits (81), Expect = 0.015
Identities = 12/46 (26%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 114 TLIHCVAGVSRSASLCLAYLI-----KYNQMNFHQAFHYLRSLRPC 154
++HC AGV R+ + ++ ++ Q LRS RP
Sbjct: 169 IVVHCSAGVGRTGTFIAIDILLQRLEAEGVVDIFQTVKELRSQRPG 214
>gnl|CDD|237108 PRK12467, PRK12467, peptide synthase; Provisional.
Length = 3956
Score = 30.5 bits (69), Expect = 0.75
Identities = 9/33 (27%), Positives = 14/33 (42%)
Query: 60 TCIVNAAPELPDPPLADTIKTVKIHILDSATEP 92
C +A E P P+ + I++LD P
Sbjct: 3397 KCGGDAVCEAPYAPIGRPVAGRSIYVLDGQLNP 3429
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 29.1 bits (66), Expect = 0.94
Identities = 7/26 (26%), Positives = 12/26 (46%)
Query: 52 VGRTNHPVTCIVNAAPELPDPPLADT 77
+ P+ +V+ A L D PL +
Sbjct: 74 LPAALGPLDGVVHNAGVLDDGPLEEL 99
>gnl|CDD|222063 pfam13350, Y_phosphatase3, Tyrosine phosphatase family. This
family is closely related to the pfam00102 and pfam00782
families.
Length = 163
Score = 29.0 bits (66), Expect = 1.1
Identities = 8/24 (33%), Positives = 11/24 (45%)
Query: 98 DQVADLVQKIKDEGGCTLIHCVAG 121
L++ + D G L HC AG
Sbjct: 110 AAYRALLELLADPDGPVLFHCTAG 133
>gnl|CDD|184195 PRK13635, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 279
Score = 29.2 bits (66), Expect = 1.2
Identities = 13/36 (36%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 82 KIHILDSATEPLDSYFDQ-VADLVQKIKDEGGCTLI 116
I ILD AT LD + V + V+++K++ G T++
Sbjct: 160 DIIILDEATSMLDPRGRREVLETVRQLKEQKGITVL 195
>gnl|CDD|224049 COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport
system, ATPase component [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 252
Score = 28.8 bits (65), Expect = 1.6
Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 82 KIHILDSATEPLDSYF-DQVADLVQKIKDEGGCTLI 116
K+ ILD T LD Q+ +L+ ++K E G T +
Sbjct: 161 KLLILDEPTSALDVSVQAQILNLLLELKKERGLTYL 196
>gnl|CDD|213224 cd03257, ABC_NikE_OppD_transporters, ATP-binding cassette domain of
nickel/oligopeptides specific transporters. The ABC
transporter subfamily specific for the transport of
dipeptides, oligopeptides (OppD), and nickel (NikDE).
The NikABCDE system of E. coli belongs to this family
and is composed of the periplasmic binding protein NikA,
two integral membrane components (NikB and NikC), and
two ATPase (NikD and NikE). The NikABCDE transporter is
synthesized under anaerobic conditions to meet the
increased demand for nickel resulting from hydrogenase
synthesis. The molecular mechanism of nickel uptake in
many bacteria and most archaea is not known. Many other
members of this ABC family are also involved in the
uptake of dipeptides and oligopeptides. The oligopeptide
transport system (Opp) is a five-component ABC transport
composed of a membrane-anchored substrate binding
proteins (SRP), OppA, two transmembrane proteins, OppB
and OppC, and two ATP-binding domains, OppD and OppF.
Length = 228
Score = 28.2 bits (64), Expect = 2.5
Identities = 15/36 (41%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 82 KIHILDSATEPLD-SYFDQVADLVQKIKDEGGCTLI 116
K+ I D T LD S Q+ DL++K+++E G TL+
Sbjct: 165 KLLIADEPTSALDVSVQAQILDLLKKLQEELGLTLL 200
>gnl|CDD|240399 PTZ00393, PTZ00393, protein tyrosine phosphatase; Provisional.
Length = 241
Score = 28.0 bits (62), Expect = 2.8
Identities = 15/61 (24%), Positives = 25/61 (40%), Gaps = 1/61 (1%)
Query: 92 PLDSYFDQVADLVQKIKDEGGCTLIHCVAGVSRSASLCLAYLIKYNQMNFHQAFHYLRSL 151
P +V + +HCVAG+ R+ L LI++ M+ A ++R
Sbjct: 151 PTVDIVSNWLTIVNNVIKNNRAVAVHCVAGLGRAPVLASIVLIEFG-MDPIDAIVFIRDR 209
Query: 152 R 152
R
Sbjct: 210 R 210
>gnl|CDD|187655 cd08952, KR_1_SDR_x, ketoreductase (KR), subgroup 1, complex (x)
SDRs. Ketoreductase, a module of the multidomain
polyketide synthase (PKS), has 2 subdomains, each
corresponding to a SDR family monomer. The C-terminal
subdomain catalyzes the NADPH-dependent reduction of the
beta-carbonyl of a polyketide to a hydroxyl group, a
step in the biosynthesis of polyketides, such as
erythromycin. The N-terminal subdomain, an interdomain
linker, is a truncated Rossmann fold which acts to
stabilizes the catalytic subdomain. Unlike typical SDRs,
the isolated domain does not oligomerize but is composed
of 2 subdomains, each resembling an SDR monomer. The
active site resembles that of typical SDRs, except that
the usual positions of the catalytic Asn and Tyr are
swapped, so that the canonical YXXXK motif changes to
YXXXN. Modular PKSs are multifunctional structures in
which the makeup recapitulates that found in (and may
have evolved from) FAS. Polyketide synthesis also
proceeds via the addition of 2-carbon units as in fatty
acid synthesis. The complex SDR NADP-binding motif,
GGXGXXG, is often present, but is not strictly conserved
in each instance of the module. This subfamily includes
KR domains found in many multidomain PKSs, including six
of seven Sorangium cellulosum PKSs (encoded by
spiDEFGHIJ) which participate in the synthesis of the
polyketide scaffold of the cytotoxic spiroketal
polyketide spirangien. These seven PKSs have either a
single PKS module (SpiF), two PKR modules
(SpiD,-E,-I,-J), or three PKS modules (SpiG,-H). This
subfamily includes the single KR domain of SpiF, the
first KR domains of SpiE,-G,H,-I,and #J, the third KR
domain of SpiG, and the second KR domain of SpiH. The
second KR domains of SpiE,-G, I, and #J, and the KR
domains of SpiD, belong to a different KR_FAS_SDR
subfamily. 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
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
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 KRs 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 = 480
Score = 28.3 bits (64), Expect = 3.2
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 57 HPVTCIVNAAPELPDPPLADT 77
HP+T +V+AA L D PL D
Sbjct: 309 HPLTAVVHAAGVLDDGPLDDL 329
>gnl|CDD|219018 pfam06419, COG6, Conserved oligomeric complex COG6. COG6 is a
component of the conserved oligomeric golgi complex,
which is composed of eight different subunits and is
required for normal golgi morphology and localisation.
Length = 615
Score = 28.4 bits (64), Expect = 3.3
Identities = 24/116 (20%), Positives = 42/116 (36%), Gaps = 37/116 (31%)
Query: 85 ILDSATEPLDSYFDQVADLVQKIKDEGGCT-LIHC---------VAGVSRSASLCLAYLI 134
+L S EP+D F QV D V+KI ++ C L+ + ++R+ L
Sbjct: 115 VLTSGEEPIDDEFFQVLDKVKKIHED--CEILLGGENQRAGLEIMEKMNRNLEAANEKLY 172
Query: 135 KYNQ--------------MNFHQAFHYLRSLRPCIRPNLGFFKQLINYEKRFYAES 176
++ Q +A L RP L F+ ++ + E+
Sbjct: 173 RWTQREFRNLNLESPQILSTLRKALRVLAE-----RPVL--FQSCLD----EFTEA 217
>gnl|CDD|215730 pfam00118, Cpn60_TCP1, TCP-1/cpn60 chaperonin family. This family
includes members from the HSP60 chaperone family and the
TCP-1 (T-complex protein) family.
Length = 481
Score = 28.0 bits (63), Expect = 4.3
Identities = 13/55 (23%), Positives = 23/55 (41%), Gaps = 4/55 (7%)
Query: 85 ILDSATEPLDSYFDQVADLVQKIKDEGGCTLIHCVAGVSRSASLCLAYLIKYNQM 139
+ L++ Q+ L++KI D G L+ G+ L L +L K +
Sbjct: 217 TAEELERLLEAEEKQLLPLLEKIVDA-GVNLVIIQKGID---DLALHFLAKNGIL 267
>gnl|CDD|222927 PHA02774, PHA02774, E1; Provisional.
Length = 613
Score = 27.5 bits (62), Expect = 4.9
Identities = 13/27 (48%), Positives = 14/27 (51%), Gaps = 4/27 (14%)
Query: 73 PLADTIKTVKIHILDSATEPLDSYFDQ 99
PLAD KI +LD AT P Y D
Sbjct: 476 PLADA----KIALLDDATHPCWDYIDT 498
>gnl|CDD|224171 COG1251, NirB, NAD(P)H-nitrite reductase [Energy production and
conversion].
Length = 793
Score = 27.7 bits (62), Expect = 5.1
Identities = 14/42 (33%), Positives = 17/42 (40%), Gaps = 11/42 (26%)
Query: 155 IRPNLGFFKQLINYEKRFYAESSVE--IVYNAAAQTYIPSVY 194
IRPN K+ A +V IV N QT P +Y
Sbjct: 241 IRPNDELAKE---------AGLAVNRGIVVNDYMQTSDPDIY 273
>gnl|CDD|240339 PTZ00265, PTZ00265, multidrug resistance protein (mdr1); Provisional.
Length = 1466
Score = 27.7 bits (61), Expect = 5.8
Identities = 18/48 (37%), Positives = 27/48 (56%), Gaps = 4/48 (8%)
Query: 82 KIHILDSATEPLDSYFDQ-VADLVQKIKDEGGCTLI---HCVAGVSRS 125
KI +LD AT LDS ++ + + IKD+ T+I H +A + RS
Sbjct: 1378 KILLLDEATSSLDSNSEKLIEKTIVDIKDKADKTIITIAHRIASIKRS 1425
>gnl|CDD|200557 cd10931, CE4_u7, Putative catalytic domain of uncharacterized
bacterial proteins from the carbohydrate esterase 4
superfamily. This family corresponds to a group of
uncharacterized bacterial proteins with high sequence
similarity to the catalytic domain of the six-stranded
barrel rhizobial NodB-like proteins, which remove
N-linked or O-linked acetyl groups from cell wall
polysaccharides and belong to the larger carbohydrate
esterase 4 (CE4) superfamily.
Length = 224
Score = 26.8 bits (60), Expect = 7.9
Identities = 11/53 (20%), Positives = 19/53 (35%), Gaps = 10/53 (18%)
Query: 133 LIKYNQMNFHQAFHYLRSLRPCIRPNLGFF----------KQLINYEKRFYAE 175
L Y MN +A ++ L ++ G F ++ K+ Y E
Sbjct: 169 LFGYKYMNPEEALEEIKQLIDEVKKVGGVFTLLWHNSSFSEKEWPGWKKLYEE 221
>gnl|CDD|223288 COG0210, UvrD, Superfamily I DNA and RNA helicases [DNA
replication, recombination, and repair].
Length = 655
Score = 27.1 bits (60), Expect = 8.0
Identities = 11/67 (16%), Positives = 27/67 (40%), Gaps = 8/67 (11%)
Query: 130 LAYLIKYNQMNFHQA------FHYLRSLRPCIRPNLGFFKQLINYEKRFYAESSVEIVYN 183
+ Y I +F + YLR + + F +++N KR +++++ +
Sbjct: 374 IPYRIVIGGTSFFERKEIKDLLAYLRLVL--NPDDDAAFLRILNLPKRGIGDATLKKLLE 431
Query: 184 AAAQTYI 190
A + +
Sbjct: 432 LARERNL 438
>gnl|CDD|187548 cd05237, UDP_invert_4-6DH_SDR_e, UDP-Glcnac (UDP-linked
N-acetylglucosamine) inverting 4,6-dehydratase, extended
(e) SDRs. UDP-Glcnac inverting 4,6-dehydratase was
identified in Helicobacter pylori as the hexameric flaA1
gene product (FlaA1). FlaA1 is hexameric, possesses
UDP-GlcNAc-inverting 4,6-dehydratase activity, and
catalyzes the first step in the creation of a
pseudaminic acid derivative in protein glycosylation.
Although this subgroup has the NADP-binding motif
characteristic of extended SDRs, its members tend to
have a Met substituted for the active site Tyr found in
most SDR families. 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 = 287
Score = 26.4 bits (59), Expect = 9.7
Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 168 YEKRFYAESSVEIVYNAAAQTYIPSVYEEDY 198
+R + E +IV++AAA ++PS ED
Sbjct: 68 RLRRAFKERGPDIVFHAAALKHVPS--MEDN 96
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 0.134 0.405
Gapped
Lambda K H
0.267 0.0705 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,040,711
Number of extensions: 886658
Number of successful extensions: 834
Number of sequences better than 10.0: 1
Number of HSP's gapped: 829
Number of HSP's successfully gapped: 34
Length of query: 205
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 113
Effective length of database: 6,857,034
Effective search space: 774844842
Effective search space used: 774844842
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: 57 (25.8 bits)