RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14458
(125 letters)
>gnl|CDD|238121 cd00200, WD40, WD40 domain, found in a number of eukaryotic
proteins that cover a wide variety of functions
including adaptor/regulatory modules in signal
transduction, pre-mRNA processing and cytoskeleton
assembly; typically contains a GH dipeptide 11-24
residues from its N-terminus and the WD dipeptide at its
C-terminus and is 40 residues long, hence the name WD40;
between GH and WD lies a conserved core; serves as a
stable propeller-like platform to which proteins can
bind either stably or reversibly; forms a propeller-like
structure with several blades where each blade is
composed of a four-stranded anti-parallel b-sheet;
instances with few detectable copies are hypothesized to
form larger structures by dimerization; each WD40
sequence repeat forms the first three strands of one
blade and the last strand in the next blade; the last
C-terminal WD40 repeat completes the blade structure of
the first WD40 repeat to create the closed ring
propeller-structure; residues on the top and bottom
surface of the propeller are proposed to coordinate
interactions with other proteins and/or small ligands; 7
copies of the repeat are present in this alignment.
Length = 289
Score = 73.1 bits (180), Expect = 1e-16
Identities = 36/135 (26%), Positives = 60/135 (44%), Gaps = 22/135 (16%)
Query: 2 VSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIHL-------------------DHYTTE 42
S +D + L+D+R + + T HT +V S+ D T +
Sbjct: 151 ASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGK 210
Query: 43 A-GTRQG--SPVSALCVDPSGRLMVSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIRFS 99
GT +G + V+++ P G L+ SG ED + ++D+R +QT HT V S+ +S
Sbjct: 211 CLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWS 270
Query: 100 PSAYYLLTGGYDNKL 114
P L +G D +
Sbjct: 271 PDGKRLASGSADGTI 285
Score = 73.1 bits (180), Expect = 1e-16
Identities = 26/112 (23%), Positives = 46/112 (41%), Gaps = 20/112 (17%)
Query: 1 MVSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIHLDHYTTEAGTRQGSPVSALCVDPSG 60
+ SG D + L+D+ ++T HT+ V S+ P G
Sbjct: 66 LASGSSDKTIRLWDLETGECVRTLTGHTSYVSSVAFS--------------------PDG 105
Query: 61 RLMVSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIRFSPSAYYLLTGGYDN 112
R++ S D + ++D+ + L T + HT V S+ FSP ++ + D
Sbjct: 106 RILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDG 157
Score = 71.2 bits (175), Expect = 7e-16
Identities = 33/141 (23%), Positives = 55/141 (39%), Gaps = 22/141 (15%)
Query: 2 VSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSI------------HLDHYTTEAGTRQGS 49
S D + ++D+ + L T + HT V S+ D R G
Sbjct: 109 SSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGK 168
Query: 50 P----------VSALCVDPSGRLMVSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIRFS 99
V+++ P G ++S D + L+D+ + L T + H V S+ FS
Sbjct: 169 CVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFS 228
Query: 100 PSAYYLLTGGYDNKLVLTDLQ 120
P Y L +G D + + DL+
Sbjct: 229 PDGYLLASGSEDGTIRVWDLR 249
Score = 65.0 bits (159), Expect = 1e-13
Identities = 27/120 (22%), Positives = 48/120 (40%), Gaps = 20/120 (16%)
Query: 1 MVSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIHLDHYTTEAGTRQGSPVSALCVDPSG 60
+ +G D + ++D+ L+T K HT VR + G
Sbjct: 24 LATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAAS--------------------ADG 63
Query: 61 RLMVSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIRFSPSAYYLLTGGYDNKLVLTDLQ 120
+ SG D + L+D+ ++T HT+ V S+ FSP L + D + + D++
Sbjct: 64 TYLASGSSDKTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVE 123
Score = 57.3 bits (139), Expect = 6e-11
Identities = 22/73 (30%), Positives = 36/73 (49%)
Query: 49 SPVSALCVDPSGRLMVSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIRFSPSAYYLLTG 108
V+ + P G+L+ +G D + ++D+ L+T K HT VR + S YL +G
Sbjct: 10 GGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLASG 69
Query: 109 GYDNKLVLTDLQG 121
D + L DL+
Sbjct: 70 SSDKTIRLWDLET 82
Score = 36.9 bits (86), Expect = 0.001
Identities = 14/40 (35%), Positives = 19/40 (47%)
Query: 82 PLQTFKPHTADVRSIRFSPSAYYLLTGGYDNKLVLTDLQG 121
+T K HT V + FSP L TG D + + DL+
Sbjct: 1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLET 40
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 59.7 bits (143), Expect = 1e-11
Identities = 39/144 (27%), Positives = 58/144 (40%), Gaps = 24/144 (16%)
Query: 2 VSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIH-----------------LDHYTTEAG 44
D + L+D+R +PL T HT V S+ + + G
Sbjct: 172 SGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTG 231
Query: 45 -----TRQGSPVSAL-CVDPSGRLMVSGHEDSSCVLYDIR-GSRPLQTFKPHTADVRSIR 97
T G S + P G L+ SG D + L+D+R S L+T H++ V S+
Sbjct: 232 KLLRSTLSGHSDSVVSSFSPDGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVA 291
Query: 98 FSPSAYYLLTGGYDNKLVLTDLQG 121
FSP L +G D + L DL+
Sbjct: 292 FSPDGKLLASGSSDGTVRLWDLET 315
Score = 50.9 bits (120), Expect = 2e-08
Identities = 26/74 (35%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 49 SPVSALCVDPSGRLMVSG-HEDSSCVLYDIRGSRPLQTFKPHTADVRSIRFSPSA-YYLL 106
V++L P G+L+ SG D + L+D+R +PL T HT V S+ FSP +
Sbjct: 156 ESVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGGLLIA 215
Query: 107 TGGYDNKLVLTDLQ 120
+G D + L DL
Sbjct: 216 SGSSDGTIRLWDLS 229
Score = 48.5 bits (114), Expect = 1e-07
Identities = 33/118 (27%), Positives = 52/118 (44%), Gaps = 23/118 (19%)
Query: 1 MVSGHEDSSCVLYDIR-GSRPLQTFKPHTADVRSIHLDHYTTEAGTRQGSPVSALCVDPS 59
+ SG D + L+D+R S L+T H+ S V ++ P
Sbjct: 256 LASGSSDGTIRLWDLRSSSSLLRTLSGHS--------------------SSVLSVAFSPD 295
Query: 60 GRLMVSGHEDSSCVLYDIRGSRPLQ--TFKPHTADVRSIRFSPSAYYLLTGGYDNKLV 115
G+L+ SG D + L+D+ + L T K H V S+ FSP L++GG D+ +
Sbjct: 296 GKLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTI 353
Score = 48.5 bits (114), Expect = 1e-07
Identities = 37/145 (25%), Positives = 56/145 (38%), Gaps = 24/145 (16%)
Query: 1 MVSGHEDSSCVLYDIRGSRPLQ--TFKPHTADVRSIH----------------------L 36
+ SG D + L+D+ + L T K H V S+ L
Sbjct: 299 LASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDL 358
Query: 37 DHYTTEAGTRQGSPVSALCVDPSGRLMVSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSI 96
S V ++ P GR++ SG D + L+D+ L+ HT+ V S+
Sbjct: 359 RTGKPLKTLEGHSNVLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTSL 418
Query: 97 RFSPSAYYLLTGGYDNKLVLTDLQG 121
FSP L +G DN + L DL+
Sbjct: 419 DFSPDGKSLASGSSDNTIRLWDLKT 443
Score = 31.6 bits (70), Expect = 0.092
Identities = 21/73 (28%), Positives = 31/73 (42%), Gaps = 4/73 (5%)
Query: 49 SPVSALCVDPSGRLMVSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIRFSPSAYYLLTG 108
+ +L SG L+++ DS L D+ + H + SI FSP LL+G
Sbjct: 28 LSLLSLGSSESGILLLALLSDSLVSLPDLSS----LLLRGHEDSITSIAFSPDGELLLSG 83
Query: 109 GYDNKLVLTDLQG 121
D + L DL
Sbjct: 84 SSDGTIKLWDLDN 96
Score = 29.7 bits (65), Expect = 0.35
Identities = 21/130 (16%), Positives = 40/130 (30%), Gaps = 5/130 (3%)
Query: 1 MVSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIHLDHYTTEAGTRQGSPVSALCVDPSG 60
+ + GS + L ++ ++++ P G
Sbjct: 18 KSELGPSLNSLSLLSLGSSESGILLLALLSDSLVSLPDLSSLLLRGHEDSITSIAFSPDG 77
Query: 61 RLMVSGHEDSSCVLYDIRGSRPL--QTFKPHTADVRSIRF-SPSAYYLLT--GGYDNKLV 115
L++SG D + L+D+ L H + V + SP +L D +
Sbjct: 78 ELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLALSSPDGNSILLASSSLDGTVK 137
Query: 116 LTDLQGTMRP 125
L DL +
Sbjct: 138 LWDLSTPGKL 147
Score = 27.0 bits (58), Expect = 2.9
Identities = 21/88 (23%), Positives = 35/88 (39%), Gaps = 20/88 (22%)
Query: 1 MVSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIHLDHYTTEAGTRQGSPVSALCVDPSG 60
+ SG D + L+D+ L+ HT+ V S L P G
Sbjct: 385 VSSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTS--------------------LDFSPDG 424
Query: 61 RLMVSGHEDSSCVLYDIRGSRPLQTFKP 88
+ + SG D++ L+D++ S +F P
Sbjct: 425 KSLASGSSDNTIRLWDLKTSLKSVSFSP 452
>gnl|CDD|197651 smart00320, WD40, WD40 repeats. Note that these repeats are
permuted with respect to the structural repeats (blades)
of the beta propeller domain.
Length = 40
Score = 40.8 bits (96), Expect = 3e-06
Identities = 16/38 (42%), Positives = 20/38 (52%)
Query: 81 RPLQTFKPHTADVRSIRFSPSAYYLLTGGYDNKLVLTD 118
L+T K HT V S+ FSP YL +G D + L D
Sbjct: 3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 32.3 bits (74), Expect = 0.007
Identities = 9/28 (32%), Positives = 17/28 (60%)
Query: 49 SPVSALCVDPSGRLMVSGHEDSSCVLYD 76
PV+++ P G+ + SG +D + L+D
Sbjct: 13 GPVTSVAFSPDGKYLASGSDDGTIKLWD 40
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 40.4 bits (95), Expect = 5e-06
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 81 RPLQTFKPHTADVRSIRFSPSAYYLLTGGYDNKLVL 116
+ L+T K HT V S+ FSP L +G D + +
Sbjct: 2 KLLRTLKGHTGPVTSVAFSPDGNLLASGSDDGTVRV 37
Score = 31.6 bits (72), Expect = 0.011
Identities = 9/28 (32%), Positives = 17/28 (60%)
Query: 49 SPVSALCVDPSGRLMVSGHEDSSCVLYD 76
PV+++ P G L+ SG +D + ++D
Sbjct: 12 GPVTSVAFSPDGNLLASGSDDGTVRVWD 39
>gnl|CDD|149648 pfam08662, eIF2A, Eukaryotic translation initiation factor eIF2A.
This is a family of eukaryotic translation initiation
factors.
Length = 194
Score = 33.4 bits (77), Expect = 0.015
Identities = 14/76 (18%), Positives = 33/76 (43%), Gaps = 11/76 (14%)
Query: 50 PVSALCVDPSGR--LMVSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIRFSPSAYYLLT 107
P+ P+G+ ++ G+ + +D++G+ + + + +I +SP +L
Sbjct: 61 PIHDFAWSPNGKEFAVIYGYMPAKITFFDLKGN-VIHSLGEQPRN--TIFWSPFGRLVLL 117
Query: 108 GGYDNKLVLTDLQGTM 123
G+ N L G +
Sbjct: 118 AGFGN------LAGQI 127
>gnl|CDD|215054 PLN00100, PLN00100, light-harvesting complex chlorophyll-a/b
protein of photosystem I (Lhca); Provisional.
Length = 246
Score = 31.8 bits (72), Expect = 0.070
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 2/49 (4%)
Query: 10 CVLYDIRGSRPLQTFKPHTADVRSIHLDHYTTEAGTRQGSPVSALCVDP 58
Y + G PL+ K H A+ +++ +T+ G + V+ L V P
Sbjct: 179 VSQYAVTGKSPLEGLKAHMANPGHVNI--FTSSVGPETVATVAFLSVAP 225
>gnl|CDD|227657 COG5354, COG5354, Uncharacterized protein, contains Trp-Asp (WD)
repeat [General function prediction only].
Length = 561
Score = 29.5 bits (66), Expect = 0.40
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 5/67 (7%)
Query: 49 SPVSALCVDPSGR--LMVSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIRFSPSAYYLL 106
PV +P ++SG+ +S ++D+RG+ L+ + P FSP Y+L
Sbjct: 275 DPVHDFTWEPLSSRFAVISGYMPASVSVFDLRGN--LRFYFPEQKRNTIF-FSPHERYIL 331
Query: 107 TGGYDNK 113
G+DN
Sbjct: 332 FAGFDNL 338
Score = 26.8 bits (59), Expect = 3.4
Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 50 PVSALCVDPSGRLMVSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIRFSPSAYYLLT 107
PV+ + P G + S H ++ ++ P DV+ + FSP+ YL+T
Sbjct: 34 PVAYVSESPLGTYLFSEHAAGVECWGGPSKAKLVRFRHP---DVKYLDFSPNEKYLVT 88
>gnl|CDD|215639 PLN03226, PLN03226, serine hydroxymethyltransferase; Provisional.
Length = 475
Score = 28.0 bits (63), Expect = 1.5
Identities = 12/17 (70%), Positives = 13/17 (76%)
Query: 103 YYLLTGGYDNKLVLTDL 119
Y L+TGG DN LVL DL
Sbjct: 335 YKLVTGGTDNHLVLWDL 351
>gnl|CDD|184161 PRK13580, PRK13580, serine hydroxymethyltransferase; Provisional.
Length = 493
Score = 27.3 bits (61), Expect = 2.5
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 105 LLTGGYDNKLVLTDLQG 121
L+TGG DN LVL D+
Sbjct: 362 LVTGGTDNHLVLIDVTS 378
>gnl|CDD|201949 pfam01742, Peptidase_M27, Clostridial neurotoxin zinc protease.
These toxins are zinc proteases that block
neurotransmitter release by proteolytic cleavage of
synaptic proteins such as synaptobrevins, syntaxin and
SNAP-25.
Length = 408
Score = 26.9 bits (60), Expect = 2.8
Identities = 23/76 (30%), Positives = 32/76 (42%), Gaps = 7/76 (9%)
Query: 47 QGSPVSALCVDPSGRLMVSGHE--DSSCVLYDIRGSRPLQTFKPHTADVRSIRFSP-SAY 103
+ S +S DP+ LM HE S LY I+ L+ + S + S
Sbjct: 203 KTSSISEFYADPALELM---HELIHSLHGLYGIKPVDNLRIIPVLQNEFMSQEYPELSIE 259
Query: 104 YLLT-GGYDNKLVLTD 118
LLT GG D K++ T
Sbjct: 260 ELLTFGGQDLKIITTS 275
>gnl|CDD|240264 PTZ00094, PTZ00094, serine hydroxymethyltransferase; Provisional.
Length = 452
Score = 26.5 bits (59), Expect = 3.9
Identities = 14/42 (33%), Positives = 17/42 (40%), Gaps = 6/42 (14%)
Query: 84 QTFKPHTADVRS------IRFSPSAYYLLTGGYDNKLVLTDL 119
+K + V Y L+TGG DN LVL DL
Sbjct: 299 PEWKEYAKQVLKNAKALAAALEKRGYDLVTGGTDNHLVLVDL 340
>gnl|CDD|220751 pfam10433, MMS1_N, Mono-functional DNA-alkylating methyl
methanesulfonate N-term. MMS1 is a protein that
protects against replication-dependent DNA damage in
Saccharomyces cerevisiae. MMS1 belongs to the DDB1
family of cullin 4 adaptors and the two proteins are
homologous. MMS1 bridges the interaction of MMS22 and
Crt10 with Cul8/Rtt101. Cul8/Rtt101 is a cullin protein
involved in the regulation of DNA replication
subsequent to DNA damage. The N-terminal region of MMS1
and the C-terminal of MMS22 are required for the the
MMS1-MMS22 interaction. The human HIV-1
virion-associated protein Vpr assembles with DDB1
through interaction with DCAF1 (chromatin assembly
factor) to form an E3 ubiquitin ligase that targets
cellular substrates for proteasome-mediated degradation
and subsequent G2 arrest.
Length = 513
Score = 26.5 bits (59), Expect = 4.1
Identities = 11/50 (22%), Positives = 16/50 (32%), Gaps = 5/50 (10%)
Query: 54 LCVDPSGRLMVSGHEDSSCVLY--DIRGSRP---LQTFKPHTADVRSIRF 98
+ VDPSGR M +Y Q + + + RF
Sbjct: 49 IAVDPSGRAMAVSAYSGFFGVYPLQRDNKTQELQSQMAEGPLSPIEEERF 98
>gnl|CDD|219218 pfam06888, Put_Phosphatase, Putative Phosphatase. This family
contains a number of putative eukaryotic acid
phosphatases. Some family members represent the products
of the PSI14 phosphatase family in Lycopersicon
esculentum (Tomato).
Length = 234
Score = 26.2 bits (58), Expect = 4.8
Identities = 10/20 (50%), Positives = 11/20 (55%)
Query: 55 CVDPSGRLMVSGHEDSSCVL 74
VD GRL V + D SC L
Sbjct: 125 SVDARGRLTVLPYHDHSCNL 144
>gnl|CDD|225921 COG3386, COG3386, Gluconolactonase [Carbohydrate transport and
metabolism].
Length = 307
Score = 26.2 bits (58), Expect = 5.3
Identities = 18/95 (18%), Positives = 26/95 (27%), Gaps = 15/95 (15%)
Query: 5 HEDSSCVLY-DIRGSRPLQTFKPHTADVRSIHLDHYTTEAGTRQGSPVSALCVDPSGRLM 63
D +L+ DI G R + P T R + S +D GRL+
Sbjct: 33 DPDRGALLWVDILGGRIHR-LDPETGKKRVFPSPGGFS----------SGALIDAGGRLI 81
Query: 64 VSGHEDSSCVLYDIRGSRPLQTFKPHTADVRSIRF 98
H L D + + R
Sbjct: 82 ACEHGV---RLLDPDTGGKITLLAEPEDGLPLNRP 113
>gnl|CDD|189558 pfam00464, SHMT, Serine hydroxymethyltransferase.
Length = 380
Score = 26.2 bits (58), Expect = 5.5
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 103 YYLLTGGYDNKLVLTDLQGT 122
Y L++GG DN LVL DL+
Sbjct: 301 YKLVSGGTDNHLVLVDLRPK 320
>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 = 26.0 bits (58), Expect = 5.9
Identities = 8/36 (22%), Positives = 12/36 (33%), Gaps = 2/36 (5%)
Query: 76 DIRGSRPLQTFKPHTADVRSIRFSPSAYYLLTGGYD 111
++R P + DVR A+ G D
Sbjct: 46 ELRSRFPHDKLRFIIGDVRDKERLRRAF--KERGPD 79
>gnl|CDD|225913 COG3378, COG3378, Phage associated DNA primase [General function
prediction only].
Length = 517
Score = 26.2 bits (58), Expect = 6.3
Identities = 8/31 (25%), Positives = 12/31 (38%), Gaps = 4/31 (12%)
Query: 74 LYDIRGSRPLQTFKPHTADVRSIRFSPSAYY 104
+ D+R +PH + R R P Y
Sbjct: 159 VLDLR----TGQLEPHDPEDRFTRIIPVDYT 185
>gnl|CDD|204739 pfam11768, DUF3312, Protein of unknown function (DUF3312). This is
a eukaryotic family of uncharacterized proteins. This
family shows similarity to WD40 repeat proteins.
Length = 544
Score = 25.5 bits (56), Expect = 9.4
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 48 GSPVSALCVDPSGRLMVSGHEDSSCVLYD 76
S V + P ++ G DSS VLYD
Sbjct: 258 RSQVCSCARSPDEEKLLLGCIDSSLVLYD 286
>gnl|CDD|220674 pfam10282, Lactonase, Lactonase, 7-bladed beta-propeller. This
entry contains bacterial 6-phosphogluconolactonases
(6PGL)YbhE-type (EC:3.1.1.31) which hydrolyse
6-phosphogluconolactone to 6-phosphogluconate. The entry
also contains the fungal muconate lactonising enzyme
carboxy-cis,cis-muconate cyclase (EC:5.5.1.5) and
muconate cycloisomerase (EC:5.5.1.1), which convert
cis,cis-muconates to muconolactones and vice versa as
part of the microbial beta-ketoadipate pathway.
Structures of proteins in this family have revealed a
7-bladed beta-propeller fold.
Length = 344
Score = 25.3 bits (56), Expect = 9.6
Identities = 7/18 (38%), Positives = 13/18 (72%)
Query: 56 VDPSGRLMVSGHEDSSCV 73
+DPSG+ ++ ++DS V
Sbjct: 298 IDPSGKFLLVANQDSDNV 315
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 0.408
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,079,459
Number of extensions: 498306
Number of successful extensions: 382
Number of sequences better than 10.0: 1
Number of HSP's gapped: 371
Number of HSP's successfully gapped: 49
Length of query: 125
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 40
Effective length of database: 7,167,512
Effective search space: 286700480
Effective search space used: 286700480
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: 53 (24.2 bits)