RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4093
(434 letters)
>gnl|CDD|215795 pfam00215, OMPdecase, Orotidine 5'-phosphate decarboxylase / HUMPS
family. This family includes Orotidine 5'-phosphate
decarboxylase enzymes EC:4.1.1.23 that are involved in
the final step of pyrimidine biosynthesis. The family
also includes enzymes such as hexulose-6-phosphate
synthase. This family appears to be distantly related to
pfam00834.
Length = 217
Score = 122 bits (308), Expect = 1e-32
Identities = 64/184 (34%), Positives = 86/184 (46%), Gaps = 26/184 (14%)
Query: 114 LKLADIGAAVGHQFR-LIGEWAHLVTVHSIAGPGPLQEIQRISDELGEDRGVFLIAQLSC 172
LK ADIG V Q A +VTVH+ AG G L+ + ++E G +G+ L+A+LS
Sbjct: 58 LKFADIGNTVAKQAEAKAKLGADIVTVHAYAGDGTLKAAKEAAEEYG--KGLLLVAELSS 115
Query: 173 QGNLIDEKYTQVGFKAITLELKKYLCNNQVLPKCDNDVQETLKLAQSFPGLIAGLVCQA- 231
+G+L ++ +G+ + +F G+ G+V A
Sbjct: 116 KGSLDLQEEGDLGYTQEIVH--------------------RAADLAAFAGVD-GVVASAT 154
Query: 232 PSVLASNPGLLQLTPGIHLNQTGDNKGQQYNGPTDVITLRGADLGVVGRGITQAPDPVEA 291
A P L LTPGI L Q GD GQQ V GAD+ +VGRGIT A DPV A
Sbjct: 155 EPEAALGPDFLLLTPGIGL-QGGDAGGQQRVTTPAVAKEAGADIIIVGRGITGAGDPVAA 213
Query: 292 ARRY 295
AR
Sbjct: 214 ARAI 217
Score = 53.4 bits (129), Expect = 4e-08
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 4/57 (7%)
Query: 342 SNLCVALDVTQAKDLLTLTRQLGPHIAVLKTHSDAVRDFSEEVQKELTALAKQHEFL 398
NLCVALDV ++ L L +LGP++ ++K + F ++ EL ++H FL
Sbjct: 1 PNLCVALDVPTLEEALELADELGPYVDIIKVGTPLFEAFGLKLVAEL----RKHGFL 53
>gnl|CDD|240076 cd04725, OMP_decarboxylase_like, Orotidine 5'-phosphate
decarboxylase (ODCase) is a dimeric enzyme that
decarboxylates orotidine 5'-monophosphate (OMP) to form
uridine 5'-phosphate (UMP), an essential step in the
pyrimidine biosynthetic pathway. In mammals, UMP
synthase contains two domains: the orotate
phosphoribosyltransferase (OPRTase) domain that
catalyzes the transfer of phosphoribosyl
5'-pyrophosphate (PRPP) to orotate to form OMP, and the
orotidine-5'-phosphate decarboxylase (ODCase) domain
that decarboxylates OMP to form UMP.
Length = 216
Score = 110 bits (277), Expect = 4e-28
Identities = 62/192 (32%), Positives = 82/192 (42%), Gaps = 33/192 (17%)
Query: 111 IIIL--KLADIGAAVGHQFR-LIGEWAHLVTVHSIAGPGPLQEIQRISDELGEDRGVFLI 167
++ L KL DI V L+G A VTVH G L+ ++E + +G+F +
Sbjct: 51 LVFLDLKLGDIPNTVAAAAEALLGLGADAVTVHPYGGSDMLKAALEAAEE--KGKGLFAV 108
Query: 168 AQLSCQGNLIDEKYTQVGFKAITLELKKYLCNNQVLPKCDNDVQETLKLAQSFPGLIAGL 227
LS G L ++ I L+ V+ KLA+ + G+
Sbjct: 109 TVLSSPGALDLQE-------GIPGSLEDL-------------VERLAKLAREAG--VDGV 146
Query: 228 VCQA--PSVL--ASNPGLLQLTPGIHLNQTGDNKGQQYNGPTDVITLRGADLGVVGRGIT 283
VC A P L A P L LTPGI Q + ++ P D I GAD VVGR IT
Sbjct: 147 VCGATEPEALRRALGPDFLILTPGIGA-QGSGDDQKRGGTPEDAIRA-GADYIVVGRPIT 204
Query: 284 QAPDPVEAARRY 295
QA DPV AA
Sbjct: 205 QAADPVAAAEAI 216
Score = 49.5 bits (119), Expect = 7e-07
Identities = 16/50 (32%), Positives = 22/50 (44%)
Query: 344 LCVALDVTQAKDLLTLTRQLGPHIAVLKTHSDAVRDFSEEVQKELTALAK 393
L VALD + L L LGP++ +K + E+ KEL L
Sbjct: 1 LIVALDPPDEEFALALIDALGPYVCAVKVGLELFEAAGPEIVKELRELGF 50
>gnl|CDD|233555 TIGR01740, pyrF, orotidine 5'-phosphate decarboxylase, subfamily 1.
This model represents orotidine 5'-monophosphate
decarboxylase, the PyrF protein of pyrimidine nucleotide
biosynthesis. In many eukaryotes, the region hit by this
model is part of a multifunctional protein [Purines,
pyrimidines, nucleosides, and nucleotides, Pyrimidine
ribonucleotide biosynthesis].
Length = 214
Score = 101 bits (253), Expect = 6e-25
Identities = 59/187 (31%), Positives = 81/187 (43%), Gaps = 32/187 (17%)
Query: 114 LKLADIGAAVGHQFR-LIGEWAHLVTVHSIAGPGPLQEIQRISDELGEDRGVFLIAQLSC 172
LK ADI V Q+ I A +V VH +AG ++ + + E RG+ +A+L+
Sbjct: 56 LKFADIPNTVKLQYESKIKLGADMVNVHGVAGKESVEAAKEAASE-FGRRGLLAVAELTS 114
Query: 173 QGNLIDEKYTQVGFKAITLELKKYLCNNQVLPKCDNDVQETLKLAQSFPGLIAGLVCQA- 231
G+ + T V E K A+ F GL G VC A
Sbjct: 115 MGSEAYGEDTM------------------------EAVIEYAKEAKEF-GLD-GPVCSAE 148
Query: 232 -PSVLASNPG-LLQLTPGIHLNQTGDNKGQQYNGPTDVITLRGADLGVVGRGITQAPDPV 289
+ G L LTPGI L+ + D QQ + GAD+ +VGRGI A DPV
Sbjct: 149 EAKEIRKATGDFLILTPGIRLD-SKDADDQQRVVTLEDAKEAGADVIIVGRGIYAAEDPV 207
Query: 290 EAARRYK 296
EAA+R +
Sbjct: 208 EAAKRIR 214
Score = 53.1 bits (128), Expect = 4e-08
Identities = 21/51 (41%), Positives = 27/51 (52%)
Query: 344 LCVALDVTQAKDLLTLTRQLGPHIAVLKTHSDAVRDFSEEVQKELTALAKQ 394
L VALDVT ++ L L LG I V+K D + D E++ EL L K
Sbjct: 1 LIVALDVTTKEEALDLADSLGEEICVIKVGIDLLLDGGEKIIDELAKLNKL 51
>gnl|CDD|214921 smart00934, OMPdecase, Orotidine 5'-phosphate decarboxylase / HUMPS
family. Orotidine 5'-phosphate decarboxylase
(OMPdecase) catalyzes the last step in the de novo
biosynthesis of pyrimidines, the decarboxylation of OMP
into UMP. In higher eukaryotes OMPdecase is part, with
orotate phosphoribosyltransferase, of a bifunctional
enzyme, while the prokaryotic and fungal OMPdecases are
monofunctional protein.
Length = 212
Score = 86.8 bits (216), Expect = 9e-20
Identities = 62/197 (31%), Positives = 77/197 (39%), Gaps = 49/197 (24%)
Query: 111 III--LKLADIGAAVGHQFRLIGE-WAHLVTVHSIAGPGPLQEIQRISDELGEDRGVFLI 167
+ LKL DI V R E A VTVH+ AG ++ + + G G+ +
Sbjct: 53 PVFLDLKLHDIPNTVARAARAAAELGADAVTVHAYAGSDMIEAALEAAKKYG--PGLLAV 110
Query: 168 AQLSCQG-----NLIDEKYTQVGFKAITLELKKYLCNNQVLPKCDNDVQETLKLAQSFPG 222
L+ G L DE + V KLA+ G
Sbjct: 111 TVLTSPGAEDLQELGDESLEEQ-------------------------VLRLAKLAKE-AG 144
Query: 223 LIAGLVCQA--PSVL--ASNPGLLQLTPGIHLNQTGDNKGQQYNGPTDVITLRGADLGVV 278
L G+VC A P ++ A P L LTPGI GD Q V GAD+ VV
Sbjct: 145 LD-GVVCSATEPELIRRALGPDFLILTPGI-----GD---QGRVATPAVAIGAGADIIVV 195
Query: 279 GRGITQAPDPVEAARRY 295
GR ITQA DPVEAA
Sbjct: 196 GRPITQAADPVEAAEAI 212
Score = 44.9 bits (107), Expect = 3e-05
Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 3/56 (5%)
Query: 343 NLCVALDVTQAKDLLTLTRQLGPHIAVLKTHSDAVRDFSEEVQKELTALAKQHEFL 398
L VALDV ++ L L LG + ++K ++ E + L + F
Sbjct: 1 RLIVALDVPDLEEALELADALGDSVDIIKVGTELFLAEGPEG---VKELKELFGFP 53
>gnl|CDD|239807 cd04280, ZnMc_astacin_like, Zinc-dependent metalloprotease,
astacin_like subfamily or peptidase family M12A, a group
of zinc-dependent proteolytic enzymes with a HExxH
zinc-binding site/active site. Members of this family
may have an amino terminal propeptide, which is cleaved
to yield the active protease domain, which is
consequently always found at the N-terminus in
multi-domain architectures. This family includes:
astacin, a digestive enzyme from Crayfish; meprin, a
multiple domain membrane component that is constructed
from a homologous alpha and beta chain, proteins
involved in (bone) morphogenesis, tolloid from
drosophila, and the sea urchin SPAN protein, which may
also play a role in development.
Length = 180
Score = 81.5 bits (202), Expect = 3e-18
Identities = 27/50 (54%), Positives = 31/50 (62%), Gaps = 3/50 (6%)
Query: 50 IDDDHFCTERNFKKYPPSEITDFGVGYDFDSVMHYSRKAFSKNGDDTIVP 99
I + E NF KY P +T +GV YD+ SVMHY AFSKNG TIVP
Sbjct: 108 IQPGY---EHNFDKYSPDTVTTYGVPYDYGSVMHYGPTAFSKNGKPTIVP 154
>gnl|CDD|223361 COG0284, PyrF, Orotidine-5'-phosphate decarboxylase [Nucleotide
transport and metabolism].
Length = 240
Score = 81.2 bits (201), Expect = 1e-17
Identities = 62/197 (31%), Positives = 75/197 (38%), Gaps = 31/197 (15%)
Query: 114 LKLADIGAAVGHQFR-LIGEWAHLVTVHSIAGPGPLQEIQRISDELGEDRGVFLIAQLSC 172
LKLADI V + A VTVH+ G L+ + + G V + L+
Sbjct: 69 LKLADIPNTVALAAKAAADLGADAVTVHAFGGFDMLRAAKEALEAGG--PFVLAVTSLTS 126
Query: 173 QGNLIDEKYTQVGFKAITLELKKYLCNNQVLPKCDNDVQETLKLAQSFPGLIAGLVCQAP 232
G L Q+ I L++ V KLA GL G+VC A
Sbjct: 127 MGEL------QLAELGINSSLEEQ-------------VLRLAKLAGEA-GLD-GVVCSAE 165
Query: 233 SV----LASNPGLLQLTPGIHLNQTGDNKGQQYNGPTDVITLRGADLGVVGRGITQAPDP 288
V P L LTPGI G Q GAD VVGR ITQA DP
Sbjct: 166 EVAAIREILGPDFLILTPGIGAGSQGG--DQGRVMTPGEAVRAGADYIVVGRPITQAGDP 223
Query: 289 VEAARR-YKEVMWEAYE 304
V AAR +E+ EA
Sbjct: 224 VAAARAIAREIAREARG 240
Score = 41.1 bits (97), Expect = 5e-04
Identities = 19/61 (31%), Positives = 28/61 (45%)
Query: 333 LLDIMVKKKSNLCVALDVTQAKDLLTLTRQLGPHIAVLKTHSDAVRDFSEEVQKELTALA 392
L +M L VALDV ++ L +LGP + +K V F ++ +EL A
Sbjct: 3 GLRLMEAMSRRLIVALDVPTEEEALAFVDKLGPTVDFVKVGKPLVAFFGADILEELKARG 62
Query: 393 K 393
K
Sbjct: 63 K 63
>gnl|CDD|201773 pfam01400, Astacin, Astacin (Peptidase family M12A). The members
of this family are enzymes that cleave peptides. These
proteases require zinc for catalysis. Members of this
family contain two conserved disulphide bridges, these
are joined 1-4 and 2-3. Members of this family have an
amino terminal propeptide which is cleaved to give the
active protease domain. All other linked domains are
found to the carboxyl terminus of this domain. This
family includes: Astacin, a digestive enzyme from
Crayfish. Meprin, a multiple domain membrane component
that is constructed from a homologous alpha and beta
chain. Proteins involved in morphogenesis such as human
bone morphogenetic protein 1, and Tolloid from
Drosophila melanogaster.
Length = 191
Score = 70.4 bits (173), Expect = 4e-14
Identities = 25/43 (58%), Positives = 29/43 (67%), Gaps = 1/43 (2%)
Query: 58 ERNFKKYPPSEITDFGVGYDFDSVMHYSRKAFSKNGD-DTIVP 99
E NF+KY P E+ GV YD+ S+MHY AFSKNG TIVP
Sbjct: 118 EGNFEKYDPDEVDSLGVPYDYGSIMHYGPYAFSKNGYLPTIVP 160
Score = 28.4 bits (64), Expect = 6.5
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 40 RWPGGLIPYYIDD 52
+WP G IPY ID
Sbjct: 2 KWPNGPIPYVIDS 14
>gnl|CDD|239810 cd04283, ZnMc_hatching_enzyme, Zinc-dependent metalloprotease,
hatching enzyme-like subfamily. Hatching enzymes are
secreted by teleost embryos to digest the egg envelope
or chorion. In some teleosts, the hatching enzyme may be
a system consisting of two evolutionary related
metalloproteases, high choriolytic enzyme and low
choriolytic enzyme (HCE and LCE), which may have
different substrate specificities and cooperatively
digest the chorion.
Length = 182
Score = 57.3 bits (139), Expect = 1e-09
Identities = 21/43 (48%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 58 ERNFKKYPPSEITDFGVGYDFDSVMHYSRKAFSKNGDDTIVPH 100
NF K + + G YD+ SVMHY R AFS NG TIVP
Sbjct: 116 LYNFDKQ---DTNNLGTPYDYSSVMHYGRYAFSINGKPTIVPI 155
>gnl|CDD|239808 cd04281, ZnMc_BMP1_TLD, Zinc-dependent metalloprotease;
BMP1/TLD-like subfamily. BMP1 (Bone morphogenetic
protein 1) and TLD (tolloid)-like metalloproteases play
vital roles in extracellular matrix formation, by
cleaving precursor proteins such as enzymes, structural
proteins, and proteins involved in the mineralization of
the extracellular matrix. The drosophila protein tolloid
and its Xenopus homologue xolloid cleave and inactivate
Sog and chordin, respectively, which are inhibitors of
Dpp (the Drosophila decapentaplegic gene product) and
its homologue BMP4, involved in dorso-ventral
patterning.
Length = 200
Score = 54.4 bits (131), Expect = 1e-08
Identities = 22/43 (51%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 58 ERNFKKYPPSEITDFGVGYDFDSVMHYSRKAFSKNGD-DTIVP 99
E NF K P E+ G YDFDS+MHY+R FS+ DTI+P
Sbjct: 126 EYNFLKMEPEEVDSLGEPYDFDSIMHYARNTFSRGMFLDTILP 168
Score = 27.8 bits (62), Expect = 8.7
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 40 RWPGGLIPYYIDDD 53
WPGG+IPY ID +
Sbjct: 9 IWPGGVIPYVIDGN 22
>gnl|CDD|234695 PRK00230, PRK00230, orotidine 5'-phosphate decarboxylase; Reviewed.
Length = 230
Score = 54.8 bits (133), Expect = 1e-08
Identities = 57/201 (28%), Positives = 71/201 (35%), Gaps = 58/201 (28%)
Query: 114 LKLADIGAAVGHQFRLIGEW-AHLVTVHSIAGPGPLQEIQRISDELGEDRGVFLIA---- 168
LKL DI V R + + +V VH+ GP ++ + L LIA
Sbjct: 60 LKLHDIPNTVAKAVRALAKLGVDMVNVHASGGPRMMKAAREA---LEPKSRPLLIAVTVL 116
Query: 169 ------QLSCQGNLIDEKYTQVGFKAITLELKKYLCNNQVLPKCDNDVQETLKLAQSFPG 222
L+ G I L L++ V KLAQ
Sbjct: 117 TSMDEEDLAELG--------------INLSLEEQ-------------VLRLAKLAQE--- 146
Query: 223 LIAGL---VCQAPSVLA----SNPGLLQLTPGIHLNQTGDNKGQQYN--GPTDVITLRGA 273
AGL VC A A + P L +TPGI G + G Q P I G+
Sbjct: 147 --AGLDGVVCSAQEAAAIREATGPDFLLVTPGIRP--AGSDAGDQKRVMTPAQAIAA-GS 201
Query: 274 DLGVVGRGITQAPDPVEAARR 294
D VVGR ITQA DP A
Sbjct: 202 DYIVVGRPITQAADPAAAYEA 222
>gnl|CDD|239809 cd04282, ZnMc_meprin, Zinc-dependent metalloprotease, meprin_like
subfamily. Meprins are membrane-bound or secreted
extracellular proteases, which cleave a variety of
targets, including peptides such as parathyroid hormone,
gastrin, and cholecystokinin, cytokines such as
osteopontin, and proteins such as collagen IV,
fibronectin, casein and gelatin. Meprins may also be
able to release proteins from the cell surface. Closely
related meprin alpha- and beta-subunits form homo- and
hetero-oligomers; these complexes are found on
epithelial cells of the intestine, for example, and are
also expressed in certain cancer cells.
Length = 230
Score = 51.7 bits (124), Expect = 2e-07
Identities = 26/66 (39%), Positives = 37/66 (56%), Gaps = 7/66 (10%)
Query: 58 ERNFKKYPPSEITDFGVGYDFDSVMHYSRKAFSKNGDD-TIV---PHF--VMAQNVLWSI 111
E NF KY S TD YD++SVMHYS +F+K + TI P F ++ Q + +S
Sbjct: 159 EHNFNKYDDSFSTDLNTPYDYESVMHYSPFSFNKGASEPTITTKIPEFNDIIGQRLDFSD 218
Query: 112 I-ILKL 116
I + +L
Sbjct: 219 IDLERL 224
>gnl|CDD|237520 PRK13813, PRK13813, orotidine 5'-phosphate decarboxylase;
Provisional.
Length = 215
Score = 46.9 bits (112), Expect = 5e-06
Identities = 53/198 (26%), Positives = 70/198 (35%), Gaps = 61/198 (30%)
Query: 114 LKLADIGAAVGHQFRLI-------GEWAHLVTVHSIAGPGPLQEIQRISDELGEDRGVFL 166
LK+ADI RLI G W + VH G L+ + + E G VF+
Sbjct: 60 LKVADIPNTN----RLICEAVFEAGAWG--IIVHGFTGRDSLKAVVEAAAESGGK--VFV 111
Query: 167 IAQLSCQGNLIDEKYTQVGFKAITLELKKYLCNNQVLPKCDNDVQETLKLAQSFPGLIAG 226
+ ++S G L + +L KLAQ G G
Sbjct: 112 VVEMSHPGALEF-------IQPHADKL--------------------AKLAQEA-GA-FG 142
Query: 227 LVCQA--PSVL-----ASNPGLLQLTPGIHLNQTGDNKGQQYNGPTDVITLRGADLGVVG 279
+V A P + L ++PGI G Q D I GAD +VG
Sbjct: 143 VVAPATRPERVRYIRSRLGDELKIISPGI---------GAQGGKAADAI-KAGADYVIVG 192
Query: 280 RGITQAPDPVEAARRYKE 297
R I A DP EAA+ E
Sbjct: 193 RSIYNAADPREAAKAINE 210
Score = 30.3 bits (69), Expect = 1.6
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 339 KKKSNLCVALDVTQAKDLLTLTRQLGPHIAVLK 371
+K S + +ALDVT + L + +L ++ +K
Sbjct: 1 EKDSRIILALDVTDRERALKIAEELDDYVDAIK 33
>gnl|CDD|223347 COG0269, SgbH, 3-hexulose-6-phosphate synthase and related proteins
[Carbohydrate transport and metabolism].
Length = 217
Score = 40.7 bits (96), Expect = 6e-04
Identities = 17/33 (51%), Positives = 22/33 (66%)
Query: 268 ITLRGADLGVVGRGITQAPDPVEAARRYKEVMW 300
GAD+ +VGR IT A DP EAAR++KE +
Sbjct: 181 FKGIGADIVIVGRAITGAKDPAEAARKFKEEID 213
>gnl|CDD|132172 TIGR03128, RuMP_HxlA, 3-hexulose-6-phosphate synthase. Members of
this protein family are 3-hexulose-6-phosphate synthase
(HPS), or the HPS domain of a fusion protein. This
enzyme is part of the ribulose monophosphate (RuMP)
pathway, which in one direction removes the toxic
metabolite formaldehyde by assimilation into
fructose-6-phosphate. In the other direction, in species
lacking a complete pentose phosphate pathway, the RuMP
pathway yields ribulose-5-phosphate, necessary for
nucleotide biosynthesis, at the cost of also yielding
formaldehyde. These latter species tend usually have a
formaldehyde-activating enzyme to attach formaldehyde to
the C1 carrier tetrahydromethanopterin. In these
species, the enzyme is viewed as a lyase rather than a
synthase and is called D-arabino 3-hexulose 6-phosphate
formaldehyde lyase. Note that there is some overlap in
specificity with the Escherichia coli enzyme
3-keto-L-gulonate 6-phosphate decarboxylase.
Length = 206
Score = 40.4 bits (95), Expect = 7e-04
Identities = 17/34 (50%), Positives = 25/34 (73%), Gaps = 1/34 (2%)
Query: 266 DVITLRGADLGVVGRGITQAPDPVEAARRYKEVM 299
DVI L G D+ +VG IT+A DP EAAR+ ++++
Sbjct: 174 DVIKL-GPDIVIVGGAITKAADPAEAARQIRKLI 206
>gnl|CDD|240077 cd04726, KGPDC_HPS, 3-Keto-L-gulonate 6-phosphate decarboxylase
(KGPDC) and D-arabino-3-hexulose-6-phosphate synthase
(HPS). KGPDC catalyzes the formation of L-xylulose
5-phosphate and carbon dioxide from 3-keto-L-gulonate
6-phosphate as part of the anaerobic pathway for
L-ascorbate utilization in some eubacteria. HPS
catalyzes the formation of
D-arabino-3-hexulose-6-phosphate from D-ribulose
5-phosphate and formaldehyde in microorganisms that can
use formaldehyde as a carbon source. Both catalyze
reactions that involve the Mg2+-assisted formation and
stabilization of 1,2-enediolate reaction intermediates.
Length = 202
Score = 37.9 bits (89), Expect = 0.004
Identities = 15/23 (65%), Positives = 17/23 (73%)
Query: 272 GADLGVVGRGITQAPDPVEAARR 294
GAD+ +VGR IT A DP EAAR
Sbjct: 179 GADIVIVGRAITGAADPAEAARE 201
>gnl|CDD|234590 PRK00043, thiE, thiamine-phosphate pyrophosphorylase; Reviewed.
Length = 212
Score = 37.5 bits (88), Expect = 0.007
Identities = 12/28 (42%), Positives = 12/28 (42%)
Query: 272 GADLGVVGRGITQAPDPVEAARRYKEVM 299
GAD V IT A DP AAR
Sbjct: 181 GADGVAVVSAITGAEDPEAAARALLAAF 208
>gnl|CDD|183964 PRK13307, PRK13307, bifunctional formaldehyde-activating
enzyme/3-hexulose-6-phosphate synthase; Provisional.
Length = 391
Score = 36.1 bits (84), Expect = 0.026
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 272 GADLGVVGRGITQAPDPVEAARRYKEVMWEAYEQRLKKENSRIVTPF 318
GAD+ VVGR IT++ D AA + + +Q R++T F
Sbjct: 351 GADILVVGRAITKSKDVRRAAEDFLNKLKPDIDQ------FRLMTDF 391
>gnl|CDD|235912 PRK07028, PRK07028, bifunctional hexulose-6-phosphate
synthase/ribonuclease regulator; Validated.
Length = 430
Score = 32.7 bits (75), Expect = 0.33
Identities = 12/29 (41%), Positives = 19/29 (65%)
Query: 271 RGADLGVVGRGITQAPDPVEAARRYKEVM 299
GAD+ +VG I ++ D EAAR+ +E +
Sbjct: 182 AGADIVIVGGNIIKSADVTEAARKIREAI 210
>gnl|CDD|149967 pfam09098, Dehyd-heme_bind, Quinohemoprotein amine dehydrogenase A,
alpha subunit, haem binding. Members of this family are
predominantly found in the prokaryotic protein
Quinohemoprotein amine dehydrogenase, and assume a
secondary structure consisting of two alpha helices.
They contain two cysteine residues that are involved in
thioether linkages to haem.
Length = 68
Score = 29.7 bits (67), Expect = 0.46
Identities = 19/50 (38%), Positives = 19/50 (38%), Gaps = 6/50 (12%)
Query: 120 GAAVGHQFRLIGEWAHLVTVHSIAGPGPLQEIQRISDELGEDRGVFLIAQ 169
A V Q R EW LV H G P E Q L DR F IA
Sbjct: 10 YARVALQRRTAEEWEKLVHFH--LGQFPTLEYQ----ALARDRDWFGIAL 53
>gnl|CDD|187651 cd08947, NmrA_TMR_like_SDR_a, NmrA (a transcriptional regulator),
HSCARG (an NADPH sensor), and triphenylmethane reductase
(TMR) like proteins, atypical (a) SDRs. Atypical SDRs
belonging to this subgroup include NmrA, HSCARG, and
TMR, these proteins bind NAD(P) but they lack the usual
catalytic residues of the SDRs. Atypical SDRs are
distinct from classical SDRs. NmrA is a negative
transcriptional regulator of various fungi, involved in
the post-translational modulation of the GATA-type
transcription factor AreA. NmrA lacks the canonical
GXXGXXG NAD-binding motif and has altered residues at
the catalytic triad, including a Met instead of the
critical Tyr residue. NmrA may bind nucleotides but
appears to lack any dehydrogenase activity. HSCARG has
been identified as a putative NADP-sensing molecule, and
redistributes and restructures in response to NADPH/NADP
ratios. Like NmrA, it lacks most of the active site
residues of the SDR family, but has an NAD(P)-binding
motif similar to the extended SDR family, GXXGXXG. TMR,
an NADP-binding protein, lacks the active site residues
of the SDRs but has a glycine rich NAD(P)-binding motif
that matches the 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 = 224
Score = 31.7 bits (72), Expect = 0.54
Identities = 20/92 (21%), Positives = 33/92 (35%), Gaps = 16/92 (17%)
Query: 348 LDVTQAKDLLTLTRQLGP-HIAVLKTHSDAVRDFSEEVQKEL-TALAKQHEFLRS----- 400
L++ Q K++ R+ G HI F+EE L +R+
Sbjct: 79 LEIKQGKNVADAARRAGVKHIYSTGY------AFAEESAIPLAHVKLAVEYAIRTTGIPY 132
Query: 401 ---RNGWFSPILSSFSLRFRDDKTLAMSVPPP 429
RNG ++ S L D + A+ +P
Sbjct: 133 TFLRNGLYTENFVSEGLPAADTGSGAIVLPAG 164
>gnl|CDD|238317 cd00564, TMP_TenI, Thiamine monophosphate synthase (TMP
synthase)/TenI. TMP synthase catalyzes an important step
in the thiamine biosynthesis pathway, the substitution
of the pyrophosphate of 2-methyl-4-amino-5-
hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-
(beta-hydroxyethyl) thiazole phosphate to yield thiamine
phosphate. TenI is a enzymatically inactive regulatory
protein involved in the regulation of several
extracellular enzymes. This superfamily also contains
other enzymatically inactive proteins with unknown
functions.
Length = 196
Score = 31.3 bits (72), Expect = 0.68
Identities = 14/27 (51%), Positives = 14/27 (51%), Gaps = 2/27 (7%)
Query: 272 GADLGV-VGRGITQAPDPVEAARRYKE 297
GAD GV V IT A DP AAR
Sbjct: 171 GAD-GVAVISAITGADDPAAAARELLA 196
>gnl|CDD|183048 PRK11239, PRK11239, hypothetical protein; Provisional.
Length = 215
Score = 31.3 bits (71), Expect = 0.83
Identities = 15/35 (42%), Positives = 25/35 (71%), Gaps = 2/35 (5%)
Query: 371 KTHSDAVRDFSE-EVQKELTALAKQHEFLRSRNGW 404
KT+ + V + SE EVQ++L L K+H +LR+ +G+
Sbjct: 41 KTNREPVMNLSESEVQEQLDNLVKRH-YLRTVSGF 74
>gnl|CDD|233094 TIGR00693, thiE, thiamine-phosphate pyrophosphorylase. This model
represents the thiamine-phosphate pyrophosphorylase,
ThiE, of a number of bacteria, and N-terminal domains of
bifunctional thiamine proteins of Saccharomyces
cerevisiae and Schizosaccharomyces pombe, in which the
C-terminal domain corresponds to the bacterial
hydroxyethylthiazole kinase (EC 2.7.1.50), ThiM. This
model includes ThiE from Bacillus subtilis but excludes
its paralog, the regulatory protein TenI , and neighbors
of TenI [Biosynthesis of cofactors, prosthetic groups,
and carriers, Thiamine].
Length = 196
Score = 29.9 bits (68), Expect = 1.8
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 271 RGADLGVVGRGITQAPDPVEAARR 294
GAD V I QA DP AA++
Sbjct: 172 AGADGVAVVSAIMQAADPKAAAKQ 195
>gnl|CDD|223429 COG0352, ThiE, Thiamine monophosphate synthase [Coenzyme
metabolism].
Length = 211
Score = 29.9 bits (68), Expect = 2.2
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 272 GADLGVVGRGITQAPDPVEAARRYKE 297
GAD V IT A DP AA+ +
Sbjct: 179 GADGVAVVSAITSAADPAAAAKALRN 204
>gnl|CDD|151366 pfam10919, DUF2699, Protein of unknown function (DUF2699). This
family of proteins has no known function.
Length = 94
Score = 28.1 bits (63), Expect = 2.9
Identities = 15/42 (35%), Positives = 19/42 (45%)
Query: 128 RLIGEWAHLVTVHSIAGPGPLQEIQRISDELGEDRGVFLIAQ 169
R IG+ A V SI G + + R L DRG L+A
Sbjct: 39 RDIGDVADPQPVRSIGGEVAVDPVGRTPSGLVRDRGAHLLAA 80
>gnl|CDD|181086 PRK07695, PRK07695, transcriptional regulator TenI; Provisional.
Length = 201
Score = 29.2 bits (66), Expect = 3.4
Identities = 9/28 (32%), Positives = 13/28 (46%)
Query: 272 GADLGVVGRGITQAPDPVEAARRYKEVM 299
G V GI + +P A+RY E +
Sbjct: 170 GVSGIAVMSGIFSSANPYSKAKRYAESI 197
>gnl|CDD|223610 COG0536, Obg, Predicted GTPase [General function prediction only].
Length = 369
Score = 29.4 bits (67), Expect = 3.5
Identities = 15/59 (25%), Positives = 26/59 (44%), Gaps = 19/59 (32%)
Query: 116 LADI---------GAAVGHQF-------RLIGEWAHLVTVHSIAGPGPLQEIQRISDEL 158
+ADI G +G +F R+ H++ + I G P+++ Q I +EL
Sbjct: 211 VADIPGLIEGASEGVGLGLRFLRHIERTRV---LLHVIDLSPIDGRDPIEDYQTIRNEL 266
>gnl|CDD|218636 pfam05557, MAD, Mitotic checkpoint protein. This family consists
of several eukaryotic mitotic checkpoint (Mitotic arrest
deficient or MAD) proteins. The mitotic spindle
checkpoint monitors proper attachment of the bipolar
spindle to the kinetochores of aligned sister chromatids
and causes a cell cycle arrest in prometaphase when
failures occur. Multiple components of the mitotic
spindle checkpoint have been identified in yeast and
higher eukaryotes. In S.cerevisiae, the existence of a
Mad1-dependent complex containing Mad2, Mad3, Bub3 and
Cdc20 has been demonstrated.
Length = 722
Score = 29.5 bits (66), Expect = 4.6
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 7/56 (12%)
Query: 351 TQAKDLLTLTRQLG-------PHIAVLKTHSDAVRDFSEEVQKELTALAKQHEFLR 399
+ AK L T +QL I LK +A++ +Q+ LT + K+ + LR
Sbjct: 364 SSAKQLETTLQQLQLERQKAVSEILELKKKLEALKALVRRLQRRLTLVTKERDGLR 419
>gnl|CDD|219117 pfam06638, Strabismus, Strabismus protein. This family consists of
several strabismus (STB) or Van Gogh-like (VANGL)
proteins 1 and 2. The exact function of this family is
unknown. It is thought, however that STB1 gene and STB2
may be potent tumour suppressor gene candidates.
Length = 507
Score = 29.3 bits (66), Expect = 4.6
Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 6/35 (17%)
Query: 291 AARR----YKEVMWEA--YEQRLKKENSRIVTPFE 319
AARR + E +E YE+R++K +R+V E
Sbjct: 315 AARRRDSSHNERYYEEAEYERRVRKRKARLVVAVE 349
>gnl|CDD|172976 PRK14505, PRK14505, bifunctional photosynthetic reaction center
subunit L/M; Provisional.
Length = 643
Score = 29.2 bits (65), Expect = 4.7
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 114 LKLADIGAAVGHQFRLIGEWAHLVTVH 140
L L + AA GH FR I +W + V++H
Sbjct: 489 LALGNWSAAPGHGFRAILDWTNYVSIH 515
>gnl|CDD|235278 PRK04311, PRK04311, selenocysteine synthase; Provisional.
Length = 464
Score = 29.0 bits (66), Expect = 5.3
Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 368 AVLKTHSD--AVRDFSEEVQ-KELTALAKQH 395
+LK H+ + F++EV EL AL K+H
Sbjct: 219 LLLKVHTSNYRIEGFTKEVSLAELAALGKEH 249
>gnl|CDD|223185 COG0107, HisF, Imidazoleglycerol-phosphate synthase [Amino acid
transport and metabolism].
Length = 256
Score = 28.7 bits (65), Expect = 5.6
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 276 GVVGRGITQAPDPVEAARRYKE 297
GV + + A DPVE A+RY E
Sbjct: 20 GVNFKNLRDAGDPVELAKRYNE 41
>gnl|CDD|237344 PRK13306, ulaD, 3-keto-L-gulonate-6-phosphate decarboxylase;
Provisional.
Length = 216
Score = 28.4 bits (64), Expect = 6.2
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 279 GRGITQAPDPVEAARRYKE 297
GR I A DP AAR +K+
Sbjct: 191 GRAIRGAADPAAAARAFKD 209
>gnl|CDD|107224 cd06467, p23_NUDC_like, p23_like domain of NUD (nuclear
distribution) C and similar proteins. Aspergillus
nidulas (An) NUDC is needed for nuclear movement. AnNUDC
is localized at the hyphal cortex, and binds NUDF at
spindle pole bodies (SPBs) and in the cytoplasm at
different stages in the cell cycle. At the SPBs it is
part of the dynein molecular motor/NUDF complex that
regulates microtubule dynamics. Mammalian(m) NUDC
associates both with the dynein complex and also with an
anti-inflammatory enzyme, platelet activating factor
acetylhydrolase I, PAF-AH(I) complex, through binding
mNUDF, the regulatory beta subunit of PAF-AH(I). mNUDC
is important for cell proliferation both in normal and
tumor tissues. Its expression is elevated in various
cell types undergoing mitosis or stimulated to
proliferate, with high expression levels observed in
leukemic cells and tumors. For a leukemic cell line,
human NUDC was shown to activate the thrombopoietin
(TPO) receptor (Mpl) by binding to its extracellular
domain, and promoting cell proliferation and
differentiation. This group also includes the human
broadly immunogenic tumor associated antigen, CML66,
which is highly expressed in a variety of solid tumors
and in leukemias. In normal tissues high expression of
CML66 is limited to testis and heart.
Length = 85
Score = 26.4 bits (59), Expect = 9.6
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 313 RIVTPFETRKADVKCRISSTLLDIMVK 339
I P T+ DVK I+ L + VK
Sbjct: 13 TIPLPEGTKSKDVKVEITPKHLKVGVK 39
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 0.137 0.411
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,325,858
Number of extensions: 2197114
Number of successful extensions: 1990
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1977
Number of HSP's successfully gapped: 49
Length of query: 434
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 334
Effective length of database: 6,502,202
Effective search space: 2171735468
Effective search space used: 2171735468
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: 60 (26.7 bits)