RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1859
(162 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 = 62.7 bits (153), Expect = 2e-12
Identities = 24/94 (25%), Positives = 44/94 (46%), Gaps = 1/94 (1%)
Query: 70 PVNAISFHQEYNTFATGGSDGYVNIWDGFNKKRLCQFHRYDTGITSL-FHQEYNTFATGG 128
VN+++F + + SDG + +WD K L ++ G+ S+ F + A+G
Sbjct: 179 EVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLASGS 238
Query: 129 SDGYVNIWDGFNKKRLCQFHRYDTGITSLCFSYD 162
DG + +WD + + + +TSL +S D
Sbjct: 239 EDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPD 272
Score = 53.9 bits (130), Expect = 3e-09
Identities = 28/122 (22%), Positives = 51/122 (41%), Gaps = 14/122 (11%)
Query: 17 RCIKCFPNKQGYVLSSIEGRAAVEYLDTGPEMQKMKYAFKCHRIKEDGIEKIYPVNAISF 76
+ P+ + + SS +G + L TG K + H VN+++F
Sbjct: 181 NSVAFSPDGEKLLSSSSDGTIKLWDLSTG----KCLGTLRGHE---------NGVNSVAF 227
Query: 77 HQEYNTFATGGSDGYVNIWDGFNKKRLCQFHRYDTGITSL-FHQEYNTFATGGSDGYVNI 135
+ A+G DG + +WD + + + +TSL + + A+G +DG + I
Sbjct: 228 SPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRI 287
Query: 136 WD 137
WD
Sbjct: 288 WD 289
Score = 51.6 bits (124), Expect = 2e-08
Identities = 19/96 (19%), Positives = 37/96 (38%), Gaps = 5/96 (5%)
Query: 70 PVNAISFHQEYNTFATGGSDGYVNIWDG--FNKKRLCQFHRYDTGITSLFHQEYNTFATG 127
V++++F + ++ D + +WD + H + S+ TF
Sbjct: 95 YVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHT--DWVNSVAFSPDGTFVAS 152
Query: 128 GS-DGYVNIWDGFNKKRLCQFHRYDTGITSLCFSYD 162
S DG + +WD K + + + S+ FS D
Sbjct: 153 SSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPD 188
Score = 51.6 bits (124), Expect = 2e-08
Identities = 21/94 (22%), Positives = 39/94 (41%), Gaps = 5/94 (5%)
Query: 70 PVNAISFHQEYNTFATGGSDGYVNIWD---GFNKKRLCQFHRYDTGITSLFHQEYNTFAT 126
V ++F + ATG DG + +WD G + L + + Y A+
Sbjct: 11 GVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTY--LAS 68
Query: 127 GGSDGYVNIWDGFNKKRLCQFHRYDTGITSLCFS 160
G SD + +WD + + + + ++S+ FS
Sbjct: 69 GSSDKTIRLWDLETGECVRTLTGHTSYVSSVAFS 102
Score = 46.9 bits (112), Expect = 8e-07
Identities = 17/94 (18%), Positives = 38/94 (40%), Gaps = 5/94 (5%)
Query: 70 PVNAISFHQEYNTFATGGSDGYVNIWDGFNKKRLCQFHRYDTGITSL-FHQEYNTFATGG 128
PV ++ + A+G SD + +WD + + + + ++S+ F + ++
Sbjct: 53 PVRDVAASADGTYLASGSSDKTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSS 112
Query: 129 SDGYVNIWDG--FNKKRLCQFHRYDTGITSLCFS 160
D + +WD + H + S+ FS
Sbjct: 113 RDKTIKVWDVETGKCLTTLRGHT--DWVNSVAFS 144
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 49.3 bits (116), Expect = 2e-07
Identities = 27/94 (28%), Positives = 46/94 (48%), Gaps = 1/94 (1%)
Query: 70 PVNAISFHQEYNTFATGGS-DGYVNIWDGFNKKRLCQFHRYDTGITSLFHQEYNTFATGG 128
PV+++SF + + +GGS DG + +WD K L + ++ F + ++G
Sbjct: 330 PVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKTLEGHSNVLSVSFSPDGRVVSSGS 389
Query: 129 SDGYVNIWDGFNKKRLCQFHRYDTGITSLCFSYD 162
+DG V +WD L + + +TSL FS D
Sbjct: 390 TDGTVRLWDLSTGSLLRNLDGHTSRVTSLDFSPD 423
Score = 48.5 bits (114), Expect = 3e-07
Identities = 26/96 (27%), Positives = 46/96 (47%), Gaps = 3/96 (3%)
Query: 70 PVNAISFHQE-YNTFATGGSDGYVNIWDGFNKKRLCQ-FHRYDTGITSLFHQEYNTFATG 127
PV++++F + A+G SDG + +WD K L + + S F + + A+G
Sbjct: 200 PVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVSSFSPDGSLLASG 259
Query: 128 GSDGYVNIWD-GFNKKRLCQFHRYDTGITSLCFSYD 162
SDG + +WD + L + + + S+ FS D
Sbjct: 260 SSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPD 295
Score = 44.7 bits (104), Expect = 6e-06
Identities = 26/96 (27%), Positives = 41/96 (42%), Gaps = 3/96 (3%)
Query: 70 PVNAISFHQEYNTFATGGS-DGYVNIWDGFNKKRLCQFHRYDTGITSL-FHQE-YNTFAT 126
V +++F + A+G S DG + +WD K L + ++SL F + A+
Sbjct: 157 SVTSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGGLLIAS 216
Query: 127 GGSDGYVNIWDGFNKKRLCQFHRYDTGITSLCFSYD 162
G SDG + +WD K L + FS D
Sbjct: 217 GSSDGTIRLWDLSTGKLLRSTLSGHSDSVVSSFSPD 252
Score = 43.9 bits (102), Expect = 1e-05
Identities = 29/146 (19%), Positives = 54/146 (36%), Gaps = 16/146 (10%)
Query: 4 IMQRRESSLKFQTRCIKCFPNKQGYVLS-SIEGRAAVEYLDTGPEMQKMKYAFKCHRIKE 62
+ + + P+ V S +G + L TG ++
Sbjct: 319 LSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWDLRTGKPLKT------------ 366
Query: 63 DGIEKIYPVNAISFHQEYNTFATGGSDGYVNIWDGFNKKRLCQFHRYDTGITSL-FHQEY 121
+E V ++SF + ++G +DG V +WD L + + +TSL F +
Sbjct: 367 --LEGHSNVLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTSLDFSPDG 424
Query: 122 NTFATGGSDGYVNIWDGFNKKRLCQF 147
+ A+G SD + +WD + F
Sbjct: 425 KSLASGSSDNTIRLWDLKTSLKSVSF 450
Score = 40.8 bits (94), Expect = 1e-04
Identities = 25/98 (25%), Positives = 41/98 (41%), Gaps = 7/98 (7%)
Query: 70 PVNAISFHQEYNTFATGGSDGYVNIWDGFNKKR----LCQFHRYDTGITSLFHQEYNTFA 125
+ +I+F + +G SDG + +WD N ++ L H +L + N+
Sbjct: 67 SITSIAFSPDGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLALSSPDGNSIL 126
Query: 126 TGGS--DGYVNIWD-GFNKKRLCQFHRYDTGITSLCFS 160
S DG V +WD K + + +TSL FS
Sbjct: 127 LASSSLDGTVKLWDLSTPGKLIRTLEGHSESVTSLAFS 164
Score = 26.2 bits (56), Expect = 8.9
Identities = 10/49 (20%), Positives = 19/49 (38%)
Query: 70 PVNAISFHQEYNTFATGGSDGYVNIWDGFNKKRLCQFHRYDTGITSLFH 118
V ++ F + + A+G SD + +WD + F + S
Sbjct: 414 RVTSLDFSPDGKSLASGSSDNTIRLWDLKTSLKSVSFSPDGKVLASKSS 462
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 39.6 bits (93), Expect = 2e-05
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 70 PVNAISFHQEYNTFATGGSDGYVNIWD 96
PV +++F + N A+G DG V +WD
Sbjct: 13 PVTSVAFSPDGNLLASGSDDGTVRVWD 39
Score = 33.5 bits (77), Expect = 0.003
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 112 GITSL-FHQEYNTFATGGSDGYVNIWD 137
+TS+ F + N A+G DG V +WD
Sbjct: 13 PVTSVAFSPDGNLLASGSDDGTVRVWD 39
>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 = 37.7 bits (88), Expect = 9e-05
Identities = 9/27 (33%), Positives = 16/27 (59%)
Query: 70 PVNAISFHQEYNTFATGGSDGYVNIWD 96
PV +++F + A+G DG + +WD
Sbjct: 14 PVTSVAFSPDGKYLASGSDDGTIKLWD 40
Score = 33.4 bits (77), Expect = 0.003
Identities = 10/40 (25%), Positives = 19/40 (47%), Gaps = 1/40 (2%)
Query: 99 NKKRLCQFHRYDTGITSL-FHQEYNTFATGGSDGYVNIWD 137
+ + L + +TS+ F + A+G DG + +WD
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
>gnl|CDD|218422 pfam05088, Bac_GDH, Bacterial NAD-glutamate dehydrogenase. This
family consists of several bacterial proteins which are
closely related to NAD-glutamate dehydrogenase found in
Streptomyces clavuligerus. Glutamate dehydrogenases
(GDHs) are a broadly distributed group of enzymes that
catalyze the reversible oxidative deamination of
glutamate to ketoglutarate and ammonia.
Length = 1526
Score = 29.8 bits (68), Expect = 0.70
Identities = 12/25 (48%), Positives = 14/25 (56%), Gaps = 7/25 (28%)
Query: 72 NAISFHQEYN-----TFATGGSDGY 91
NAI+ EY FA+GGS GY
Sbjct: 846 NAIA--AEYGFWLGDAFASGGSVGY 868
>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
Length = 493
Score = 29.5 bits (66), Expect = 0.84
Identities = 13/33 (39%), Positives = 16/33 (48%)
Query: 105 QFHRYDTGITSLFHQEYNTFATGGSDGYVNIWD 137
Q H GI S N A+ G+D VN+WD
Sbjct: 122 QGHTKKVGIVSFHPSAMNVLASAGADMVVNVWD 154
Score = 28.3 bits (63), Expect = 2.0
Identities = 22/96 (22%), Positives = 36/96 (37%), Gaps = 14/96 (14%)
Query: 71 VNAISFH-QEYNTFATGGSDGYVNIWD---GFNKKRLCQFHRYDTGITSLFHQEYN---- 122
V +SFH N A+ G+D VN+WD G + + T + E+N
Sbjct: 128 VGIVSFHPSAMNVLASAGADMVVNVWDVERGKAVEVIKCHSDQITSL------EWNLDGS 181
Query: 123 TFATGGSDGYVNIWDGFNKKRLCQFHRYDTGITSLC 158
T D +NI D + + + + + C
Sbjct: 182 LLCTTSKDKKLNIIDPRDGTIVSSVEAHASAKSQRC 217
>gnl|CDD|233912 TIGR02535, hyp_Hser_kinase, proposed homoserine kinase. The genes
in this family are largely adjacent to genes involved in
the biosynthesis of threonine (aspartate kinase,
homoserine dehydrogenase and threonine synthase) in
genomes which are lacking any other known homoserine
kinase, and in which the presence of a homoserine kinase
would indicate a complete pathway for the biosynthesis
of threonine. These genes are a member of the (now
subfamily, formerly equivalog) TIGR00306 model
describing the archaeal form of
2,3-bisphosphoglycerate-independent phosphoglycerate
mutase. All of these are members of a superfamily
(pfam01676) of metalloenzyme also including
phosphopentomutase alkaline phosphatases and sulfatases.
The proposal that this family encodes a kinase is based
on analogy to phosphomutases which are intramolecular
phosphotransferases. A mutase active site could evolve
to bring together homoserine and a phosphate donor such
as phosphoenolpyruvate resulting in a kinase activity.
Length = 396
Score = 29.3 bits (66), Expect = 0.85
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 34 EGRAAVEYLDTGPEMQKMKYAFKCHRIK-EDGIEKIYPVNAIS 75
GRA +E G ++ + AF+C+ + EDG K + IS
Sbjct: 73 TGRAPLEAASIGVDLAPDEVAFRCNLVTVEDGKMKDFSAGHIS 115
>gnl|CDD|191430 pfam06021, Gly_acyl_tr_N, Aralkyl acyl-CoA:amino acid
N-acyltransferase. This family consists of several
mammalian specific aralkyl acyl-CoA:amino acid
N-acyltransferase (glycine N-acyltransferase) proteins
EC:2.3.1.13.
Length = 205
Score = 28.6 bits (64), Expect = 1.2
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 9 ESSLKFQTRCIKCFPN 24
E SL+F RCI+ FP+
Sbjct: 190 ERSLRFIERCIQDFPS 205
>gnl|CDD|116470 pfam07858, LEH, Limonene-1,2-epoxide hydrolase catalytic domain.
Epoxide hydrolases catalyze the hydrolysis of epoxides
to corresponding diols, which is important in
detoxification, synthesis of signal molecules, or
metabolism. Limonene-1,2- epoxide hydrolase (LEH)
differs from many other epoxide hydrolases in its
structure and its novel one-step catalytic mechanism.
Its main fold consists of a six-stranded mixed
beta-sheet, with three N-terminal alpha helices packed
to one side to create a pocket that extends into the
protein core. A fourth helix lies in such a way that it
acts as a rim to this pocket. Although mainly lined by
hydrophobic residues, this pocket features a cluster of
polar groups that lie at its deepest point and
constitute the enzyme's active site.
Length = 125
Score = 27.8 bits (62), Expect = 1.5
Identities = 13/36 (36%), Positives = 14/36 (38%)
Query: 30 LSSIEGRAAVEYLDTGPEMQKMKYAFKCHRIKEDGI 65
L +I GR L M FK HRI DG
Sbjct: 38 LPTIHGRDEAIALLRRMSMSIAAVEFKIHRIAADGG 73
>gnl|CDD|187809 cd09678, Csb1_I-U, CRISPR/Cas system-associated protein Csb1.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
RAMP superfamily protein; Contains several motifs
similar to Cas7 family; also known as GSU0053 family.
Length = 174
Score = 27.2 bits (60), Expect = 2.8
Identities = 12/41 (29%), Positives = 15/41 (36%), Gaps = 1/41 (2%)
Query: 66 EKIYPVNAISFHQEYNTFA-TGGSDGYVNIWDGFNKKRLCQ 105
E + PV TFA TG D I G ++C
Sbjct: 7 EPLMPVEGADGVLFPATFAPTGFPDLGYAIDKGPEGTKVCL 47
>gnl|CDD|240412 PTZ00420, PTZ00420, coronin; Provisional.
Length = 568
Score = 27.6 bits (61), Expect = 3.7
Identities = 20/74 (27%), Positives = 30/74 (40%), Gaps = 10/74 (13%)
Query: 83 FATGGSDGYVNIWDGFN--------KKRLC--QFHRYDTGITSLFHQEYNTFATGGSDGY 132
A+G D + +W+ + K C + H+ I Y + G D +
Sbjct: 90 LASGSEDLTIRVWEIPHNDESVKEIKDPQCILKGHKKKISIIDWNPMNYYIMCSSGFDSF 149
Query: 133 VNIWDGFNKKRLCQ 146
VNIWD N+KR Q
Sbjct: 150 VNIWDIENEKRAFQ 163
Score = 26.5 bits (58), Expect = 7.4
Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 71 VNAISFH-QEYNTFATGGSDGYVNIWDGFNKKRLCQ 105
++ I ++ Y + G D +VNIWD N+KR Q
Sbjct: 128 ISIIDWNPMNYYIMCSSGFDSFVNIWDIENEKRAFQ 163
>gnl|CDD|235662 PRK05986, PRK05986, cob(I)alamin adenolsyltransferase/cobinamide
ATP-dependent adenolsyltransferase; Validated.
Length = 191
Score = 27.0 bits (61), Expect = 3.9
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 4/38 (10%)
Query: 33 IEGRAA----VEYLDTGPEMQKMKYAFKCHRIKEDGIE 66
I GR A +E D EM+ +K+ F + GIE
Sbjct: 153 ITGRGAPRELIEAADLVTEMRPVKHPFDAGVKAQKGIE 190
>gnl|CDD|188164 TIGR01751, crot-CoA-red, crotonyl-CoA reductase. The enzyme
modelled by This model is responsible for the
conversion of crotonyl-CoA reductase to butyryl-CoA. In
serine cycle methylotrophic bacteria this enzyme is
involved in the process of acetyl-CoA to glyoxylate. In
other bacteria the enzyme is used to produce butyrate
for incorporation into polyketides such as tylosin from
Streptomyces fradiae and coronatine from Pseudomonas
syringae.
Length = 398
Score = 26.7 bits (59), Expect = 7.2
Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 4/30 (13%)
Query: 70 PVNAISFHQEYNT----FATGGSDGYVNIW 95
PV+ +F ++Y F GSD +W
Sbjct: 61 PVSTFAFLRKYGKLDLPFHIIGSDASGVVW 90
>gnl|CDD|153387 cd07950, Gallate_Doxase_N, The N-terminal domain of the Class III
extradiol dioxygenase, Gallate Dioxygenase, which
catalyzes the oxidization and subsequent ring-opening of
gallate. Gallate Dioxygenase catalyzes the oxidization
and subsequent ring-opening of gallate, an intermediate
in the degradation of the aromatic compound, syringate.
The reaction product of gallate dioxygenase is
4-oxalomesaconate. The amino acid sequence of the
N-terminal and C-terminal regions of gallate dioxygenase
exhibits homology with the sequence of PCA
4,5-dioxygenase B (catalytic) and A subunits,
respectively. The enzyme is estimated to be a homodimer
according to the Escherichia coli enzyme. LigAB-like
enzymes are usually composed of two subunits, designated
A and B, which form a tetramer composed of two copies of
each subunit. In this subfamily, the subunits A and B
are fused to make a single polypeptide chain. The dimer
interface for this subfamily may resemble the tetramer
interface of classical LigAB enzymes. Gallate
Dioxygenase belongs to the class III extradiol
dioxygenase family, a group of enzymes which use a
non-heme Fe(II) to cleave aromatic rings between a
hydroxylated carbon and an adjacent non-hydroxylated
carbon.
Length = 277
Score = 26.2 bits (58), Expect = 7.5
Identities = 12/36 (33%), Positives = 17/36 (47%)
Query: 109 YDTGITSLFHQEYNTFATGGSDGYVNIWDGFNKKRL 144
Y+ +TS F Y+ FA G D Y +G + L
Sbjct: 56 YNDHVTSFFFDHYSAFALGVGDSYEVADEGGGPRDL 91
>gnl|CDD|224078 COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase subunit B [Energy
production and conversion].
Length = 463
Score = 26.5 bits (59), Expect = 8.3
Identities = 21/65 (32%), Positives = 29/65 (44%), Gaps = 5/65 (7%)
Query: 6 QRRESSLKFQTRCIKCFPNKQGYVLSSIEGRAAVEYLDTGPEMQKMKYAFKCHRIKEDGI 65
+R LKF + F + Y SIE E LD G E+ + + RIK D I
Sbjct: 398 ERDRKYLKFADLFEQRFIKQGRYENRSIE-----ETLDLGWELLSILPESELTRIKPDLI 452
Query: 66 EKIYP 70
+K +P
Sbjct: 453 DKYHP 457
>gnl|CDD|200496 cd11235, Sema_semaphorin, The Sema domain, a protein interacting
module, of semaphorins. Semaphorins are regulator
molecules in the development of the nervous system and
in axonal guidance. They also play important roles in
other biological processes, such as angiogenesis, immune
regulation, respiration systems and cancer. They can be
divided into 7 classes. Vertebrates have members in
classes 3-7, whereas classes 1 and 2 are known only in
invertebrates. Class 2 and 3 semaphorins are secreted
proteins; classes 1 and 4 through 6 are transmembrane
proteins; and class 7 is membrane associated via
glycosylphosphatidylinositol (GPI) linkage. The
semaphorins exert their function through their
receptors, the neuropilin and plexin families. The Sema
domain is located at the N-terminus and contains four
disulfide bonds formed by eight conserved cysteine
residues. It serves as a receptor-recognition and
-binding module.
Length = 437
Score = 26.2 bits (58), Expect = 9.5
Identities = 9/23 (39%), Positives = 9/23 (39%), Gaps = 1/23 (4%)
Query: 85 TGGSDGYVNIWDGFNKKRL-CQF 106
GGS W F K RL C
Sbjct: 204 QGGSRSLEKKWTTFLKARLNCSV 226
Score = 26.2 bits (58), Expect = 9.5
Identities = 9/23 (39%), Positives = 9/23 (39%), Gaps = 1/23 (4%)
Query: 126 TGGSDGYVNIWDGFNKKRL-CQF 147
GGS W F K RL C
Sbjct: 204 QGGSRSLEKKWTTFLKARLNCSV 226
>gnl|CDD|213993 cd07438, PHP_HisPPase_AMP, Polymerase and Histidinol Phosphatase
domain of Histidinol phosphate phosphatase (HisPPase)
AMP bound. The PHP domain of this HisPPase family has
an unknown function. It has a second domain inserted in
the middle that binds adenosine 5-monophosphate (AMP).
The PHP (also called histidinol phosphatase-2/HIS2)
domain is associated with several types of DNA
polymerases, such as PolIIIA and family X DNA
polymerases, stand alone histidinol phosphate
phosphatases (HisPPases), and a number of
uncharacterized protein families. HisPPase catalyzes the
eighth step of histidine biosynthesis, in which
L-histidinol phosphate undergoes dephosphorylation to
give histidinol. The PHP domain has four conserved
sequence motifs and contains an invariant histidine that
is involved in metal ion coordination. The PHP domain of
HisPPase is structurally homologous to the other members
of the PHP family that have a distorted (beta/alpha)7
barrel fold with a trinuclear metal site on the
C-terminal side of the barrel.
Length = 155
Score = 25.8 bits (58), Expect = 9.8
Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 11/36 (30%)
Query: 63 DGIEKIYP---------VNAISFHQEYNTFATGGSD 89
DGIE +P + ++ +EY TGGSD
Sbjct: 119 DGIEVYHPYHSPEDRERLLELA--KEYGLLVTGGSD 152
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
0.323 0.139 0.447
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: 8,179,805
Number of extensions: 713289
Number of successful extensions: 483
Number of sequences better than 10.0: 1
Number of HSP's gapped: 468
Number of HSP's successfully gapped: 37
Length of query: 162
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 73
Effective length of database: 6,990,096
Effective search space: 510277008
Effective search space used: 510277008
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.0 bits)