RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7554
(115 letters)
>gnl|CDD|234626 PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase;
Reviewed.
Length = 307
Score = 70.5 bits (174), Expect = 7e-16
Identities = 22/47 (46%), Positives = 32/47 (68%)
Query: 57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
+ VY+G+D+ T K T EE G+PHHL+D LDP ++V D++ AL
Sbjct: 38 MQVYRGMDIGTAKPTAEERAGVPHHLIDILDPTESYSVADFQRDALA 84
>gnl|CDD|223401 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase
[Translation, ribosomal structure and biogenesis].
Length = 308
Score = 68.4 bits (168), Expect = 5e-15
Identities = 19/46 (41%), Positives = 29/46 (63%)
Query: 59 VYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKH 104
VY+GLD+ T K + EE G+PHHL+D DP ++ +++ AL
Sbjct: 39 VYRGLDIGTAKPSLEELAGVPHHLIDIRDPTESYSAAEFQRDALAA 84
>gnl|CDD|216659 pfam01715, IPPT, IPP transferase. This is a family of IPP
transferases EC:2.5.1.8 also known as tRNA
delta(2)-isopentenylpyrophosphate transferase. These
enzymes modify both cytoplasmic and mitochondrial tRNAs
at A(37) to give isopentenyl A(37).
Length = 253
Score = 63.1 bits (154), Expect = 3e-13
Identities = 20/45 (44%), Positives = 32/45 (71%)
Query: 59 VYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
VYKG+D+ T K + EE +G+PHHL+D LDP ++ +++ AL+
Sbjct: 3 VYKGMDIGTAKPSLEERKGVPHHLIDILDPTESYSAAEFQRDALE 47
>gnl|CDD|213512 TIGR00174, miaA, tRNA dimethylallyltransferase. Alternate names
include delta(2)-isopentenylpyrophosphate transferase,
IPP transferase, 2-methylthio-N6-isopentyladenosine tRNA
modification enzyme. Catalyzes the first step in the
modification of an adenosine near the anticodon to
2-methylthio-N6-isopentyladenosine. Understanding of
substrate specificity has changed [Protein synthesis,
tRNA and rRNA base modification].
Length = 287
Score = 61.6 bits (150), Expect = 2e-12
Identities = 21/47 (44%), Positives = 34/47 (72%)
Query: 57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
+ +YKG+D+ T K + +E EGIPHHL+D LDP+ ++ D++ +AL
Sbjct: 33 MQIYKGMDIGTAKPSLQEREGIPHHLIDILDPSESYSAADFQTQALN 79
>gnl|CDD|215399 PLN02748, PLN02748, tRNA dimethylallyltransferase.
Length = 468
Score = 60.7 bits (147), Expect = 4e-12
Identities = 23/46 (50%), Positives = 32/46 (69%)
Query: 57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRAL 102
+ VY GLDV+TNKV E +G+PHHLL + P+ FT D+R+ A+
Sbjct: 56 MQVYSGLDVLTNKVPLHEQKGVPHHLLGVISPSVEFTAKDFRDHAV 101
>gnl|CDD|177823 PLN02165, PLN02165, adenylate isopentenyltransferase.
Length = 334
Score = 50.2 bits (120), Expect = 2e-08
Identities = 18/44 (40%), Positives = 29/44 (65%), Gaps = 1/44 (2%)
Query: 59 VYKGLDVITNKVTPEEAEGIPHHLLDFLDP-NTRFTVVDYRNRA 101
VY GL + TN++T ++ G+PHHLL L+P + T ++R+ A
Sbjct: 79 VYDGLKITTNQITIQDRRGVPHHLLGELNPDDGELTASEFRSLA 122
>gnl|CDD|215451 PLN02840, PLN02840, tRNA dimethylallyltransferase.
Length = 421
Score = 49.0 bits (117), Expect = 5e-08
Identities = 18/47 (38%), Positives = 30/47 (63%)
Query: 59 VYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALKHT 105
VY+GLDV + K + E + +PHHL+D L P+ ++V + + A + T
Sbjct: 57 VYRGLDVGSAKPSLSERKEVPHHLIDILHPSDDYSVGAFFDDARRAT 103
>gnl|CDD|173191 PRK14729, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase;
Provisional.
Length = 300
Score = 36.8 bits (85), Expect = 0.001
Identities = 17/47 (36%), Positives = 27/47 (57%)
Query: 57 LMVYKGLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRALK 103
+ VYK D+ + K + E + I HHL+DFL+P + + + ALK
Sbjct: 37 IQVYKEFDIASCKPSKELRKHIKHHLVDFLEPIKEYNLGIFYKEALK 83
>gnl|CDD|202916 pfam04174, CP_ATPgrasp_1, A circularly permuted ATPgrasp. An
ATP-grasp family that is present both as catalytically
active and inactive versions. Contextual analysis
suggests that it functions in a distinct peptide
synthesis/modification system that additionally contains
a transglutaminase, an NTN-hydrolase, the Alpha-E
domain, and a transglutaminase fused N-terminal to a
circularly permuted COOH-NH2 ligase. The inactive forms
are often fused N-terminal to the Alpha-E domain.
Length = 331
Score = 28.8 bits (65), Expect = 0.50
Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 16/57 (28%)
Query: 37 AHQ--VDLTDGPDLFCRTYQVYLMVYKGL---DVITNKVTPEEAEGIPHHLLDFLDP 88
A Q +L +G DL R +VY+ +GL DVI ++ DFLDP
Sbjct: 164 ARQLGAELVEGRDLTVRDGRVYMRTLEGLKRVDVIYRRLDD-----------DFLDP 209
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 28.8 bits (65), Expect = 0.54
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 77 GIPHHLLDFLDPNTRFTVVDYRNRALKHTGLKV 109
GIP +LDF++ T F + R ALK +G++V
Sbjct: 306 GIPPEVLDFVNYPTTFDSRETR-AALKGSGIEV 337
>gnl|CDD|239727 cd03758, proteasome_beta_type_2, proteasome beta type-2 subunit.
The 20S proteasome, multisubunit proteolytic complex, is
the central enzyme of nonlysosomal protein degradation
in both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis.Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 193
Score = 27.9 bits (63), Expect = 0.94
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 7/42 (16%)
Query: 2 SLRPATHYQVNLLTGTPDQV------YLSYL-SCLPDSVCPH 36
SLR T YQVNLL D+V Y+ YL + + H
Sbjct: 91 SLRSRTPYQVNLLLAGYDKVEGPSLYYIDYLGTLVKVPYAAH 132
>gnl|CDD|131679 TIGR02631, xylA_Arthro, xylose isomerase, Arthrobacter type. This
model describes a D-xylose isomerase that is also active
as a D-glucose isomerase. It is tetrameric and dependent
on a divalent cation Mg2+, Co2+ or Mn2+ as characterized
in Arthrobacter. Members of this family differ
substantially from the D-xylose isomerases of family
TIGR02630.
Length = 382
Score = 27.9 bits (62), Expect = 1.3
Identities = 15/43 (34%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 75 AEGIPHHLLDFL----DPNTRFTVVDYRNRALKHTGLKVDLTT 113
A G+ H D + P R +V +AL TGLKV + T
Sbjct: 46 AYGVTFHDDDLIPFGAPPQERDQIVRRFKKALDETGLKVPMVT 88
>gnl|CDD|238751 cd01474, vWA_ATR, ATR (Anthrax Toxin Receptor): Anthrax toxin is a
key virulence factor for Bacillus anthracis, the
causative agent of anthrax. ATR is the cellular receptor
for the anthrax protective antigen and facilitates entry
of the toxin into cells. The VWA domain in ATR contains
the toxin binding site and mediates interaction with
protective antigen. The binding is mediated by divalent
cations that binds to the MIDAS motif. These proteins
are a family of vertebrate ECM receptors expressed by
endothelial cells.
Length = 185
Score = 27.5 bits (61), Expect = 1.3
Identities = 10/36 (27%), Positives = 14/36 (38%), Gaps = 3/36 (8%)
Query: 75 AEGIPHHLLDFLDPNTRFTVVDYRNRALKHTGLKVD 110
E + F P RF+ + + RA K L D
Sbjct: 28 VEQLVDR---FNSPGLRFSFITFSTRATKILPLTDD 60
>gnl|CDD|143609 cd07585, nitrilase_7, Uncharacterized subgroup of the nitrilase
superfamily (putative class 13 nitrilases). The
nitrilase superfamily is comprised of nitrile- or
amide-hydrolyzing enzymes and amide-condensing enzymes,
which depend on a Glu-Lys-Cys catalytic triad. This
superfamily has been classified in the literature based
on global and structure based sequence analysis into
thirteen different enzyme classes (referred to as 1-13).
Class 13 represents proteins that at the time were
difficult to place in a distinct similarity group; this
subgroup represents either a new class or one that was
included previously in class 13. Members of this
superfamily generally form homomeric complexes, the
basic building block of which is a homodimer.
Length = 261
Score = 27.3 bits (61), Expect = 1.6
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 6 ATHYQVNLLTGT----PDQVYLSYLSCLPD 31
A Y + +L G D+ Y +YL CLPD
Sbjct: 71 ARRYGLTILAGLIEKAGDRPYNTYLVCLPD 100
>gnl|CDD|138873 PRK12320, PRK12320, hypothetical protein; Provisional.
Length = 699
Score = 27.6 bits (61), Expect = 1.8
Identities = 11/34 (32%), Positives = 14/34 (41%)
Query: 77 GIPHHLLDFLDPNTRFTVVDYRNRALKHTGLKVD 110
GI H D LDP + RN L+ + D
Sbjct: 29 GIAQHPHDALDPRVDYVCASLRNPVLQELAGEAD 62
>gnl|CDD|237375 PRK13395, PRK13395, ureidoglycolate hydrolase; Provisional.
Length = 171
Score = 26.7 bits (59), Expect = 2.2
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 75 AEGIPHHLLDFLDPNTRFTVVD 96
A+G+ HH L LD + F VVD
Sbjct: 121 AKGVWHHPLLALDAVSDFVVVD 142
>gnl|CDD|173747 cd07852, STKc_MAPK15, Catalytic domain of the Serine/Threonine
Kinase, Mitogen-Activated Protein Kinase 15.
Serine/Threonine Kinases (STKs), Mitogen-Activated
Protein Kinase 15 (MAPK15) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The MAPK15 subfamily is
part of a larger superfamily that includes the catalytic
domains of other protein STKs, protein tyrosine kinases,
RIO kinases, aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase. MAPKs are
important mediators of cellular responses to
extracellular signals. Human MAPK15 is also called
Extracellular signal Regulated Kinase 8 (ERK8) while the
rat protein is called ERK7. ERK7 and ERK8 display both
similar and different biochemical properties. They
autophosphorylate and activate themselves and do not
require upstream activating kinases. ERK7 is
constitutively active and is not affected by
extracellular stimuli whereas ERK8 shows low basal
activity and is activated by DNA-damaging agents. ERK7
and ERK8 also have different substrate profiles. Genome
analysis shows that they are orthologs with similar gene
structures. ERK7 and ERK 8 may be involved in the
signaling of some nuclear receptor transcription
factors. ERK7 regulates hormone-dependent degradation of
estrogen receptor alpha while ERK8 down-regulates the
transcriptional co-activation androgen and
glucocorticoid receptors.
Length = 337
Score = 26.4 bits (59), Expect = 3.5
Identities = 9/29 (31%), Positives = 17/29 (58%)
Query: 72 PEEAEGIPHHLLDFLDPNTRFTVVDYRNR 100
P + +P+ + LD N + +V +YRN+
Sbjct: 304 PSDEPVLPYPITIPLDDNVKLSVAEYRNK 332
>gnl|CDD|133470 cd01415, SAICAR_synt_PurC, bacterial and archaeal
5-aminoimidazole-4-(N-succinylcarboxamide)
ribonucleotide (SAICAR) synthase. A subfamily of
SAICAR synthetases represented by the Thermotoga
maritima (Tm) enzyme and E. coli PurC. SAICAR
synthetase catalyzes the seventh step of the de novo
biosynthesis of purine nucleotides (also reported as
eighth step). It converts
5-aminoimidazole-4-carboxyribonucleotide (CAIR), ATP,
and L-aspartate into
5-aminoimidazole-4-(N-succinylcarboxamide)
ribonucleotide (SAICAR), ADP, and phosphate.
Length = 230
Score = 26.3 bits (59), Expect = 3.6
Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 7/35 (20%)
Query: 61 KGLDVITNKVTPE-----EAEGIPHHLLDFLDPNT 90
KG V+ N+++ E GI H ++ L
Sbjct: 41 KG--VLNNEISALIFKYLEENGIKTHFIEKLSDRE 73
>gnl|CDD|183756 PRK12799, motB, flagellar motor protein MotB; Reviewed.
Length = 421
Score = 26.6 bits (58), Expect = 3.8
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 79 PHHLLDFLDPNTRFTVVDYRNRALKHTG 106
PH L++ +D R ++D +NR + G
Sbjct: 136 PHLLINMMDEGLRIQIIDSQNRPMFKMG 163
>gnl|CDD|236550 PRK09529, PRK09529, bifunctional acetyl-CoA decarbonylase/synthase
complex subunit alpha/beta; Reviewed.
Length = 711
Score = 26.4 bits (59), Expect = 4.3
Identities = 15/54 (27%), Positives = 22/54 (40%), Gaps = 13/54 (24%)
Query: 62 GLDVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRN---RALKHTGLKVDLT 112
G VIT++ PE L + DY +AL+ G+KV +T
Sbjct: 256 GFPVITDQDVPEGICVPEWVL----------SEPDYDKIVQKALEVRGIKVTVT 299
>gnl|CDD|217715 pfam03759, PRONE, PRONE (Plant-specific Rop nucleotide exchanger).
This is a functional guanine exchange factor (GEF) of
plant Rho GTPase.
Length = 360
Score = 26.2 bits (58), Expect = 5.2
Identities = 11/37 (29%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 64 DVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNR 100
D I +T ++ P LLD LD ++ ++ NR
Sbjct: 217 DAIYRYITSDQFS--PDQLLDCLDLSSEHKALELANR 251
>gnl|CDD|184007 PRK13368, PRK13368, 3-deoxy-manno-octulosonate
cytidylyltransferase; Provisional.
Length = 238
Score = 25.7 bits (57), Expect = 5.5
Identities = 10/39 (25%), Positives = 12/39 (30%), Gaps = 6/39 (15%)
Query: 64 DVITNKVTPEEAEGIPHHLLDFLDPNTRFTVVDYRNRAL 102
+ P E +F PN VVD AL
Sbjct: 120 INVATLCAPISTEE------EFESPNVVKVVVDKNGDAL 152
>gnl|CDD|181800 PRK09362, PRK09362,
phosphoribosylaminoimidazole-succinocarboxamide
synthase; Reviewed.
Length = 238
Score = 25.5 bits (57), Expect = 6.2
Identities = 6/16 (37%), Positives = 8/16 (50%)
Query: 74 EAEGIPHHLLDFLDPN 89
E GIP H ++ L
Sbjct: 62 EEAGIPTHFIEKLSDR 77
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
0.321 0.138 0.426
Gapped
Lambda K H
0.267 0.0780 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,923,659
Number of extensions: 506552
Number of successful extensions: 435
Number of sequences better than 10.0: 1
Number of HSP's gapped: 435
Number of HSP's successfully gapped: 30
Length of query: 115
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 36
Effective length of database: 7,433,636
Effective search space: 267610896
Effective search space used: 267610896
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 (24.1 bits)