RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6915
(127 letters)
>gnl|CDD|219896 pfam08547, CIA30, Complex I intermediate-associated protein 30
(CIA30). This protein is associated with mitochondrial
Complex I intermediate-associated protein 30 (CIA30) in
human and mouse. The family is also present in
Schizosaccharomyces pombe which does not contain the
NADH dehydrogenase component of complex I, or many of
the other essential subunits. This means it is possible
that this family of protein may not be directly involved
in oxidative phosphorylation.
Length = 156
Score = 99.6 bits (249), Expect = 6e-28
Identities = 39/94 (41%), Positives = 52/94 (55%), Gaps = 4/94 (4%)
Query: 2 YNHLVIKCRGDGRSYMLNLHTPGDFDVTWGDMFTYALYTRGGPYWQITKIPFSKFFLQSK 61
Y L ++ +GDGR+Y NL T +F G + T+ G WQ KIPFS F +
Sbjct: 67 YTGLELRVKGDGRTYKFNLKTEDEF---DGLSYQADFDTKPGE-WQTVKIPFSDFKPTFR 122
Query: 62 GRIQDIQNPLDTDRISSIGLSLVDQNNGPFQLEL 95
GR+ D PLD RI IGL + D+ GPF+LE+
Sbjct: 123 GRVVDDAPPLDLSRIKQIGLLISDKQPGPFELEI 156
>gnl|CDD|233501 TIGR01637, phage_arpU, phage transcriptional regulator, ArpU
family. This model represents a family of phage
proteins, including ArpU, called a putative autolysin
regulatory protein. ArpU was described as a regulator of
cellular muramidase-2 of Enterococcus hirae but appears
to have been cloned from a prophage. This family appears
related to the RinA family of bacteriophage
transcriptional activators and to some
sporulation-specific sigma factors. We propose that this
is a phage transcriptional activator family [Mobile and
extrachromosomal element functions, Prophage functions,
Regulatory functions, DNA interactions].
Length = 132
Score = 28.5 bits (64), Expect = 0.70
Identities = 10/24 (41%), Positives = 11/24 (45%)
Query: 104 PNHTEEFAYEMYLFENEVRGIVNW 127
+ TEE A E E R IVN
Sbjct: 52 HSKTEEAAIHNLDAEQEARAIVNA 75
>gnl|CDD|216786 pfam01921, tRNA-synt_1f, tRNA synthetases class I (K). This family
includes only lysyl tRNA synthetases from prokaryotes.
Length = 357
Score = 27.2 bits (61), Expect = 2.4
Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 11/50 (22%)
Query: 82 SLVDQNNGPFQLELDYIGIEYDPNHTEEF--AYEMY---LFENEVRGIVN 126
S + N PF LD GIEY EF A E+Y L++ + +
Sbjct: 103 SYAEHFNAPFLEFLDRFGIEY------EFISATELYKSGLYDEAILLALE 146
>gnl|CDD|235732 PRK06189, PRK06189, allantoinase; Provisional.
Length = 451
Score = 27.4 bits (61), Expect = 2.4
Identities = 12/37 (32%), Positives = 17/37 (45%), Gaps = 4/37 (10%)
Query: 33 MFTYALYTRGGPYWQITKI----PFSKFFLQSKGRIQ 65
M T RG P I ++ P +F L KGR++
Sbjct: 343 MLTEGYIERGIPLETIARLLATNPAKRFGLPQKGRLE 379
>gnl|CDD|213960 TIGR04347, pseudo_SAM_Halo, pseudo-rSAM protein/SPASM domain
protein. Members of this family all have a C-terminal
SPASM domain (see model TIGR04085), a region usually
found as a C-terminal second 4Fe-4S domain of radical
SAM domain (see pfam04055) proteins. A majority of
rSAM/SPASM proteins modify ribosomally produced
peptides. In a few members of this family, the key Cys
residues of the radical SAM domain have been lost,
making this a pseudo-rSAM family. Members of this family
are restricted so far to Haloarchaea, always occur next
a member of family TIGR04031, and are often accompanied
by another rSAM/SPASM domain protein. The function of
this two or three gene cassette is unknown.
Length = 390
Score = 27.1 bits (60), Expect = 3.0
Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 95 LDYIGIEYD--PNHTEEFAYEMYLFENEVRGIVN 126
LDY G+ D P +EF + F+ VRGI N
Sbjct: 137 LDYAGVSVDGLPERNDEFRGKDGAFDAAVRGIEN 170
>gnl|CDD|219721 pfam08118, MDM31_MDM32, Yeast mitochondrial distribution and
morphology (MDM) proteins. Proteins in this family are
yeast mitochondrial inner membrane proteins MDM31 and
MDM32. These proteins are required for the maintenance
of mitochondrial morphology, and the stability of
mitochondrial DNA.
Length = 503
Score = 27.1 bits (60), Expect = 3.3
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 4 HLVIKCRGDGRSYMLNLHTPGDFDVTWGDM--FTYALYTRGG 43
H+ K D R+Y N+H PGDF+++ M + LY GG
Sbjct: 197 HVHWKADDDARNY-KNVHQPGDFEISNFKMNDVLFTLYQPGG 237
>gnl|CDD|224347 COG1430, COG1430, Uncharacterized conserved protein [Function
unknown].
Length = 126
Score = 26.1 bits (58), Expect = 4.0
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 40 TRGGPYW-QITKIPFSKFFLQSKGRIQDIQ 68
TR +W + T +P F+ S GR+ DI
Sbjct: 50 TRRVAFWMKNTMLPLDIIFIDSDGRVVDIV 79
>gnl|CDD|163661 cd07418, MPP_PP7, PP7, metallophosphatase domain. PP7 is a plant
phosphoprotein phosphatase that is highly expressed in a
subset of stomata and thought to play an important role
in sensory signaling. PP7 acts as a positive regulator
of signaling downstream of cryptochrome blue light
photoreceptors. PP7 also controls amplification of
phytochrome signaling, and interacts with
nucleotidediphosphate kinase 2 (NDPK2), a positive
regulator of phytochrome signalling. In addition, PP7
interacts with heat shock transcription factor HSF and
up-regulates protective heat shock proteins. PP7 may
also play a role in salicylic acid-dependent defense
signaling. The PPP (phosphoprotein phosphatase) family,
to which PP7 belongs, is one of two known protein
phosphatase families specific for serine and threonine.
The PPP family also includes: PP2A, PP2B (calcineurin),
PP4, PP5, PP6, Bsu1, RdgC, PrpE, PrpA/PrpB, and ApA4
hydrolase. The PPP catalytic domain is defined by three
conserved motifs (-GDXHG-, -GDXVDRG- and -GNHE-). The
PPP enzyme family is ancient with members found in all
eukaryotes, and in most bacterial and archeal genomes.
Dephosphorylation of phosphoserines and
phosphothreonines on target proteins plays a central
role in the regulation of many cellular processes. PPPs
belong to the metallophosphatase (MPP) superfamily.
MPPs are functionally diverse, but all share a conserved
domain with an active site consisting of two metal ions
(usually manganese, iron, or zinc) coordinated with
octahedral geometry by a cage of histidine, aspartate,
and asparagine residues. The MPP superfamily includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 377
Score = 26.7 bits (59), Expect = 4.3
Identities = 9/17 (52%), Positives = 10/17 (58%)
Query: 105 NHTEEFAYEMYLFENEV 121
NH +F MY FE EV
Sbjct: 134 NHESKFCTSMYGFEQEV 150
>gnl|CDD|215060 PLN00112, PLN00112, malate dehydrogenase (NADP); Provisional.
Length = 444
Score = 26.3 bits (58), Expect = 4.8
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 31 GDMFTYALYTRGGPYWQITKIPFSKFFLQSKG 62
GD F+ +YT G PY + FS +SKG
Sbjct: 356 GDWFSTGVYTDGNPYGIAEGLVFS-MPCRSKG 386
>gnl|CDD|180374 PRK06060, PRK06060, acyl-CoA synthetase; Validated.
Length = 705
Score = 26.5 bits (58), Expect = 4.9
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 23 PGDFDVTWGDMFTYALYTRG 42
PG ++ GD YA YT G
Sbjct: 136 PGGYEPMGGDALAYATYTSG 155
>gnl|CDD|224302 COG1384, LysS, Lysyl-tRNA synthetase (class I) [Translation,
ribosomal structure and biogenesis].
Length = 521
Score = 26.1 bits (58), Expect = 5.3
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 11/46 (23%)
Query: 82 SLVDQNNGPFQLELDYIGIEYDPNHTEEF--AYEMY---LFENEVR 122
S + PF+ LD GIE EF A E+Y L++ +R
Sbjct: 103 SYAEHFLRPFEEFLDEFGIEV------EFVSATELYKSGLYDEAIR 142
>gnl|CDD|215803 pfam00225, Kinesin, Kinesin motor domain.
Length = 326
Score = 26.0 bits (58), Expect = 6.9
Identities = 12/62 (19%), Positives = 21/62 (33%), Gaps = 6/62 (9%)
Query: 52 PFSKFFLQSKGRIQDIQNPLDTDRISSIGLSLVDQNNGPFQLELDYIGIEYDPNHTEEFA 111
P ++ + K R +D ++ D + +DP T+EF
Sbjct: 4 PLNE---REKSRGSSDIVNVDETDSEDKESVVITNKGREKTFTFDRV---FDPEATQEFV 57
Query: 112 YE 113
YE
Sbjct: 58 YE 59
>gnl|CDD|235870 PRK06834, PRK06834, hypothetical protein; Provisional.
Length = 488
Score = 25.7 bits (57), Expect = 8.8
Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 1/22 (4%)
Query: 12 DGRSYMLNLHTPGDFDVT-WGD 32
+ R +LNL PG FD+ W D
Sbjct: 407 NARPVLLNLGAPGAFDIAPWSD 428
>gnl|CDD|173825 cd00691, ascorbate_peroxidase, Ascorbate peroxidases and cytochrome
C peroxidases. Ascorbate peroxidases are a subgroup of
heme-dependent peroxidases of the plant superfamily that
share a heme prosthetic group and catalyze a multistep
oxidative reaction involving hydrogen peroxide as the
electron acceptor. Along with related
catalase-peroxidases, ascorbate peroxidases belong to
class I of the plant superfamily. Ascorbate peroxidases
are found in the chloroplasts and/or cytosol of algae
and plants, where they have been shown to control the
concentration of lethal hydrogen peroxide molecules. The
yeast cytochrome c peroxidase is a divergent member of
the family; it forms a complex with cytochrome c to
catalyze the reduction of hydrogen peroxide to water.
Length = 253
Score = 25.2 bits (56), Expect = 9.9
Identities = 10/31 (32%), Positives = 15/31 (48%), Gaps = 9/31 (29%)
Query: 27 DVTWGDMFTYALYTR----GGPYWQITKIPF 53
D+++ D++ A GGP KIPF
Sbjct: 87 DISYADLWQLAGVVAIEEMGGP-----KIPF 112
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
0.322 0.143 0.458
Gapped
Lambda K H
0.267 0.0732 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,612,375
Number of extensions: 572516
Number of successful extensions: 437
Number of sequences better than 10.0: 1
Number of HSP's gapped: 435
Number of HSP's successfully gapped: 25
Length of query: 127
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 42
Effective length of database: 7,167,512
Effective search space: 301035504
Effective search space used: 301035504
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 (21.9 bits)
S2: 53 (24.2 bits)