RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11903
(179 letters)
>gnl|CDD|220641 pfam10235, Cript, Microtubule-associated protein CRIPT. The CRIPT
protein is a cytoskeletal protein involved in
microtubule production. The C-terminal domain is
essential for binding to the PDZ3 domain of the SAP90
protein, one of a super-family of PDZ-containing
proteins that play an important role in coupling the
membrane ion channels with their signalling partners.
SAP90 is concentrated in the post synaptic density of
glutamatergic neurons.
Length = 89
Score = 133 bits (336), Expect = 4e-41
Identities = 58/90 (64%), Positives = 67/90 (74%), Gaps = 1/90 (1%)
Query: 90 GKVITPDNWKSGSRNTIESGGRRIGENKALTASKARFNPYTQKFESCKICRQKVHQVGSH 149
K+ TPD WK G+RNT GGR+I +NK L+ KA+ NPY Q CKIC+ KVHQ GS
Sbjct: 1 TKLATPDVWKKGARNTATLGGRKINKNKLLS-KKAKRNPYAQYSSKCKICKTKVHQKGSK 59
Query: 150 YCQACAYKKGICAMCGKKLLDVKNYKQSAA 179
YCQ CAYKKGICAMCGKK+LD KNYKQS+
Sbjct: 60 YCQRCAYKKGICAMCGKKILDTKNYKQSSV 89
>gnl|CDD|185696 cd09019, galactose_mutarotase_like, galactose mutarotase_like.
Galactose mutarotase catalyzes the conversion of
beta-D-galactose to alpha-D-galactose. Beta-D-galactose
is produced by the degradation of lactose, a
disaccharide composed of beta-D-glucose and
beta-D-galactose. This epimerization reaction is the
first step in the four-step Leloir pathway, which
converts galactose into metabolically important
glucose. This epimerization step is followed by the
phosophorylation of alpha-D-galactose by galactokinase,
an enzyme which can only act on the alpha anomer. A
glutamate and a histidine residue of the galactose
mutarotase have been shown to be critical for
catalysis, the glutamate serves as the active site base
to initiate the reaction by removing the proton from
the C-1 hydroxyl group of the sugar substrate, and the
histidine as the active site acid to protonate the C-5
ring oxygen. Galactose mutarotase is a member of the
aldose-1-epimerase superfamily.
Length = 326
Score = 79.1 bits (196), Expect = 5e-18
Identities = 26/53 (49%), Positives = 37/53 (69%), Gaps = 4/53 (7%)
Query: 30 RFTLTNSQRMSVQVIDYGATITTIKVPDKRGNVDDVVLGFDDMREEI----YF 78
+TLTN + V +++YGATI ++KVPDK G + DVVLGFDD+ + + YF
Sbjct: 1 LYTLTNGNGLRVSILNYGATIQSLKVPDKNGKLRDVVLGFDDLEDYLKNSPYF 53
>gnl|CDD|215098 PLN00194, PLN00194, aldose 1-epimerase; Provisional.
Length = 337
Score = 56.6 bits (137), Expect = 6e-10
Identities = 19/40 (47%), Positives = 29/40 (72%)
Query: 35 NSQRMSVQVIDYGATITTIKVPDKRGNVDDVVLGFDDMRE 74
+ +SV++ +YGATIT++ +PDK G + DVVLGFD +
Sbjct: 15 KNGNISVKLTNYGATITSLILPDKNGKLADVVLGFDSVEP 54
>gnl|CDD|216397 pfam01263, Aldose_epim, Aldose 1-epimerase.
Length = 301
Score = 53.2 bits (128), Expect = 8e-09
Identities = 19/46 (41%), Positives = 27/46 (58%), Gaps = 3/46 (6%)
Query: 29 RRFTLTNSQRMSVQVIDYGATITTIKVPDKRGNVDDVVLGFDDMRE 74
TLTN +S + YGAT+ ++KVPDK ++V+LG DD
Sbjct: 1 DLITLTNGNGLSATISLYGATLLSLKVPDK---GEEVLLGSDDADG 43
>gnl|CDD|182931 PRK11055, galM, galactose-1-epimerase; Provisional.
Length = 342
Score = 47.2 bits (113), Expect = 9e-07
Identities = 18/49 (36%), Positives = 28/49 (57%)
Query: 26 LPVRRFTLTNSQRMSVQVIDYGATITTIKVPDKRGNVDDVVLGFDDMRE 74
P R TL N+ M V ++D+GAT + +VP G+V +V+LG +
Sbjct: 7 QPYRLLTLRNNAGMVVTLMDWGATWLSCRVPLSDGSVREVLLGCASPED 55
>gnl|CDD|233958 TIGR02636, galM_Leloir, galactose mutarotase. Members of this
protein family act as galactose mutarotase (D-galactose
1-epimerase) and participate in the Leloir pathway for
galactose/glucose interconversion. All members of the
seed alignment for this model are found in gene
clusters with other enzymes of the Leloir pathway. This
enzyme family belongs to the aldose 1-epimerase family,
described by Pfam model pfam01263. However, the enzyme
described as aldose 1-epimerase itself (EC 5.1.3.3) is
called broadly specific for D-glucose, L-arabinose,
D-xylose, D-galactose, maltose and lactose. The
restricted genome context for genes in this family
suggests members should act primarily on D-galactose.
Length = 336
Score = 45.0 bits (107), Expect = 5e-06
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 26 LPVRRFTLTNSQRMSVQVIDYGATITTIKVPDKRGNVDDVVLGFDDMRE 74
P + TLTN M++ +D GAT + +VP G + +V+LGF E
Sbjct: 2 QPAQLITLTNKNGMTISFMDIGATWLSCQVP-LAGELREVLLGFASAEE 49
>gnl|CDD|224928 COG2017, GalM, Galactose mutarotase and related enzymes
[Carbohydrate transport and metabolism].
Length = 308
Score = 42.0 bits (99), Expect = 6e-05
Identities = 21/48 (43%), Positives = 29/48 (60%), Gaps = 5/48 (10%)
Query: 27 PVRRFTLTNSQRMSVQVIDYGATITTIKVPDKRGNVDDVVLGFDDMRE 74
PVR TL N M V V D+GAT+T+++V N +++LGFDD
Sbjct: 11 PVRLLTLGNGGGMVVTVPDWGATLTSLRV-----NGRNLLLGFDDAES 53
>gnl|CDD|192485 pfam10217, DUF2039, Uncharacterized conserved protein (DUF2039).
This entry is a region of approximately 100 residues
containing three pairs of cysteine residues. The region
is conserved from plants to humans but its function is
unknown.
Length = 92
Score = 30.8 bits (70), Expect = 0.11
Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 123 KARFNPYTQKFES--CKICRQK-VHQVGSHYCQACAYKKGICAMCGKK 167
K ++ Y + C C+QK V H C CA K +CA C K
Sbjct: 43 KVKYGKYKPLTQPKKCNKCQQKTVRHAYHHICDDCALKLKVCAKCQKP 90
>gnl|CDD|223344 COG0266, Nei, Formamidopyrimidine-DNA glycosylase [DNA replication,
recombination, and repair].
Length = 273
Score = 30.7 bits (70), Expect = 0.36
Identities = 7/35 (20%), Positives = 13/35 (37%), Gaps = 5/35 (14%)
Query: 125 RFNPYTQKFESCKICRQKVHQV-----GSHYCQAC 154
Y + E C+ C + ++ + YC C
Sbjct: 237 ELKVYGRAGEPCRRCGTPIEKIKLGGRSTFYCPVC 271
>gnl|CDD|173271 PRK14810, PRK14810, formamidopyrimidine-DNA glycosylase;
Provisional.
Length = 272
Score = 29.9 bits (67), Expect = 0.67
Identities = 16/61 (26%), Positives = 22/61 (36%), Gaps = 9/61 (14%)
Query: 103 RNTIESGGRRIGENKALTASKARF----NPYTQKFESCKICRQKVHQV-----GSHYCQA 153
R IE GG + + F Y + E C C+ + +V SHYC
Sbjct: 210 REAIELGGSSVSDYVDAEGRSGFFQLSHRVYQRTGEPCLNCKTPIRRVVVAGRSSHYCPH 269
Query: 154 C 154
C
Sbjct: 270 C 270
>gnl|CDD|212025 cd11635, HR1_PKN2_3, Third Protein kinase C-related kinase homology
region 1 (HR1) Rho-binding domain of Protein Kinase N2.
PKN2, also called PKNgamma or Protein-kinase C-related
kinase 2 (PRK2), is a serine/threonine protein kinase
and an effector of the small GTPase Rho/Rac. It
regulates G2/M cell cycle progression and the exit from
cytokinesis. It also phosphorylates hepatitis C virus
(HCV) RNA polymerase and thus, plays a role in HCV RNA
replication. PKN2 shares a common domain architecture
with other PKNs, containing three HR1 domains, a C2
domain, and a kinase domain. In addition, PKN2 contains
a proline-rich region in between its C2 and kinase
domains and has been shown to associate with SH3 domain
containing proteins like NCK and Grb4. This model
characterizes the third HR1 domain of PKN2. HR1 domains
are anti-parallel coiled-coil (ACC) domains that bind
small GTPases from the Rho family; PKN2 specifically
binds to RhoA GTPase in a GTP-dependent manner. The HR1
domains of PKN2, together with its C2 domain, also
facilitate the recruitment of PKN2 to primordial
junctions at nascent cell-cell contacts, where it
promotes junctional maturation.
Length = 74
Score = 27.7 bits (61), Expect = 1.1
Identities = 13/38 (34%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 101 GSRNTIES-GGRRIGENKALTASKARFNPYTQKFESCK 137
G++N ++ G ++ + KAL+ ++ARFN +QK + K
Sbjct: 27 GAKNVMKLLGSGKVTDRKALSEAQARFNESSQKLDLLK 64
>gnl|CDD|182958 PRK11096, ansB, L-asparaginase II; Provisional.
Length = 347
Score = 28.5 bits (64), Expect = 2.0
Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 6/54 (11%)
Query: 36 SQRMSVQVIDYGATITTIKVPDKRGNVDDVVL--GFDDMREEIYFIMVCSKCEK 87
SQ M+ +V A K+ D V+ G D M E YF+ + KC+K
Sbjct: 79 SQDMNDEVWLTLAK----KINTDCDKTDGFVITHGTDTMEETAYFLDLTVKCDK 128
>gnl|CDD|219206 pfam06863, DUF1254, Protein of unknown function (DUF1254). This
family represents a conserved region about 130 residues
long within hypothetical proteins of unknown function.
Family members include eukaryotic, bacterial and
archaeal proteins.
Length = 126
Score = 27.2 bits (61), Expect = 2.6
Identities = 15/72 (20%), Positives = 22/72 (30%), Gaps = 3/72 (4%)
Query: 43 VIDYGATITTIKVPDKRGNVDDVVLGFDDMREEIYFIMVCSKCEKKLGK-VITPDNWKSG 101
+D I+VPD G L D + + K GK +I W G
Sbjct: 30 WLDLSDGPVVIEVPDTGGRY--YSLQVLDAWTNTFADLGTRTTGGKGGKYLIVGPGWPGG 87
Query: 102 SRNTIESGGRRI 113
+ S +
Sbjct: 88 VPRVVRSPTNYV 99
>gnl|CDD|183194 PRK11556, PRK11556, multidrug efflux system subunit MdtA;
Provisional.
Length = 415
Score = 27.8 bits (62), Expect = 3.2
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 9/51 (17%)
Query: 22 NGQVLPVRRFTLTNSQRMSVQV-------IDYGATITTIKVPDKRGNVDDV 65
G+ L V + TNS+++S ID AT TIK+ + N DD
Sbjct: 254 AGKPLVVEAWDRTNSKKLSEGTLLSLDNQID--ATTGTIKLKARFNNQDDA 302
>gnl|CDD|233031 TIGR00577, fpg, formamidopyrimidine-DNA glycosylase (fpg). All
proteins in the FPG family with known functions are
FAPY-DNA glycosylases that function in base excision
repair. Homologous to endonuclease VIII (nei). This
family is based on the phylogenomic analysis of JA Eisen
(1999, Ph.D. Thesis, Stanford University) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 272
Score = 27.7 bits (62), Expect = 3.6
Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 5/31 (16%)
Query: 129 YTQKFESCKIC-----RQKVHQVGSHYCQAC 154
Y +K E C+ C + KV G+H+C C
Sbjct: 241 YGRKGEPCRRCGTPIEKIKVGGRGTHFCPQC 271
>gnl|CDD|234899 PRK01103, PRK01103, formamidopyrimidine/5-formyluracil/
5-hydroxymethyluracil DNA glycosylase; Validated.
Length = 274
Score = 27.4 bits (62), Expect = 4.1
Identities = 7/34 (20%), Positives = 13/34 (38%), Gaps = 5/34 (14%)
Query: 126 FNPYTQKFESCKIC-----RQKVHQVGSHYCQAC 154
Y ++ E C+ C + K + +C C
Sbjct: 238 LQVYGREGEPCRRCGTPIEKIKQGGRSTFFCPRC 271
>gnl|CDD|233301 TIGR01175, pilM, type IV pilus assembly protein PilM. This protein
is required for the assembly of the type IV fimbria in
Pseudomonas aeruginosa responsible for twitching
motility, and for a similar pilus-like structure in
Synechocystis. It is also found in species such as
Deinococcus described as having natural transformation
(for which a type IV pilus-like structure is proposed)
but not fimbria.
Length = 348
Score = 27.4 bits (61), Expect = 4.6
Identities = 9/43 (20%), Positives = 19/43 (44%), Gaps = 2/43 (4%)
Query: 36 SQRMSVQVIDYGATITTIKV--PDKRGNVDDVVLGFDDMREEI 76
+ ++D GAT +T+ + P + +V G + E+
Sbjct: 185 YRLTDAALVDIGATSSTLNLLHPGRMLFTREVPFGTRQLTSEL 227
>gnl|CDD|150957 pfam10367, Vps39_2, Vacuolar sorting protein 39 domain 2. This
domain is found on the vacuolar sorting protein Vps39
which is a component of the C-Vps complex. Vps39 is
thought to be required for the fusion of endosomes and
other types of transport intermediates with the
vacuole. In Saccharomyces cerevisiae, Vps39 has been
shown to stimulate nucleotide exchange. This domain is
involved in localisation and in mediating the
interactions of Vps39 with Vps11.
Length = 109
Score = 26.4 bits (59), Expect = 4.6
Identities = 8/21 (38%), Positives = 12/21 (57%), Gaps = 3/21 (14%)
Query: 80 MVCSKCEKKLGK---VITPDN 97
VC+ C K+LG V+ P+
Sbjct: 79 SVCAVCHKRLGNSVFVVYPNG 99
>gnl|CDD|113218 pfam04439, Adenyl_transf, Streptomycin adenylyltransferase. Also
known as Aminoglycoside 6- adenylyltransferase
(EC:2.7.7.-), this protein confers resistance to
aminoglycoside antibiotics.
Length = 282
Score = 26.2 bits (58), Expect = 9.2
Identities = 6/40 (15%), Positives = 14/40 (35%)
Query: 118 ALTASKARFNPYTQKFESCKICRQKVHQVGSHYCQACAYK 157
A + + Y + ++S +C + + YK
Sbjct: 225 AKLEATYSMSDYEEIWQSLFLCCDLFREYSKEVSEKLEYK 264
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
0.320 0.135 0.404
Gapped
Lambda K H
0.267 0.0770 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,866,174
Number of extensions: 778920
Number of successful extensions: 651
Number of sequences better than 10.0: 1
Number of HSP's gapped: 648
Number of HSP's successfully gapped: 24
Length of query: 179
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 88
Effective length of database: 6,901,388
Effective search space: 607322144
Effective search space used: 607322144
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: 56 (25.3 bits)