RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5754
(67 letters)
>gnl|CDD|222592 pfam14204, Ribosomal_L18_c, Ribosomal L18 C-terminal region.
This domain is the C-terminal end of ribosomal L18/L5
proteins.
Length = 93
Score = 52.9 bits (128), Expect = 4e-11
Identities = 30/51 (58%), Positives = 33/51 (64%), Gaps = 7/51 (13%)
Query: 1 MYKKAHENIRADPAHIKKEKKTPTVDSKGKIQKPKRWNKKKLTLAQRKERV 51
MYKKAH IRADP+ KKEKK +S KR+N KKLTL QRK RV
Sbjct: 47 MYKKAHAAIRADPSRKKKEKKEVKAES-------KRYNAKKLTLEQRKARV 90
>gnl|CDD|240254 PTZ00069, PTZ00069, 60S ribosomal protein L5; Provisional.
Length = 300
Score = 50.5 bits (121), Expect = 3e-09
Identities = 30/65 (46%), Positives = 39/65 (60%), Gaps = 6/65 (9%)
Query: 1 MYKKAHENIRADPAHIKKEKKTPTVDSKGKIQKPKRWNKKKLTLAQRKERVSTAKANFLK 60
MYKKAH IRA+P+ +KK+KK K K K++ KKLT QRK RV KA +
Sbjct: 240 MYKKAHAAIRANPSKVKKKKK------KKKKVVHKKYKTKKLTGKQRKARVKAKKAQRRE 293
Query: 61 KLGKE 65
+L K+
Sbjct: 294 RLQKK 298
>gnl|CDD|224733 COG1820, NagA, N-acetylglucosamine-6-phosphate deacetylase
[Carbohydrate transport and metabolism].
Length = 380
Score = 26.5 bits (59), Expect = 0.84
Identities = 14/63 (22%), Positives = 22/63 (34%), Gaps = 12/63 (19%)
Query: 2 YKKAHENIRADPAHIKKEKKTPTVDSKGKIQKPKRWNKKKLTLAQRKERVSTAKA-NFLK 60
K AH +P +I+ P + ++ K +TLA E T + L
Sbjct: 135 KKGAH-----NPEYIRP----PDPEELEQLIAAADGLIKLVTLA--PELDGTKELIRLLA 183
Query: 61 KLG 63
G
Sbjct: 184 NAG 186
>gnl|CDD|215096 PLN00192, PLN00192, aldehyde oxidase.
Length = 1344
Score = 26.2 bits (58), Expect = 1.1
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 5/36 (13%)
Query: 21 KTPTVDSKGKIQKPKRWNKKKLTLAQRKERVSTAKA 56
K PTVD+ PK++N + L K+RV ++KA
Sbjct: 1244 KIPTVDTI-----PKQFNVEILNSGHHKKRVLSSKA 1274
>gnl|CDD|130724 TIGR01663, PNK-3'Pase, polynucleotide 5'-kinase 3'-phosphatase.
This model represents the metazoan
5'-polynucleotide-kinase-3'-phosphatase, PNKP, which is
believed to be involved in repair of oxidative DNA
damage. Removal of 3' phosphates is essential for the
further processing of the break by DNA polymerases. The
central phosphatase domain is a member of the IIIA
subfamily (TIGR01662) of the haloacid dehalogenase (HAD)
superfamily of aspartate-nucleophile hydrolases. As is
common in this superfamily, the enzyme is magnesium
dependent. A difference between this enzyme and other
HAD-superfamily phosphatases is in the third conserved
catalytic motif which usually contains two conserved
aspartate residues believed to be involved in binding
the magnesium ion. Here, the second aspartate is
replaced by a conserved arginine residue which may
indicate an interaction with the phosphate backbone of
the substrate. Very close relatives of this domain are
also found separate from the N- and C-terminal domains
seen here, as in the 3'-phosphatase found in plants. The
larger family of these domains is described by
TIGR01664. Outside of the phosphatase domain is a P-loop
ATP-binding motif associated with the kinase activity.
The entry for the mouse homolog, GP|7108591, appears to
be missing a large piece of sequence corresponding to
the first conserved catalytic motif of the phosphatase
domain as well as the conserved threonine of the second
motif. Either this is a sequencing artifact or this may
represent a pseudo- or non-functional gene. Note that
the EC number for the kinase function is: 2.7.1.78.
Length = 526
Score = 26.1 bits (57), Expect = 1.5
Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 2/36 (5%)
Query: 7 ENIRADPAHIKKEKKTP--TVDSKGKIQKPKRWNKK 40
E KEK P + D K +KP++ ++K
Sbjct: 110 EETFNPEPEPDKEKAEPLSSQDEKRDAEKPEKRDRK 145
>gnl|CDD|223457 COG0380, OtsA, Trehalose-6-phosphate synthase [Carbohydrate
transport and metabolism].
Length = 486
Score = 25.7 bits (57), Expect = 2.0
Identities = 11/36 (30%), Positives = 17/36 (47%)
Query: 9 IRADPAHIKKEKKTPTVDSKGKIQKPKRWNKKKLTL 44
I DP ++ K+P+V K K + KKL +
Sbjct: 251 IGIDPEEFERALKSPSVQEKVLELKAELGRNKKLIV 286
>gnl|CDD|133036 cd04193, UDPGlcNAc_PPase, UDPGlcNAc pyrophosphorylase catalayzes
the synthesis of UDPGlcNAc. UDP-N-acetylglucosamine
(UDPGlcNAc) pyrophosphorylase (UAP) (also named GlcNAc1P
uridyltransferase), catalyzes the reversible conversion
of UTP and GlcNAc1 to PPi and UDPGlcNAc.
UDP-N-acetylglucosamine (UDPGlcNAc), the activated form
of GlcNAc, is a key precursor of N- and O-linked
glycosylations. It is essential for the synthesis of
chitin (a major component of the fungal cell wall) and
of the glycosylphosphatidylinositol (GPI) linker which
anchors a variety of cell surface proteins to the plasma
membrane. In bacteria, UDPGlcNAc represents an essential
precursor for both peptidoglycan and lipopolysaccharide
biosynthesis. Human UAP has two isoforms, resulting from
alternative splicing of a single gene and differing by
the presence or absence of 17 amino acids. UDPGlcNAc
pyrophosphorylase shares significant sequence and
structure conservation with UDPglucose
pyrophosphorylase.
Length = 323
Score = 25.6 bits (57), Expect = 2.1
Identities = 15/30 (50%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 13 PAHIKKEKKTPTVDSKGKIQKPKRWNKKKL 42
P HI K KK P VD +G + KP N KL
Sbjct: 263 PYHIAK-KKIPYVDLEGGLVKPDEPNGIKL 291
>gnl|CDD|182882 PRK10984, PRK10984, DNA-binding transcriptional regulator Crl;
Provisional.
Length = 127
Score = 25.3 bits (56), Expect = 2.2
Identities = 8/36 (22%), Positives = 14/36 (38%)
Query: 29 GKIQKPKRWNKKKLTLAQRKERVSTAKANFLKKLGK 64
G K W + + + ER+ F +KL +
Sbjct: 74 GLFDKEGNWVAEPIKDKEVVERLEHTLREFHEKLRE 109
>gnl|CDD|204792 pfam11947, DUF3464, Protein of unknown function (DUF3464). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria and eukaryotes.
Proteins in this family are typically between 137 to
196 amino acids in length.
Length = 149
Score = 24.6 bits (54), Expect = 3.5
Identities = 10/42 (23%), Positives = 16/42 (38%)
Query: 2 YKKAHENIRADPAHIKKEKKTPTVDSKGKIQKPKRWNKKKLT 43
+ E R+ +K +K SK K +KPK +
Sbjct: 6 KRLPFEPKRSRKKGVKALRKAAVAKSKDKQKKPKSKRAASES 47
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
0.309 0.123 0.340
Gapped
Lambda K H
0.267 0.0793 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,177,229
Number of extensions: 222470
Number of successful extensions: 223
Number of sequences better than 10.0: 1
Number of HSP's gapped: 217
Number of HSP's successfully gapped: 31
Length of query: 67
Length of database: 10,937,602
Length adjustment: 38
Effective length of query: 29
Effective length of database: 9,252,150
Effective search space: 268312350
Effective search space used: 268312350
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 53 (24.1 bits)