RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2728
(139 letters)
>gnl|CDD|146632 pfam04099, Sybindin, Sybindin-like family. Sybindin is a
physiological syndecan-2 ligand on dendritic spines, the
small protrusions on the surface of dendrites that
receive the vast majority of excitatory synapses.
Length = 135
Score = 90.8 bits (226), Expect = 2e-24
Identities = 31/73 (42%), Positives = 41/73 (56%)
Query: 67 EGKLMYGMLFSLKSFVSKISPLDSKTGFLSYKTTKYALHLYETPTGLKFVLNTDVQAQDV 126
E KL+ GML SL + SK+SPL +G S +T + LH +T TG+KFVL TD
Sbjct: 32 EYKLLAGMLHSLHAISSKLSPLPGSSGIESLETDTFKLHCLQTLTGIKFVLVTDPGTGPN 91
Query: 127 RKFLASVYSKVYV 139
R L Y ++Y
Sbjct: 92 RDSLLRKYYELYS 104
>gnl|CDD|227451 COG5122, TRS23, Transport protein particle (TRAPP) complex subunit
[Intracellular trafficking and secretion].
Length = 134
Score = 36.4 bits (84), Expect = 0.001
Identities = 14/66 (21%), Positives = 31/66 (46%)
Query: 70 LMYGMLFSLKSFVSKISPLDSKTGFLSYKTTKYALHLYETPTGLKFVLNTDVQAQDVRKF 129
++ L + + +++ PL +G L + + +++T TG KFV + + +
Sbjct: 35 ILASTLHGVSAILTQTIPLPGSSGRLVLYFRNFVMTIFQTTTGTKFVFVAEKRTVNALFQ 94
Query: 130 LASVYS 135
L +YS
Sbjct: 95 LQKIYS 100
>gnl|CDD|218183 pfam04628, Sedlin_N, Sedlin, N-terminal conserved region.
Mutations in this protein are associated with the
X-linked spondyloepiphyseal dysplasia tarda syndrome
(OMIM:313400). This family represents an N-terminal
conserved region.
Length = 127
Score = 27.6 bits (62), Expect = 1.5
Identities = 11/46 (23%), Positives = 24/46 (52%), Gaps = 4/46 (8%)
Query: 97 YKTTKYALHLYETPTGLKFVL---NTDVQAQDVRKFLASVYSKVYV 139
A+ Y T T +KF+L ++ + D+++F V+ ++Y+
Sbjct: 54 DSFNDLAVSGYVTNTHIKFILLHDSSTERDDDIKQFFREVH-ELYI 98
>gnl|CDD|206730 cd04167, Snu114p, Snu114p, a spliceosome protein, is a GTPase.
Snu114p subfamily. Snu114p is one of several proteins
that make up the U5 small nuclear ribonucleoprotein
(snRNP) particle. U5 is a component of the spliceosome,
which catalyzes the splicing of pre-mRNA to remove
introns. Snu114p is homologous to EF-2, but typically
contains an additional N-terminal domain not found in
Ef-2. This protein is part of the GTP translation factor
family and the Ras superfamily, characterized by five
G-box motifs.
Length = 213
Score = 27.6 bits (62), Expect = 2.2
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 72 YGMLFSLKSFVSKISPLDSKTGFL 95
+G F+L+SF K +DS +
Sbjct: 187 FGFCFTLESFAKKYGLVDSILSHI 210
>gnl|CDD|215360 PLN02672, PLN02672, methionine S-methyltransferase.
Length = 1082
Score = 27.8 bits (62), Expect = 2.5
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 18 HPKQEYHPKQEYPKPLIGYDRSATPA 43
H QE P++E IG+ SA A
Sbjct: 658 HTPQERLPEEEESSKFIGFSSSARSA 683
>gnl|CDD|221472 pfam12228, DUF3604, Protein of unknown function (DUF3604). This
family of proteins is found in bacteria. Proteins in
this family are typically between 621 and 693 amino
acids in length.
Length = 592
Score = 26.8 bits (60), Expect = 3.8
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 40 ATPADVYRLILGQSVDHGS 58
TP D YR G+ V H +
Sbjct: 28 LTPDDAYRFAKGEPVTHPT 46
>gnl|CDD|215358 PLN02666, PLN02666, 5-oxoprolinase.
Length = 1275
Score = 27.0 bits (60), Expect = 4.0
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 28 EYPKPLIGYDRSATPADVYR 47
E KP+IG+D T DV R
Sbjct: 311 ETEKPVIGFDMGGTSTDVSR 330
>gnl|CDD|226222 COG3698, COG3698, Predicted periplasmic protein [Function unknown].
Length = 250
Score = 26.6 bits (59), Expect = 4.1
Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 43 ADVYRLILGQSVDHGSQSALMLMIEGKL 70
+ + D +QS ML+I GKL
Sbjct: 138 TEAFVK-SRPEPDFATQSGPMLVINGKL 164
>gnl|CDD|185658 PTZ00480, PTZ00480, serine/threonine-protein phosphatase;
Provisional.
Length = 320
Score = 26.9 bits (59), Expect = 4.2
Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 2/78 (2%)
Query: 36 YDRSATPADVYRLILGQSVDHGSQS--ALMLMIEGKLMYGMLFSLKSFVSKISPLDSKTG 93
++ P + L LG VD G QS + L++ K+ Y F L + + ++ G
Sbjct: 78 FEYGGYPPESNYLFLGDYVDRGKQSLETICLLLAYKIKYPENFFLLRGNHECASINRIYG 137
Query: 94 FLSYKTTKYALHLYETPT 111
F +Y + L++T T
Sbjct: 138 FYDECKRRYTIKLWKTFT 155
>gnl|CDD|234207 TIGR03434, ADOP, Acidobacterial duplicated orphan permease.
Members of this protein family are found, so far, only
in three species of Acidobacteria, namely Acidobacteria
bacterium Ellin345, Acidobacterium capsulatum ATCC
51196, and Solibacter usitatus Ellin6076, where they
form large paralogous families. Each protein contains
two copies of a domain called the efflux ABC transporter
permease protein (pfam02687). However, unlike other
members of that family (including LolC, FtsX, and MacB),
genes for these proteins are essentially never found
fused or adjacent to ABC transporter ATP-binding protein
(pfam00005) genes. We name this family ADOP, for
Acidobacterial Duplicated Orphan Permease, to reflect
the restricted lineage, internal duplication, lack of
associated ATP-binding cassette proteins, and permease
homology. The function is unknown.
Length = 803
Score = 26.7 bits (60), Expect = 5.0
Identities = 13/54 (24%), Positives = 18/54 (33%), Gaps = 20/54 (37%)
Query: 40 ATPADVYRLILGQSVDHGSQSALMLMIEG------------KLMYGMLFSLKSF 81
A DV RL+L Q L L G +L+ +LF +
Sbjct: 719 AQRGDVLRLVLRQ--------GLRLAAAGLAIGLAAALALARLLASLLFGVSPT 764
>gnl|CDD|235585 PRK05733, PRK05733, single-stranded DNA-binding protein;
Provisional.
Length = 172
Score = 26.0 bits (57), Expect = 6.3
Identities = 7/30 (23%), Positives = 13/30 (43%)
Query: 8 EHRPHPQEYHHPKQEYHPKQEYPKPLIGYD 37
+ PQ+ + P+Q P+P +D
Sbjct: 135 QQAQRPQQAAQQQSRPAPQQPAPQPAADFD 164
>gnl|CDD|177186 MTH00127, ND4, NADH dehydrogenase subunit 4; Provisional.
Length = 459
Score = 26.1 bits (57), Expect = 8.5
Identities = 19/53 (35%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 26 KQEYPKPLIGYDRSATPADVYRLILGQSVDHGSQSALMLMIEGKLMYGMLFSL 78
+Q K LI Y + V IL Q+ G AL+LMI L LF L
Sbjct: 279 RQTDLKSLIAYSSVSHMGLVAGGILIQT-PWGFTGALILMIAHGLTSSALFCL 330
>gnl|CDD|130916 TIGR01857, FGAM-synthase, phosphoribosylformylglycinamidine
synthase, clade II. This model represents a
single-molecule form of
phosphoribosylformylglycinamidine synthase, also called
FGAM synthase, an enzyme of purine de novo biosynthesis.
This model represents a second clade of these enzymes
found in Clostridia, Bifidobacteria and Streptococcus
species. This enzyme performs the fourth step in IMP
biosynthesis (the precursor of all purines) from PRPP
[Purines, pyrimidines, nucleosides, and nucleotides,
Purine ribonucleotide biosynthesis].
Length = 1239
Score = 26.0 bits (57), Expect = 9.3
Identities = 20/80 (25%), Positives = 36/80 (45%), Gaps = 10/80 (12%)
Query: 22 EYHPKQEYPKPLIGYDRSATPADVYRLILGQSVDHGSQSALMLMIEGKLMYGMLFSLKSF 81
E+ P Q +D+ A A L+L +S D +A + ++ G L L +K++
Sbjct: 83 EFLPGQ--------FDQRADSAQECILLLSESEDVTVNTAKLYILNGDLDDEELNKIKNY 134
Query: 82 VSKISPLDSKTGFLSYKTTK 101
I+P+DS+ L+
Sbjct: 135 Y--INPVDSREKDLTTGKAL 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
0.318 0.134 0.389
Gapped
Lambda K H
0.267 0.0681 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,815,454
Number of extensions: 579302
Number of successful extensions: 520
Number of sequences better than 10.0: 1
Number of HSP's gapped: 517
Number of HSP's successfully gapped: 29
Length of query: 139
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 52
Effective length of database: 7,078,804
Effective search space: 368097808
Effective search space used: 368097808
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (24.7 bits)