RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5387
(200 letters)
>gnl|CDD|216339 pfam01167, Tub, Tub family.
Length = 243
Score = 94.0 bits (234), Expect = 8e-24
Identities = 36/73 (49%), Positives = 49/73 (67%), Gaps = 3/73 (4%)
Query: 123 IMQNKAPMWNETSQVYQLDFGGRVTQESAKNFQVEFRGKQ---VMQFGRIDYNAYTLDFQ 179
++ NKAP WN+ Q Y L+F GRVTQ S KNFQ+ V+QFGR+ + +T+D++
Sbjct: 167 VLHNKAPRWNDQLQSYVLNFHGRVTQASVKNFQIVHASDPDYIVLQFGRVAKDMFTMDYR 226
Query: 180 YPFSAVQAFAVAL 192
YP SA QAFA+ L
Sbjct: 227 YPLSAFQAFAICL 239
>gnl|CDD|175998 cd04032, C2_Perforin, C2 domain of Perforin. Perforin contains a
single copy of a C2 domain in its C-terminus and plays a
role in lymphocyte-mediated cytotoxicity. Mutations in
perforin leads to familial hemophagocytic
lymphohistiocytosis type 2. The function of perforin is
calcium dependent and the C2 domain is thought to confer
this binding to target cell membranes. C2 domains fold
into an 8-standed beta-sandwich that can adopt 2
structural arrangements: Type I and Type II,
distinguished by a circular permutation involving their
N- and C-terminal beta strands. Many C2 domains are
Ca2+-dependent membrane-targeting modules that bind a
wide variety of substances including bind phospholipids,
inositol polyphosphates, and intracellular proteins.
Most C2 domain proteins are either signal transduction
enzymes that contain a single C2 domain, such as protein
kinase C, or membrane trafficking proteins which contain
at least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of piccolo/aczonin
and intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions.
Length = 127
Score = 29.2 bits (66), Expect = 0.68
Identities = 11/32 (34%), Positives = 12/32 (37%), Gaps = 5/32 (15%)
Query: 112 FRNNMLFKKEFIMQNKAPMWNETSQVYQLDFG 143
F + E I N P WN T DFG
Sbjct: 55 FFGGQEKRTEVIWNNNNPRWNAT-----FDFG 81
>gnl|CDD|222495 pfam14012, DUF4229, Protein of unknown function (DUF4229). This
family of integral membrane proteins is functionally
uncharacterized. This family of proteins is found in
bacteria. Proteins in this family are typically between
95 and 122 amino acids in length.
Length = 65
Score = 27.9 bits (63), Expect = 0.74
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 87 LSYFLFRPQKCQMKKKMSVSTERR 110
LSY LFR + + ++ ERR
Sbjct: 42 LSYLLFRRLRRRATAALAERDERR 65
>gnl|CDD|213873 TIGR03856, F420_MSMEG_2906, probable F420-dependent oxidoreductase,
MSMEG_2906 family. This model describes a small family
of enzymes in the bacterial luciferase-like
monooxygenase family, which includes F420-dependent
enzymes such as N5,N10-methylenetetrahydromethanopterin
reductase as well as FMN-dependent enzymes. All members
of this family are from species that produce coenzyme
F420; SIMBAL analysis suggests that members of this
family bind F420 rather than FMN [Unknown function,
Enzymes of unknown specificity].
Length = 249
Score = 29.7 bits (67), Expect = 0.79
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 170 DYNAYTLDFQYPFSAVQAFAVALANITQRL 199
DY+ Y +F S + A AL I RL
Sbjct: 111 DYDEYGYEFGTAGSRLDLLAAALPRIKARL 140
>gnl|CDD|221392 pfam12043, DUF3527, Domain of unknown function (DUF3527). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is about 120
amino acids in length. This domain has a conserved
CDCGGWD sequence motif.
Length = 277
Score = 29.4 bits (66), Expect = 1.1
Identities = 16/65 (24%), Positives = 34/65 (52%), Gaps = 4/65 (6%)
Query: 138 YQLDFGGRVTQESAKNFQVEFRGKQ----VMQFGRIDYNAYTLDFQYPFSAVQAFAVALA 193
+ + G TQES++ F++ +G + + + Y+++F SA+QAF++ +A
Sbjct: 212 ARKNKGDSPTQESSQPFELFVQGGKEEDPALSMTNVREGLYSVEFHASLSALQAFSICVA 271
Query: 194 NITQR 198
+ R
Sbjct: 272 LLHSR 276
>gnl|CDD|217462 pfam03262, Corona_6B_7B, Coronavirus 6B/7B protein.
Length = 209
Score = 29.1 bits (65), Expect = 1.4
Identities = 19/67 (28%), Positives = 28/67 (41%), Gaps = 4/67 (5%)
Query: 134 TSQVYQLDFGGRVTQESAKNFQVEFRGKQVMQFGRIDYNAYTLDFQYPF-SAVQAFAVAL 192
T Q+ L G V ES + F + G Q ID+ D PF S V F +++
Sbjct: 49 THQILSLPLGAEVECESVEGFNCTWPGFQNAAHDHIDFY---FDLSNPFYSFVDTFYISV 105
Query: 193 ANITQRL 199
Q++
Sbjct: 106 GEGNQKI 112
>gnl|CDD|217191 pfam02699, YajC, Preprotein translocase subunit. See.
Length = 83
Score = 25.9 bits (58), Expect = 5.0
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 8/29 (27%)
Query: 89 YFL-FRPQKCQMKKKMSVSTERREFRNNM 116
YFL RPQ+ + K E +E +++
Sbjct: 17 YFLLIRPQQKRQK-------EHKEMLSSL 38
>gnl|CDD|226425 COG3910, COG3910, Predicted ATPase [General function prediction
only].
Length = 233
Score = 27.0 bits (60), Expect = 5.8
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 77 DYKDLETFQSLSYFLFRPQK 96
D+++ E F++L FL P+K
Sbjct: 210 DFEETEHFRALRDFLNDPEK 229
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
0.319 0.129 0.368
Gapped
Lambda K H
0.267 0.0802 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,466,034
Number of extensions: 813932
Number of successful extensions: 576
Number of sequences better than 10.0: 1
Number of HSP's gapped: 575
Number of HSP's successfully gapped: 19
Length of query: 200
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 108
Effective length of database: 6,857,034
Effective search space: 740559672
Effective search space used: 740559672
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 (25.2 bits)