RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2280
(162 letters)
>gnl|CDD|216045 pfam00653, BIR, Inhibitor of Apoptosis domain. BIR stands for
'Baculovirus Inhibitor of apoptosis protein Repeat'. It
is found repeated in inhibitor of apoptosis proteins
(IAPs), and in fact it is also known as IAP repeat.
These domains characteristically have a number of
invariant residues, including 3 conserved cysteines and
one conserved histidine that coordinate a zinc ion. They
are usually made up of 4-5 alpha helices and a
three-stranded beta-sheet. BIR is also found in other
proteins known as BIR-domain-containing proteins
(BIRPs), such as Survivin.
Length = 69
Score = 86.2 bits (214), Expect = 4e-23
Identities = 33/69 (47%), Positives = 39/69 (56%), Gaps = 3/69 (4%)
Query: 40 RLATFTNWT--FKSGNCTAEHMAHAGFYLI-QDDCTKCVFCYKELDGWEVTDYPWDEHKS 96
RLATF NW K + E +A AGFY D +C +C ELD WE D PW+EHK
Sbjct: 1 RLATFKNWPIALKQAKPSPEKLAEAGFYYTGTGDRVRCFYCGLELDNWEPDDDPWEEHKR 60
Query: 97 HKPDCPFVQ 105
P+CPFV
Sbjct: 61 WSPNCPFVL 69
>gnl|CDD|237989 cd00022, BIR, Baculoviral inhibition of apoptosis protein repeat
domain; Found in inhibitors of apoptosis proteins (IAPs)
and other proteins. In higher eukaryotes, BIR domains
inhibit apoptosis by acting as direct inhibitors of the
caspase family of protease enzymes. In yeast, BIR
domains are involved in regulating cytokinesis. This
novel fold is stabilized by zinc tetrahedrally
coordinated by one histidine and three cysteine residues
and resembles a classical zinc finger.
Length = 69
Score = 79.6 bits (197), Expect = 2e-20
Identities = 35/69 (50%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 39 NRLATFTNWTFKSGNCTAEHMAHAGFYLIQ-DDCTKCVFCYKELDGWEVTDYPWDEHKSH 97
RL TF NW S T E +A AGFY D KC FC EL WE D PW+EHK
Sbjct: 2 ARLKTFKNWPI-SLKVTPEKLAEAGFYYTGRGDEVKCFFCGLELKNWEPGDDPWEEHKRW 60
Query: 98 KPDCPFVQL 106
P+CPFV L
Sbjct: 61 SPNCPFVLL 69
>gnl|CDD|197595 smart00238, BIR, Baculoviral inhibition of apoptosis protein
repeat. Domain found in inhibitor of apoptosis proteins
(IAPs) and other proteins. Acts as a direct inhibitor of
caspase enzymes.
Length = 71
Score = 79.7 bits (197), Expect = 2e-20
Identities = 36/72 (50%), Positives = 41/72 (56%), Gaps = 2/72 (2%)
Query: 36 FYTNRLATFTNWTFKSGNCTAEHMAHAGFYLIQ-DDCTKCVFCYKELDGWEVTDYPWDEH 94
RL TF NW + S CT E +A AGFY D KC FC ELD WE D PW+EH
Sbjct: 1 SEEARLKTFQNWPYNS-KCTPEQLAEAGFYYTGVGDEVKCFFCGGELDNWEPGDDPWEEH 59
Query: 95 KSHKPDCPFVQL 106
K P+CPFV+
Sbjct: 60 KKWSPNCPFVRN 71
>gnl|CDD|188093 TIGR00864, PCC, polycystin cation channel protein. The Polycystin
Cation Channel (PCC) Family (TC 1.A.5) Polycystin is a
huge protein of 4303aas. Its repeated leucine-rich (LRR)
segment is found in many proteins. It contains 16
polycystic kidney disease (PKD) domains, one LDL-receptor
class A domain, one C-type lectin family domain, and
16-18 putative TMSs in positions between residues 2200
and 4100. Polycystin-L has been shown to be a cation
(Na+, K+ and Ca2+) channel that is activated by Ca2+. Two
members of the PCC family (polycystin 1 and 2) are
mutated in autosomal dominant polycystic kidney disease,
and polycystin-L is deleted in mice with renal and
retinal defects. Note: this model is restricted to the
amino half for technical reasons.
Length = 2740
Score = 29.3 bits (65), Expect = 1.2
Identities = 19/77 (24%), Positives = 26/77 (33%), Gaps = 20/77 (25%)
Query: 19 LLQALQMYNIEIASPMMFYTNRLATFT------------NWTFKSG-------NCTAEH- 58
Q M A P +TN++A F +W F G AEH
Sbjct: 2037 EAQDALMDAALQAGPQDCFTNKMAQFEAATSPKPNFMACHWDFGDGSAGQDTDEPRAEHE 2096
Query: 59 MAHAGFYLIQDDCTKCV 75
H G Y +Q + + V
Sbjct: 2097 YLHPGDYRVQVNASNLV 2113
>gnl|CDD|185378 PRK15481, PRK15481, transcriptional regulatory protein PtsJ;
Provisional.
Length = 431
Score = 28.9 bits (65), Expect = 1.4
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 10 RDYAKKEKALLQALQMYNIEIASPM 34
YA++ + L +ALQ Y I I SP
Sbjct: 340 LFYAQRRQKLARALQQYGIAIPSPG 364
>gnl|CDD|235029 PRK02308, uvsE, putative UV damage endonuclease; Provisional.
Length = 303
Score = 27.6 bits (62), Expect = 2.8
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 8/47 (17%)
Query: 115 HIDEFIVLNS---AVVKNKMMETLQQGKEELTRMFDDFKAKITEKIN 158
H D+F+VLNS VV+N + + ++ D + KIN
Sbjct: 110 HPDQFVVLNSPKPEVVENSIKDLEYHA-----KLLDLMGIDDSSKIN 151
>gnl|CDD|233498 TIGR01629, rep_II_X, phage/plasmid replication protein, gene II/X
family. This model represents a family of phage and
plasmid replication proteins. In bacteriophage IKe and
related phage, the full-length protein is designated
gene II protein. A much shorter protein of unknown
function, translated from a conserved in-frame
alternative initiator, is designated gene X protein.
Members of this family also include plasmid replication
proteins. This model is built as a fragment model to
better detect translations from alternate intiators and
other fragments relative to full length gene II protein
[Mobile and extrachromosomal element functions, Prophage
functions, Mobile and extrachromosomal element
functions, Plasmid functions].
Length = 345
Score = 26.7 bits (59), Expect = 5.4
Identities = 8/50 (16%), Positives = 18/50 (36%), Gaps = 1/50 (2%)
Query: 17 KALLQALQMYNIEIASPMMFYTNRLAT-FTNWTFKSGNCTAEHMAHAGFY 65
+++MY+ + ++ GN A+ M+ A F+
Sbjct: 246 DEFKGSMEMYDDSKLYDALINNFSSVLRSGYISWSKGNNVAQTMSRATFW 295
>gnl|CDD|223413 COG0336, TrmD, tRNA-(guanine-N1)-methyltransferase [Translation,
ribosomal structure and biogenesis].
Length = 240
Score = 26.4 bits (59), Expect = 7.1
Identities = 5/13 (38%), Positives = 8/13 (61%)
Query: 2 VQLNTINFRDYAK 14
+ L +N RD+A
Sbjct: 31 LSLEVVNPRDFAT 43
>gnl|CDD|222067 pfam13354, Beta-lactamase2, Beta-lactamase enzyme family. This
family is closely related to Beta-lactamase, pfam00144,
the serine beta-lactamase-like superfamily, which
contains the distantly related pfam00905 and PF00768
D-alanyl-D-alanine carboxypeptidase.
Length = 197
Score = 26.0 bits (58), Expect = 7.9
Identities = 9/44 (20%), Positives = 14/44 (31%), Gaps = 6/44 (13%)
Query: 18 ALLQALQMYNIEIASPMMFYTNRLATFTNWTFKSGNCTAEHMAH 61
A L+ L + + + + N T TA MA
Sbjct: 94 ARLKELGLRDTRLNRKLPDLEAAPKDPENTT------TARDMAR 131
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
0.323 0.134 0.423
Gapped
Lambda K H
0.267 0.0726 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,974,402
Number of extensions: 684711
Number of successful extensions: 937
Number of sequences better than 10.0: 1
Number of HSP's gapped: 930
Number of HSP's successfully gapped: 18
Length of query: 162
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 73
Effective length of database: 6,990,096
Effective search space: 510277008
Effective search space used: 510277008
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.0 bits)