RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4421
(167 letters)
>gnl|CDD|107338 cd06343, PBP1_ABC_ligand_binding_like_8, Type I periplasmic
ligand-binding domain of uncharacterized ABC (ATPase
Binding Cassette)-type active transport systems that are
predicted to be involved in uptake of amino acids,
peptides, or inorganic ions. This subgroup includes the
type I periplasmic ligand-binding domain of
uncharacterized ABC (ATPase Binding Cassette)-type
active transport systems that are predicted to be
involved in uptake of amino acids, peptides, or
inorganic ions. This subgroup has high sequence
similarity to members of the family of hydrophobic amino
acid transporters (HAAT), such as
leucine/isoleucine/valine binding protein (LIVBP);
however its ligand specificity has not been determined
experimentally.
Length = 362
Score = 31.0 bits (71), Expect = 0.27
Identities = 9/48 (18%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 34 MVRPDSFKYKYGCYRCSYFTYESNNLKKHILKHTGEKPFSYMYENQQY 81
P F + +G SY E+ K++++ + +Y+N +
Sbjct: 111 WNDPKPFPWTFGWQP-SYQD-EARIYAKYLVEEKPNAKIAVLYQNDDF 156
>gnl|CDD|172627 PRK14138, PRK14138, NAD-dependent deacetylase; Provisional.
Length = 244
Score = 30.6 bits (69), Expect = 0.35
Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 6/40 (15%)
Query: 81 YCIHC-NSYISSDIKDLIE-----HCKSCSHMTRPDAFHF 114
YC+ C Y D+ + +E C CS + RP+ F
Sbjct: 121 YCVRCGKRYTVEDVIEKLEKSDVPRCDDCSGLIRPNIVFF 160
>gnl|CDD|227494 COG5165, POB3, Nucleosome-binding factor SPN, POB3 subunit
[Transcription / DNA replication, recombination, and
repair / Chromatin structure and dynamics].
Length = 508
Score = 29.6 bits (66), Expect = 0.85
Identities = 11/33 (33%), Positives = 14/33 (42%), Gaps = 2/33 (6%)
Query: 25 VKHAQTCISMVRPDSFKYKYG--CYRCSYFTYE 55
V T +VRP F+ + G RCS E
Sbjct: 328 VMEGLTVRKVVRPSEFESRDGMRAVRCSMKANE 360
>gnl|CDD|227443 COG5112, UFD2, U1-like Zn-finger-containing protein [General
function prediction only].
Length = 126
Score = 27.0 bits (59), Expect = 2.9
Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 79 QQYCIHCNSYISSDIKDLIEHCKSCSHMTR 108
Q YCI C Y ++ L+EH K H R
Sbjct: 55 QHYCIECARYFITEKA-LMEHKKGKVHKRR 83
>gnl|CDD|238704 cd01413, SIR2_Af2, SIR2_Af2: Archaeal and prokaryotic group which
includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus
solfataricus ssSir2, and several bacterial homologs; and
are members of the SIR2 family of proteins, silent
information regulator 2 (Sir2) enzymes which catalyze
NAD+-dependent protein/histone deacetylation. Sir2
proteins have been shown to regulate gene silencing, DNA
repair, metabolic enzymes, and life span. The Sir2
homolog from the archaea Sulfolobus solftaricus
deacetylates the non-specific DNA protein Alba to
mediate transcription repression.
Length = 222
Score = 27.3 bits (61), Expect = 3.2
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 5/35 (14%)
Query: 81 YCIHCNS-YISSDIKDLIEH----CKSCSHMTRPD 110
YC++C S Y ++K +H C C + RPD
Sbjct: 115 YCVNCGSKYDLEEVKYAKKHEVPRCPKCGGIIRPD 149
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 24.7 bits (54), Expect = 4.3
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 130 NIKTHLRLHLDDKPYKCSLCNYECRQ 155
N++ H+R H +KPYKC +C
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
>gnl|CDD|217651 pfam03635, Vps35, Vacuolar protein sorting-associated protein 35.
Vacuolar protein sorting-associated protein (Vps) 35 is
one of around 50 proteins involved in protein
trafficking. In particular, Vps35 assembles into a
retromer complex with at least four other proteins Vps5,
Vps17, Vps26 and Vps29. Vps35 contains a central region
of weaker sequence similarity, thought to indicate the
presence of at least three domains.
Length = 741
Score = 26.8 bits (60), Expect = 5.9
Identities = 15/62 (24%), Positives = 23/62 (37%), Gaps = 18/62 (29%)
Query: 65 KHTGEKPFSYMYENQQYC-----------IHCNSYISSD-------IKDLIEHCKSCSHM 106
+H + +YE QY + YI S +KD++E C+ H
Sbjct: 71 EHPKGHHLADLYELVQYAGNIVPRLYLLITVGSVYIKSKDAPAKEILKDMVEMCRGVQHP 130
Query: 107 TR 108
TR
Sbjct: 131 TR 132
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 26.6 bits (58), Expect = 7.7
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 140 DDKPYKCSLCNYECRQNVHLKSHMKSNH 167
DKPY+C +C+ + LK H K +H
Sbjct: 395 KDKPYRCEVCDKRYKNLNGLKYHRKHSH 422
>gnl|CDD|238702 cd01411, SIR2H, SIR2H: Uncharacterized prokaryotic Sir2 homologs
from several gram positive bacterial species and
Fusobacteria; and are members of the SIR2 family of
proteins, silent information regulator 2 (Sir2) enzymes
which catalyze NAD+-dependent protein/histone
deacetylation. Sir2 proteins have been shown to regulate
gene silencing, DNA repair, metabolic enzymes, and life
span.
Length = 225
Score = 26.2 bits (58), Expect = 9.1
Identities = 9/35 (25%), Positives = 14/35 (40%)
Query: 4 SLNINQCVHCHLTLTKSTEVIVKHAQTCISMVRPD 38
SL C C T+ + + C ++RPD
Sbjct: 115 SLYRIYCTVCGKTVDWEEYLKSPYHAKCGGVIRPD 149
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
0.324 0.134 0.443
Gapped
Lambda K H
0.267 0.0655 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,610,859
Number of extensions: 629881
Number of successful extensions: 779
Number of sequences better than 10.0: 1
Number of HSP's gapped: 778
Number of HSP's successfully gapped: 45
Length of query: 167
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 77
Effective length of database: 6,945,742
Effective search space: 534822134
Effective search space used: 534822134
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.1 bits)