RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6615
(227 letters)
>gnl|CDD|215685 pfam00060, Lig_chan, Ligand-gated ion channel. This family
includes the four transmembrane regions of the
ionotropic glutamate receptors and NMDA receptors.
Length = 268
Score = 99.7 bits (249), Expect = 2e-25
Identities = 35/101 (34%), Positives = 60/101 (59%), Gaps = 2/101 (1%)
Query: 2 ISPYYEHYKIREQSGFHKFSNCVWYIYGALLQQGGGKLPEADSGRLVIGTWWLFVLVIVT 61
SPY E E+ SN +W+ +GAL+QQG +LP + SGR+++G WW F L++++
Sbjct: 23 FSPY-EWRGPPEEPNQFTLSNSLWFSFGALVQQGHRELPRSLSGRILVGVWWFFALILLS 81
Query: 62 TYCGNLVAFLTFPMMDTPVTNVNELLENKWRLSWGMSEFST 102
+Y NL AFLT M +P+ ++ +L + ++ +G +
Sbjct: 82 SYTANLAAFLTVERMQSPIQSLEDLAKQN-KIGYGTLRGGS 121
>gnl|CDD|99945 cd05513, Bromo_brd7_like, Bromodomain, brd7_like subgroup. The BRD7
gene encodes a nuclear protein that has been shown to
inhibit cell growth and the progression of the cell
cycle by regulating cell-cycle genes at the
transcriptional level. BRD7 has been identified as a
gene involved in nasopharyngeal carcinoma. The protein
interacts with acetylated histone H3 via its
bromodomain. Bromodomains are 110 amino acid long
domains that are found in many chromatin associated
proteins. Bromodomains can interact specifically with
acetylated lysine.
Length = 98
Score = 27.4 bits (61), Expect = 2.7
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 198 FSPMRGSINKHYYYSPTEFQDNPKL 222
FS M+ I + Y S EF+D+ KL
Sbjct: 44 FSTMKEKIKNNDYQSIEEFKDDFKL 68
>gnl|CDD|217153 pfam02628, COX15-CtaA, Cytochrome oxidase assembly protein. This
is a family of integral membrane proteins. CtaA is
required for cytochrome aa3 oxidase assembly in Bacillus
subtilis. COX15 is required for cytochrome c oxidase
assembly in yeast.
Length = 301
Score = 28.4 bits (64), Expect = 3.4
Identities = 16/65 (24%), Positives = 24/65 (36%), Gaps = 7/65 (10%)
Query: 23 CVWYIYGALLQQGGGKLPEADSGRLVIGTWWLFVLVIVTTYCGNLVAFL-------TFPM 75
+ ++ L + P A RL VL+++ G LVA L TFP+
Sbjct: 144 LLLWLALRLREPDPAPAPAAGPRRLRGLALLALVLLLLQIALGALVAGLDAGLACNTFPL 203
Query: 76 MDTPV 80
M
Sbjct: 204 MGPDF 208
>gnl|CDD|143470 cd07152, ALDH_BenzADH, NAD-dependent benzaldehyde dehydrogenase
II-like. NAD-dependent, benzaldehyde dehydrogenase II
(XylC, BenzADH, EC=1.2.1.28) is involved in the
oxidation of benzyl alcohol to benzoate. In
Acinetobacter calcoaceticus, this process is carried out
by the chromosomally encoded, benzyl alcohol
dehydrogenase (xylB) and benzaldehyde dehydrogenase II
(xylC) enzymes; whereas in Pseudomonas putida they are
encoded by TOL plasmids.
Length = 443
Score = 28.4 bits (64), Expect = 3.5
Identities = 12/26 (46%), Positives = 17/26 (65%), Gaps = 3/26 (11%)
Query: 128 GVVNVLP--AIVGLNVV-HPDIPMIS 150
GV++VLP A G +V P++ MIS
Sbjct: 169 GVLHVLPGGADAGEALVEDPNVAMIS 194
>gnl|CDD|143422 cd07104, ALDH_BenzADH-like, ALDH subfamily: NAD(P)+-dependent
benzaldehyde dehydrogenase II, vanillin dehydrogenase,
p-hydroxybenzaldehyde dehydrogenase and related
proteins. ALDH subfamily which includes the
NAD(P)+-dependent, benzaldehyde dehydrogenase II (XylC,
BenzADH, EC=1.2.1.28) involved in the oxidation of
benzyl alcohol to benzoate; p-hydroxybenzaldehyde
dehydrogenase (PchA, HBenzADH) which catalyzes the
oxidation of p-hydroxybenzaldehyde to p-hydroxybenzoic
acid; vanillin dehydrogenase (Vdh, VaniDH) involved in
the metabolism of ferulic acid as seen in Pseudomonas
putida KT2440; and other related sequences.
Length = 431
Score = 28.3 bits (64), Expect = 3.7
Identities = 12/27 (44%), Positives = 18/27 (66%), Gaps = 4/27 (14%)
Query: 128 GVVNVLP---AIVGLNVV-HPDIPMIS 150
GV+NV+P + +G +V HP + MIS
Sbjct: 157 GVLNVVPGGGSEIGDALVEHPRVRMIS 183
>gnl|CDD|234175 TIGR03348, VI_IcmF, type VI secretion protein IcmF. Members of
this protein family are IcmF homologs and tend to be
associated with type VI secretion systems [Cellular
processes, Pathogenesis].
Length = 1169
Score = 28.1 bits (63), Expect = 4.9
Identities = 14/40 (35%), Positives = 19/40 (47%), Gaps = 5/40 (12%)
Query: 24 VWYIYGALLQQGGGKLPEADSGRL-VIGTW---WLFVLVI 59
+W+ G LL G K E+ RL +I WL L+I
Sbjct: 13 IWW-AGPLLAVGDYKPLESVWARLLIIAVLLLVWLLWLLI 51
>gnl|CDD|143453 cd07135, ALDH_F14-YMR110C, Saccharomyces cerevisiae aldehyde
dehydrogenase family 14 and related proteins. Aldehyde
dehydrogenase family 14 (ALDH14), isolated mainly from
the mitochondrial outer membrane of Saccharomyces
cerevisiae (YMR110C) and most closely related to the
plant and animal ALDHs and fatty ALDHs family 3 members,
and similar fungal sequences, are present in this CD.
Length = 436
Score = 27.2 bits (61), Expect = 9.3
Identities = 11/48 (22%), Positives = 19/48 (39%)
Query: 158 KPEYKWTVAMSLFSMHTHYRKKSVPNTLVVDLWTAGVKGLFSPMRGSI 205
K E ++ RK+ + L++ W V SP+ G+I
Sbjct: 86 KDEKVKDGPLAFMFGKPRIRKEPLGVVLIIGPWNYPVLLALSPLVGAI 133
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
0.322 0.136 0.443
Gapped
Lambda K H
0.267 0.0742 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,603,262
Number of extensions: 1042934
Number of successful extensions: 808
Number of sequences better than 10.0: 1
Number of HSP's gapped: 808
Number of HSP's successfully gapped: 17
Length of query: 227
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 134
Effective length of database: 6,812,680
Effective search space: 912899120
Effective search space used: 912899120
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 (21.9 bits)
S2: 57 (25.7 bits)