RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7087
(162 letters)
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain.
Length = 57
Score = 75.2 bits (186), Expect = 6e-19
Identities = 24/45 (53%), Positives = 32/45 (71%)
Query: 117 RRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
RR RTTFT QL+ELE+ F++ YP REE+A K+ LTE +V+
Sbjct: 1 RRKRTTFTPEQLEELEKEFEKNRYPSAEEREELAKKLGLTERQVK 45
>gnl|CDD|238039 cd00086, homeodomain, Homeodomain; DNA binding domains involved in
the transcriptional regulation of key eukaryotic
developmental processes; may bind to DNA as monomers or
as homo- and/or heterodimers, in a sequence-specific
manner.
Length = 59
Score = 66.5 bits (163), Expect = 1e-15
Identities = 22/46 (47%), Positives = 31/46 (67%)
Query: 117 RRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQK 162
RR RT FT QL+ELE+ F++ YP REE+A ++ LTE +V+
Sbjct: 1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKI 46
>gnl|CDD|197696 smart00389, HOX, Homeodomain. DNA-binding factors that are
involved in the transcriptional regulation of key
developmental processes.
Length = 57
Score = 64.6 bits (158), Expect = 9e-15
Identities = 23/46 (50%), Positives = 33/46 (71%)
Query: 116 QRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQ 161
+RR RT+FT QL+ELE+ FQ+ YP REE+A K+ L+E +V+
Sbjct: 1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVK 46
>gnl|CDD|227863 COG5576, COG5576, Homeodomain-containing transcription factor
[Transcription].
Length = 156
Score = 42.8 bits (101), Expect = 1e-05
Identities = 14/49 (28%), Positives = 23/49 (46%)
Query: 114 RKQRRIRTTFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQK 162
+ R T QL LER F+ YP TR ++++ +++ VQ
Sbjct: 49 SPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQI 97
>gnl|CDD|238988 cd02030, NDUO42, NADH:Ubiquinone oxioreductase, 42 kDa (NDUO42) is
a family of proteins that are highly similar to
deoxyribonucleoside kinases (dNK). Members of this
family have been identified as one of the subunits of
NADH:Ubiquinone oxioreductase (complex I), a
multi-protein complex located in the inner mitochondrial
membrane. The main function of the complex is to
transport electrons from NADH to ubiquinone, which is
accompanied by the translocation of protons from the
mitochondrial matrix to the inter membrane space.
Length = 219
Score = 30.8 bits (70), Expect = 0.23
Identities = 17/49 (34%), Positives = 29/49 (59%), Gaps = 4/49 (8%)
Query: 113 KRKQRRIRT---TFTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEA 158
KR ++R TSA L+++E A+++T P+I E+ ++ D TEA
Sbjct: 158 KRIKKRGDPHEMKVTSAYLQDIENAYKKTFLPEISEHSEV-LQYDWTEA 205
>gnl|CDD|173336 PTZ00039, PTZ00039, 40S ribosomal protein S20; Provisional.
Length = 115
Score = 27.9 bits (62), Expect = 1.2
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 112 EKRKQRRIRTTFTSAQLKELERA 134
E+ + +IR T TS LK +E+
Sbjct: 12 EQNRLHKIRITLTSKNLKSIEKV 34
>gnl|CDD|128986 smart00747, CFEM, eight cysteine-containing domain present in
fungal extracellular membrane proteins.
Length = 65
Score = 26.7 bits (59), Expect = 1.5
Identities = 9/24 (37%), Positives = 10/24 (41%)
Query: 13 FDASSCALTSSMDPTGLGPCSYGD 36
+ SCAL G PCS D
Sbjct: 3 DNLPSCALPCVNQALGSFPCSLTD 26
>gnl|CDD|236951 PRK11667, PRK11667, hypothetical protein; Provisional.
Length = 163
Score = 27.3 bits (61), Expect = 2.6
Identities = 15/55 (27%), Positives = 23/55 (41%)
Query: 17 SCALTSSMDPTGLGPCSYGDQMSSAAYRYTAAAASMARSYNTAGPMGHHLSSGSA 71
L +++ TG S GD +SSAA + A S + + + LS G
Sbjct: 11 CAILAAALISTGAHAASLGDSLSSAASQLGGQAGSSQQGGWSLSSLTGLLSGGGQ 65
>gnl|CDD|183523 PRK12427, PRK12427, flagellar biosynthesis sigma factor;
Provisional.
Length = 231
Score = 27.1 bits (60), Expect = 3.7
Identities = 14/35 (40%), Positives = 22/35 (62%)
Query: 126 AQLKELERAFQETHYPDIYTREEIAMKIDLTEARV 160
+QL E E+ +Y + +EIA+ +DLTEAR+
Sbjct: 182 SQLDEREQLILHLYYQHEMSLKEIALVLDLTEARI 216
>gnl|CDD|130147 TIGR01075, uvrD, DNA helicase II. Designed to identify uvrD
members of the uvrD/rep subfamily [DNA metabolism, DNA
replication, recombination, and repair].
Length = 715
Score = 27.5 bits (61), Expect = 3.8
Identities = 12/35 (34%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 71 AQCAVMARSHQDHRTPMFPASMNLQSGLPYKVYSG 105
+CAV+ RS+ R + ++ LQ+ +PY++Y G
Sbjct: 343 DECAVLYRSNAQSR--VLEEAL-LQASIPYRIYGG 374
>gnl|CDD|178031 PLN02409, PLN02409, serine--glyoxylate aminotransaminase.
Length = 401
Score = 27.0 bits (60), Expect = 5.2
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 76 MARSHQDHRTPMFPASM 92
M R ++DHR+P FPA
Sbjct: 28 MNRPNEDHRSPAFPALT 44
>gnl|CDD|237336 PRK13288, PRK13288, pyrophosphatase PpaX; Provisional.
Length = 214
Score = 26.5 bits (59), Expect = 6.1
Identities = 7/17 (41%), Positives = 12/17 (70%)
Query: 137 ETHYPDIYTREEIAMKI 153
+T+YP+ Y RE++ I
Sbjct: 30 KTYYPNQYKREDVLPFI 46
>gnl|CDD|221334 pfam11949, DUF3466, Protein of unknown function (DUF3466). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria. Proteins in this
family are typically between 564 to 612 amino acids in
length.
Length = 589
Score = 26.6 bits (59), Expect = 6.3
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 1/55 (1%)
Query: 5 YLNQAAA-QFDASSCALTSSMDPTGLGPCSYGDQMSSAAYRYTAAAASMARSYNT 58
+ +AA Q DA+ +T + P GL P S + ++A + Y+T
Sbjct: 275 FQTRAAVWQLDATGNTVTETEWPLGLEPASDDEVFQASALGVNVNGIVVGVGYST 329
>gnl|CDD|218489 pfam05192, MutS_III, MutS domain III. This domain is found in
proteins of the MutS family (DNA mismatch repair
proteins) and is found associated with pfam00488,
pfam05188, pfam01624 and pfam05190. The MutS family of
proteins is named after the Salmonella typhimurium MutS
protein involved in mismatch repair; other members of
the family included the eukaryotic MSH 1,2,3, 4,5 and 6
proteins. These have various roles in DNA repair and
recombination. Human MSH has been implicated in
non-polyposis colorectal carcinoma (HNPCC) and is a
mismatch binding protein. The aligned region corresponds
with domain III, which is central to the structure of
Thermus aquaticus MutS as characterized in.
Length = 290
Score = 26.6 bits (59), Expect = 6.6
Identities = 12/40 (30%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 123 FTSAQLKELERAFQETHYPDIYTREEIAMKIDLTEARVQK 162
FT+ +LKELER E + E + +L E + +
Sbjct: 230 FTTPELKELERKLLEAE--ERALALEKEILEELLERVLSE 267
>gnl|CDD|223098 COG0019, LysA, Diaminopimelate decarboxylase [Amino acid transport
and metabolism].
Length = 394
Score = 26.5 bits (59), Expect = 8.1
Identities = 12/40 (30%), Positives = 16/40 (40%), Gaps = 7/40 (17%)
Query: 123 FTSAQLKELERAFQ------ETHY-PDIYTREEIAMKIDL 155
F A L ELE A + + EEIA ++L
Sbjct: 78 FDVASLGELELALAAGFPPERIVFSGPAKSEEEIAFALEL 117
>gnl|CDD|225157 COG2248, COG2248, Predicted hydrolase (metallo-beta-lactamase
superfamily) [General function prediction only].
Length = 304
Score = 26.3 bits (58), Expect = 9.5
Identities = 20/69 (28%), Positives = 27/69 (39%), Gaps = 6/69 (8%)
Query: 70 SAQCAVMARSHQDHRTPMFPASMNLQSGLPYKVYSGHEGVL---TEK--RKQRRIRTTFT 124
A ++ H DH TP F ++Y G +L TE R QRR R
Sbjct: 65 KADVITISHYHYDHHTPFFDGIYEASGETAKEIYKGKLLLLKHPTENINRSQRR-RAYRF 123
Query: 125 SAQLKELER 133
LK++ R
Sbjct: 124 LESLKDIAR 132
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
0.316 0.125 0.358
Gapped
Lambda K H
0.267 0.0637 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,790,484
Number of extensions: 655695
Number of successful extensions: 636
Number of sequences better than 10.0: 1
Number of HSP's gapped: 635
Number of HSP's successfully gapped: 25
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.2 bits)