RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2123
(143 letters)
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain.
Length = 57
Score = 96.4 bits (241), Expect = 2e-27
Identities = 36/57 (63%), Positives = 43/57 (75%)
Query: 28 RRNRTTFNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQVWFQNRRAKFRR 84
RR RTTF QL LEK FE+ YP A REELAKK+ L+E +V+VWFQNRRAK++R
Sbjct: 1 RRKRTTFTPEQLEELEKEFEKNRYPSAEEREELAKKLGLTERQVKVWFQNRRAKWKR 57
>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 = 84.6 bits (210), Expect = 8e-23
Identities = 33/59 (55%), Positives = 42/59 (71%)
Query: 28 RRNRTTFNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQVWFQNRRAKFRRNE 86
RR RT F QL LEK FE+ YP REELAK++ L+E +V++WFQNRRAK +R+E
Sbjct: 1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
>gnl|CDD|197696 smart00389, HOX, Homeodomain. DNA-binding factors that are
involved in the transcriptional regulation of key
developmental processes.
Length = 57
Score = 81.9 bits (203), Expect = 8e-22
Identities = 33/57 (57%), Positives = 41/57 (71%)
Query: 27 PRRNRTTFNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQVWFQNRRAKFR 83
RR RT+F QL LEK F++ YP REELAKK+ LSE +V+VWFQNRRAK++
Sbjct: 1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
>gnl|CDD|227863 COG5576, COG5576, Homeodomain-containing transcription factor
[Transcription].
Length = 156
Score = 60.9 bits (148), Expect = 1e-12
Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 2/66 (3%)
Query: 19 DYERRKPKPRRNRTTFNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQVWFQNR 78
PK +R RTT QL LE+ FE YP + R +L+ + + VQ+WFQN+
Sbjct: 45 QDGSSPPKSKRRRTT--DEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNK 102
Query: 79 RAKFRR 84
RAK ++
Sbjct: 103 RAKEKK 108
>gnl|CDD|203350 pfam05920, Homeobox_KN, Homeobox KN domain. This is a homeobox
transcription factor KN domain conserved from fungi to
human and plants.
Length = 40
Score = 29.8 bits (68), Expect = 0.055
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 51 YPDAFVREELAKKVCLSEARVQVWFQNRR 79
YP + ELA++ LS ++ WF N R
Sbjct: 10 YPSEEEKSELARQTGLSRKQIDNWFINAR 38
>gnl|CDD|221321 pfam11928, DUF3446, Domain of unknown function (DUF3446). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is typically
between 80 to 99 amino acids in length. This domain is
found associated with pfam00096. This domain has a
single completely conserved residue P that may be
functionally important.
Length = 84
Score = 27.9 bits (62), Expect = 0.76
Identities = 9/33 (27%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 105 PPCTNATPLSSAPPSSSH--SFDFCAMPHSQCN 135
PP +++ SS+ SSS C++ S+ +
Sbjct: 33 PPPSSSPSSSSSSSSSSSQSPPLSCSVHQSEPS 65
>gnl|CDD|180543 PRK06361, PRK06361, hypothetical protein; Provisional.
Length = 212
Score = 28.4 bits (64), Expect = 0.99
Identities = 10/40 (25%), Positives = 17/40 (42%), Gaps = 4/40 (10%)
Query: 49 THYPDAFVREELAKKVC----LSEARVQVWFQNRRAKFRR 84
TH P + E A+KV L+E ++ +N +
Sbjct: 170 THAPSDLITYEFARKVALGAGLTEKELEEALENNPKLLLK 209
>gnl|CDD|233243 TIGR01036, pyrD_sub2, dihydroorotate dehydrogenase, subfamily 2.
This model describes enzyme protein dihydroorotate
dehydrogenase exclusively for subfamily 2. It includes
members from bacteria, yeast, plants etc. The
subfamilies 1 and 2 share extensive homology,
particularly toward the C-terminus. This subfamily has a
longer N-terminal region [Purines, pyrimidines,
nucleosides, and nucleotides, Pyrimidine ribonucleotide
biosynthesis].
Length = 336
Score = 28.2 bits (63), Expect = 1.5
Identities = 12/37 (32%), Positives = 16/37 (43%), Gaps = 10/37 (27%)
Query: 25 PKPRR----------NRTTFNSHQLNALEKVFERTHY 51
PKPR NR FN+H + L + +R Y
Sbjct: 97 PKPRLFRLIEAEGLINRMGFNNHGADNLVENVKRARY 133
>gnl|CDD|182958 PRK11096, ansB, L-asparaginase II; Provisional.
Length = 347
Score = 27.8 bits (62), Expect = 2.4
Identities = 10/31 (32%), Positives = 15/31 (48%)
Query: 15 DDDYDYERRKPKPRRNRTTFNSHQLNALEKV 45
+ DY+R + T F+ +LN L KV
Sbjct: 205 NGKVDYQRTPARKHTTDTPFDVSKLNELPKV 235
>gnl|CDD|233812 TIGR02290, M3_fam_3, oligoendopeptidase, pepF/M3 family. The M3
family of metallopeptidases contains several distinct
clades. Oligoendopeptidase F as characterized in
Lactococcus, the functionally equivalent
oligoendopeptidase B of group B Streptococcus, and
closely related sequences are described by TIGR00181.
The present family is quite similar but forms a distinct
clade, and a number of species have one member of each.
A greater sequence difference separates members of
TIGR02289, probable oligoendopeptidases of the M3 family
that probably should not be designated PepF.
Length = 587
Score = 27.7 bits (62), Expect = 2.5
Identities = 17/72 (23%), Positives = 24/72 (33%), Gaps = 9/72 (12%)
Query: 42 LEKVFERTHYPDAFVREELAK---KVCLSEARVQVWFQNRRAKFR------RNERNFISH 92
LE+ PDA VR++ K K A N A R R + +
Sbjct: 189 LEQALNLLRDPDAEVRKKAFKALLKAWEKNAPTLAAILNALAGDRLTEYRLRGYDHPLEP 248
Query: 93 RNLDAPTSEQPL 104
R L ++ L
Sbjct: 249 RLLYNRIDQETL 260
>gnl|CDD|236312 PRK08617, PRK08617, acetolactate synthase; Reviewed.
Length = 552
Score = 26.7 bits (60), Expect = 5.4
Identities = 12/44 (27%), Positives = 19/44 (43%), Gaps = 3/44 (6%)
Query: 78 RRAKFRRNERNFISHRN--LDAPTSEQPLPPCTNATPLSSAPPS 119
R A+ R F+S +DAP + + + P + L A P
Sbjct: 147 RAAESGRPGAAFVSLPQDVVDAPVTSKAIAPLS-KPKLGPASPE 189
>gnl|CDD|218874 pfam06051, DUF928, Domain of Unknown Function (DUF928). Family of
uncharacterized bacterial protein.
Length = 189
Score = 26.2 bits (58), Expect = 5.6
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 2 EYDWMLTLRCDGED 15
EY W TL CD +D
Sbjct: 92 EYRWYFTLTCDPQD 105
>gnl|CDD|165416 PHA03145, PHA03145, helicase-primase primase subunit; Provisional.
Length = 1058
Score = 26.5 bits (58), Expect = 6.5
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 105 PPCTNATPLSSAPPSSS 121
PPC+ P ++PPS+S
Sbjct: 1042 PPCSPCAPCGTSPPSAS 1058
>gnl|CDD|152520 pfam12085, DUF3562, Protein of unknown function (DUF3562). This
family of proteins is functionally uncharacterized.
This protein is found in bacteria. Proteins in this
family are typically between 62 to 84 amino acids in
length. This protein has two completely conserved
residues (A and Y) that may be functionally important.
Length = 65
Score = 24.6 bits (54), Expect = 8.7
Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 38 QLNALEKVFERTHYPDAFVREELAKKVCL--SEARV 71
+++ + E T P VR+ ++ S+ARV
Sbjct: 6 LDESIKAIAEETGAPADLVRQMYDDEMRALSSDARV 41
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 0.131 0.419
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,207,859
Number of extensions: 614592
Number of successful extensions: 650
Number of sequences better than 10.0: 1
Number of HSP's gapped: 648
Number of HSP's successfully gapped: 27
Length of query: 143
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 56
Effective length of database: 7,078,804
Effective search space: 396413024
Effective search space used: 396413024
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: 54 (24.5 bits)