RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9181
(262 letters)
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain.
Length = 57
Score = 71.4 bits (176), Expect = 2e-16
Identities = 27/46 (58%), Positives = 32/46 (69%)
Query: 153 RRNRTTFNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
RR RTTF QL LEK FE+ YP A REELAKK+ L+E +V+V
Sbjct: 1 RRKRTTFTPEQLEELEKEFEKNRYPSAEEREELAKKLGLTERQVKV 46
>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 = 61.1 bits (149), Expect = 1e-12
Identities = 23/46 (50%), Positives = 30/46 (65%)
Query: 153 RRNRTTFNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
RR RT F QL LEK FE+ YP REELAK++ L+E +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 = 60.7 bits (148), Expect = 1e-12
Identities = 25/47 (53%), Positives = 31/47 (65%)
Query: 152 PRRNRTTFNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
RR RT+F QL LEK F++ YP REELAKK+ LSE +V+V
Sbjct: 1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKV 47
>gnl|CDD|227863 COG5576, COG5576, Homeodomain-containing transcription factor
[Transcription].
Length = 156
Score = 43.2 bits (102), Expect = 2e-05
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 144 DYERRKPKPRRNRTTFNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
PK +R RTT QL LE+ FE YP + R +L+ + + VQ+
Sbjct: 45 QDGSSPPKSKRRRTT--DEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQI 97
>gnl|CDD|189039 cd09869, PIN_GEN1, PIN domain of Gap Endonuclease 1, a
structure-specific, divalent-metal-ion dependent, 5'
nuclease and homologs. Gap Endonuclease 1 (GEN1) is a
Holliday junction resolvase reported to symmetrically
cleave Holliday junctions and allow religation without
additional processing. GEN1 is a member of the
structure-specific, 5' nuclease family that catalyzes
hydrolysis of DNA duplex-containing nucleic acid
structures during DNA replication, repair, and
recombination. These nucleases contain a PIN (PilT N
terminus) domain with a helical arch/clamp region (I
domain) of variable length (approximately 30 - 50
residues in GEN1 PIN domains) and a H3TH
(helix-3-turn-helix) domain, an atypical
helix-hairpin-helix-2-like region. Both the H3TH domain
(not included here) and the helical arch/clamp region
are involved in DNA binding. Nucleases within this group
also have a carboxylate-rich active site that is
involved in binding essential divalent metal ion
cofactors (Mg2+/Mn2+).
Length = 233
Score = 29.3 bits (66), Expect = 1.5
Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 9/50 (18%)
Query: 209 LALWVAEYKNPQFQSENRYFIKPQQHEIINMKILFHRQTYVLSLAIFETF 258
L+ WV E Q+ +YF+ P+ H ++ LF R Y+++L + F
Sbjct: 31 LSCWVVES-----QTVVKYFVVPKPH----LRNLFFRTRYLIALGVLPVF 71
>gnl|CDD|235026 PRK02292, PRK02292, V-type ATP synthase subunit E; Provisional.
Length = 188
Score = 29.2 bits (66), Expect = 1.8
Identities = 8/19 (42%), Positives = 14/19 (73%)
Query: 38 VVLNSSQGTVRLDNSVESL 56
VV+ S G VR++N+ +S+
Sbjct: 151 VVVESEDGRVRVNNTFDSI 169
>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 = 26.9 bits (60), Expect = 2.1
Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 163 QLNALEKVFERTHYPDAFVREELAKKVCL--SEARV 196
+++ + E T P VR+ ++ S+ARV
Sbjct: 6 LDESIKAIAEETGAPADLVRQMYDDEMRALSSDARV 41
>gnl|CDD|182958 PRK11096, ansB, L-asparaginase II; Provisional.
Length = 347
Score = 28.9 bits (65), Expect = 2.9
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 140 NDDYDYERRKPKPRRNRTTFNSHQLNALEKV 170
N DY+R + T F+ +LN L KV
Sbjct: 205 NGKVDYQRTPARKHTTDTPFDVSKLNELPKV 235
>gnl|CDD|177326 PHA01817, PHA01817, hypothetical protein.
Length = 479
Score = 28.9 bits (64), Expect = 3.2
Identities = 18/83 (21%), Positives = 34/83 (40%), Gaps = 2/83 (2%)
Query: 91 TISAGNSSHLVWGNLSQSQGGRG-EDESKLTSKRHFWFAKLQMSIRVKSENDDYDYERRK 149
T +AG + L W +SQ G R D+ ++T+ + W+ ++ + + N Y
Sbjct: 354 TGNAGQCTELTWAYMSQLHGKRQPTDDGQITNGQRVWYVYKKLGAKT-THNPTVGYGFSS 412
Query: 150 PKPRRNRTTFNSHQLNALEKVFE 172
P T + + VF+
Sbjct: 413 KPPYLQATAYGIGHTGVVVAVFD 435
>gnl|CDD|129926 TIGR00846, caca2, calcium/proton exchanger. The Ca2+:Cation
Antiporter (CaCA) Family (TC 2.A.19)Proteins of the CaCA
family are found ubiquitously, having been identified in
animals, plants, yeast, archaea and widely divergent
bacteria.All of the characterized animal proteins
catalyze Ca2+:Na+ exchange although some also transport
K+. The NCX1 plasma membrane protein exchanges 3 Na+ for
1 Ca2+. The E. coli ChaA protein catalyzes Ca2+:H+
antiport but may also catalyze Na+:H+ antiport. All
remaining well-characterized members of the family
catalyze Ca2+:H+ exchange.This model is generated from
the calcium ion/proton exchangers of the CacA family
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 365
Score = 28.5 bits (64), Expect = 3.9
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 8/57 (14%)
Query: 15 WGRWGWAAWLVGHGSGEARDSISVVLNSSQGTVRLDNSVESLYL-VSITGLLLALLV 70
W AAWLVG +I V L + ++++VES L V+ G++LA +V
Sbjct: 217 ISPWSAAAWLVGA-------TIVVALLAEYLVDTIESAVESWGLSVAFIGVILAPIV 266
>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 = 4.6
Identities = 12/37 (32%), Positives = 16/37 (43%), Gaps = 10/37 (27%)
Query: 150 PKPRR----------NRTTFNSHQLNALEKVFERTHY 176
PKPR NR FN+H + L + +R Y
Sbjct: 97 PKPRLFRLIEAEGLINRMGFNNHGADNLVENVKRARY 133
>gnl|CDD|214424 MTH00115, ND6, NADH dehydrogenase subunit 6; Provisional.
Length = 174
Score = 27.0 bits (61), Expect = 7.4
Identities = 26/88 (29%), Positives = 30/88 (34%), Gaps = 25/88 (28%)
Query: 6 FWSVVLVGGWGRWGWAAWLVGHGSGEARDSISVVLNSSQGTVRLD-NSVESLY------- 57
VV+VG W VG + V + VRLD + V Y
Sbjct: 95 VLVVVVVGVVVGGLWGMEGVG---------VVTVDSGGLFVVRLDFSGVSLFYSSGGGGL 145
Query: 58 LVSITGLLLALLVTSDWVGNTVLEFVFW 85
LV GLLL L V VLE V
Sbjct: 146 LVCGWGLLLTLFV--------VLELVRG 165
>gnl|CDD|224308 COG1390, NtpE, Archaeal/vacuolar-type H+-ATPase subunit E [Energy
production and conversion].
Length = 194
Score = 27.3 bits (61), Expect = 7.5
Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 4/32 (12%)
Query: 29 SGEARDSIS----VVLNSSQGTVRLDNSVESL 56
E + I VV+ S G +RLDN+ ES+
Sbjct: 144 GVELGEGIDIIGGVVVESRDGKIRLDNTFESI 175
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
0.321 0.134 0.425
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: 13,229,497
Number of extensions: 1215989
Number of successful extensions: 1049
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1047
Number of HSP's successfully gapped: 20
Length of query: 262
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 167
Effective length of database: 6,723,972
Effective search space: 1122903324
Effective search space used: 1122903324
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: 58 (26.1 bits)