RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8536
(186 letters)
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain.
Length = 57
Score = 77.5 bits (192), Expect = 1e-19
Identities = 29/56 (51%), Positives = 40/56 (71%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERK 62
+ R ++ +Q ELEKEF +RY + + ELA LGL+ERQVK+WFQNRRAK ++
Sbjct: 2 RKRTTFTPEQLEELEKEFEKNRYPSAEEREELAKKLGLTERQVKVWFQNRRAKWKR 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 = 69.6 bits (171), Expect = 2e-16
Identities = 29/57 (50%), Positives = 39/57 (68%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQ 63
+ R ++ +Q ELEKEF + Y + + ELA LGL+ERQVKIWFQNRRAK ++
Sbjct: 2 RKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRS 58
>gnl|CDD|197696 smart00389, HOX, Homeodomain. DNA-binding factors that are
involved in the transcriptional regulation of key
developmental processes.
Length = 57
Score = 68.8 bits (169), Expect = 3e-16
Identities = 29/55 (52%), Positives = 38/55 (69%)
Query: 7 KYRVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKER 61
+ R ++ +Q ELEKEF + Y + + ELA LGLSERQVK+WFQNRRAK +
Sbjct: 3 RKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
>gnl|CDD|227863 COG5576, COG5576, Homeodomain-containing transcription factor
[Transcription].
Length = 156
Score = 47.8 bits (114), Expect = 2e-07
Identities = 24/71 (33%), Positives = 41/71 (57%)
Query: 9 RVVYSDQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVKIWFQNRRAKERKQLKKRE 68
R +D+Q + LE+EF + Y + + +L+ L + + V+IWFQN+RAKE+K+ +
Sbjct: 55 RRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKRSGKV 114
Query: 69 EVVIKDPSKDL 79
E + DL
Sbjct: 115 EQRPGEEEADL 125
Score = 32.4 bits (74), Expect = 0.060
Identities = 14/31 (45%), Positives = 20/31 (64%)
Query: 94 VKIWFQNRRAKERKQLKKREEVVIKDPSKDL 124
V+IWFQN+RAKE+K+ + E + DL
Sbjct: 95 VQIWFQNKRAKEKKKRSGKVEQRPGEEEADL 125
>gnl|CDD|219865 pfam08493, AflR, Aflatoxin regulatory protein. This domain is
found in the aflatoxin regulatory protein (AflR) which
is involved in the regulation of the biosynthesis of
aflatoxin in the fungal genus Aspergillus. It occurs
together with the fungal Zn(2)-Cys(6) binuclear cluster
domain (pfam00172).
Length = 275
Score = 32.2 bits (73), Expect = 0.11
Identities = 17/41 (41%), Positives = 23/41 (56%), Gaps = 7/41 (17%)
Query: 120 PSKDLFLSNKVMIRKISVSPPFSFRSSETTATSYILDIDTR 160
P +DLFL++ ++SPP S R+S TT S LD R
Sbjct: 134 PMQDLFLTS-------ALSPPSSARTSHTTCLSICLDTLMR 167
>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 = 27.5 bits (62), Expect = 0.58
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 35 KAELANSLGLSERQVKIWFQNRR 57
K+ELA GLS +Q+ WF N R
Sbjct: 16 KSELARQTGLSRKQIDNWFINAR 38
>gnl|CDD|224345 COG1428, COG1428, Deoxynucleoside kinases [Nucleotide transport and
metabolism].
Length = 216
Score = 27.7 bits (62), Expect = 3.1
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 69 EVVIKDPSKDLFLSNKVMYTYLVFQVKIWFQNRRAKERKQLKKREEVVIKDPS--KDLFL 126
E+V +P DLF + Y F ++I+F R K+ K+ + I D S +D FL
Sbjct: 35 ELVEDNPFLDLFYEDPERYA---FLLQIYFLLNRFKKIKKALSDKN-NILDRSIFEDYFL 90
Query: 127 SNKVMIRKISVSPP 140
K+ K ++SP
Sbjct: 91 FAKLNFAKGTLSPS 104
>gnl|CDD|239570 cd03488, Topoisomer_IB_N_htopoI_like, Topoisomer_IB_N_htopoI_like :
N-terminal DNA binding fragment found in eukaryotic DNA
topoisomerase (topo) IB proteins similar to the
monomeric yeast and human topo I. Topo I enzymes are
divided into: topo type IA (bacterial) and type IB
(eukaryotic). Topo I relaxes superhelical tension in
duplex DNA by creating a single-strand nick, the broken
strand can then rotate around the unbroken strand to
remove DNA supercoils and, the nick is religated,
liberating topo I. These enzymes regulate the
topological changes that accompany DNA replication,
transcription and other nuclear processes. Human topo I
is the target of a diverse set of anticancer drugs
including camptothecins (CPTs). CPTs bind to the topo
I-DNA complex and inhibit religation of the
single-strand nick, resulting in the accumulation of
topo I-DNA adducts. This family may represent more than
one structural domain.
Length = 215
Score = 27.3 bits (61), Expect = 4.1
Identities = 24/85 (28%), Positives = 39/85 (45%), Gaps = 6/85 (7%)
Query: 61 RKQLKKREEVVIKDPSKDLFLSNKVMYTYLVFQVKIWFQNRRAKERKQLKKREEVVIKDP 120
+K + K E+V+IKD SK F M+ Y Q + + +KE K+ K E+ +++
Sbjct: 68 KKVMTKEEKVIIKDFSKCDF---TQMFAYFKAQKEE--KKAMSKEEKKAIKAEKEKLEEE 122
Query: 121 SKDLFLSN-KVMIRKISVSPPFSFR 144
L K + + PP FR
Sbjct: 123 YGFCILDGHKEKVGNFRIEPPGLFR 147
>gnl|CDD|237515 PRK13805, PRK13805, bifunctional acetaldehyde-CoA/alcohol
dehydrogenase; Provisional.
Length = 862
Score = 27.5 bits (62), Expect = 4.5
Identities = 8/20 (40%), Positives = 9/20 (45%)
Query: 25 HYSRYITIRRKAELANSLGL 44
Y R AE+A LGL
Sbjct: 767 QYEYPRADERYAEIARHLGL 786
>gnl|CDD|238356 cd00660, Topoisomer_IB_N, Topoisomer_IB_N: N-terminal DNA binding
fragment found in eukaryotic DNA topoisomerase (topo) IB
proteins similar to the monomeric yeast and human topo I
and heterodimeric topo I from Leishmania donvanni. Topo
I enzymes are divided into: topo type IA (bacterial)
and type IB (eukaryotic). Topo I relaxes superhelical
tension in duplex DNA by creating a single-strand nick,
the broken strand can then rotate around the unbroken
strand to remove DNA supercoils and, the nick is
religated, liberating topo I. These enzymes regulate the
topological changes that accompany DNA replication,
transcription and other nuclear processes. Human topo I
is the target of a diverse set of anticancer drugs
including camptothecins (CPTs). CPTs bind to the topo
I-DNA complex and inhibit re-ligation of the
single-strand nick, resulting in the accumulation of
topo I-DNA adducts. In addition to differences in
structure and some biochemical properties,
Trypanosomatid parasite topo I differ from human topo I
in their sensitivity to CPTs and other classical topo I
inhibitors. Trypanosomatid topos I play putative roles
in organizing the kinetoplast DNA network unique to
these parasites. This family may represent more than
one structural domain.
Length = 215
Score = 26.5 bits (59), Expect = 7.8
Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 5/53 (9%)
Query: 61 RKQLKKREEVVIKDPSKDLFLSNKVMYTYLVFQVKIWFQNRRAKERKQLKKRE 113
RK L K E+ +IK SK F +Y Y + + + +KE K+ K E
Sbjct: 68 RKILTKEEKHIIKKLSKCDF---TPIYQYFEEEKEK--KKAMSKEEKKAIKEE 115
>gnl|CDD|132580 TIGR03541, reg_near_HchA, LuxR family transcriptional regulatory,
chaperone HchA-associated. Members of this protein
family belong to the LuxR transcriptional regulator
family, and contain both autoinducer binding (pfam03472)
and transcriptional regulator (pfam00196) domains.
Members, however, occur only in a few members of the
Gammaproteobacteria that have the
chaperone/aminopeptidase HchA, and are always encoded by
the adjacent gene.
Length = 232
Score = 26.3 bits (58), Expect = 8.6
Identities = 12/27 (44%), Positives = 19/27 (70%)
Query: 33 RRKAELANSLGLSERQVKIWFQNRRAK 59
RR+A++A LG+SER V+ ++ R K
Sbjct: 187 RRQADIAAILGISERTVENHLRSARRK 213
>gnl|CDD|234082 TIGR02997, Sig70-cyanoRpoD, RNA polymerase sigma factor,
cyanobacterial RpoD-like family. This family includes
a number of closely related sigma-70 (TIGR02937)
factors in the cyanobacteria. All appear most closely
related to the essential sigma-70 factor RpoD, and some
score above trusted to the RpoD C-terminal domain model
(TIGR02393).
Length = 298
Score = 26.4 bits (59), Expect = 8.9
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 8/49 (16%)
Query: 14 DQQRLELEKEFHYSRYITIRRKAELANSLGLSERQVK-IWFQNRRAKER 61
++ LE + S K E A + GLSE +++ Q +RAKE+
Sbjct: 37 LREELEEQLGREPS-------KEEWAAAAGLSEAELRQRLRQGQRAKEK 78
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 0.132 0.364
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: 9,445,402
Number of extensions: 879616
Number of successful extensions: 1066
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1061
Number of HSP's successfully gapped: 55
Length of query: 186
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 95
Effective length of database: 6,901,388
Effective search space: 655631860
Effective search space used: 655631860
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: 56 (25.3 bits)