RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8937
(147 letters)
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 32.5 bits (74), Expect = 0.029
Identities = 19/50 (38%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 94 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHVISFH 143
C +C +S+S +LKQHIR + CP+C K F+N HV H
Sbjct: 76 CPLCLMPFSSSVSLKQHIR--YTEHSKVCPVCGKEFRNTDSTLDHVCKKH 123
Score = 31.8 bits (72), Expect = 0.057
Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 22 CKICGKHYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKLYLRRHV 67
C +C +S+S +LKQHIR + CP+C K F+N HV
Sbjct: 76 CPLCLMPFSSSVSLKQHIR--YTEHSKVCPVCGKEFRNTDSTLDHV 119
Score = 25.6 bits (56), Expect = 7.9
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 50 CPLCQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARYCKICGKH 100
CPLC F + + L++H+ H+ + P K + D+ +C KH
Sbjct: 76 CPLCLMPFSSSVSLKQHIRYTEHS---KVCPVCGKEFRNTDSTLDHVCKKH 123
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 31.6 bits (71), Expect = 0.12
Identities = 19/73 (26%), Positives = 34/73 (46%), Gaps = 7/73 (9%)
Query: 50 CPL--CQKCFKNKLYLRRHVGTYTHTPSYRSVPGASKPLHSLDARY----CKICGKHYSN 103
CP+ C K +KN+ L+ H+ + H + + ++ A+ C++C K Y N
Sbjct: 352 CPVEGCNKKYKNQNGLKYHM-LHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKN 410
Query: 104 SSNLKQHIRLIHL 116
+ LK H + H
Sbjct: 411 LNGLKYHRKHSHD 423
Score = 30.5 bits (68), Expect = 0.33
Identities = 22/93 (23%), Positives = 28/93 (30%), Gaps = 27/93 (29%)
Query: 1 TPSYRSVPGGSKPLHSLDARYCKI--CGKHYSNSSNLKQHIRLIHLPGILF--------- 49
TPS KP C + C K Y N + LK H+ H L
Sbjct: 337 TPSRMLKVKDGKPYK------CPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMN 390
Query: 50 ----------CPLCQKCFKNKLYLRRHVGTYTH 72
C +C K +KN L+ H
Sbjct: 391 IFSAKDKPYRCEVCDKRYKNLNGLKYHRKHSHD 423
>gnl|CDD|204841 pfam12171, zf-C2H2_jaz, Zinc-finger double-stranded RNA-binding.
This domain family is found in archaea and eukaryotes,
and is approximately 30 amino acids in length. The
mammalian members of this group occur multiple times
along the protein, joined by flexible linkers, and are
referred to as JAZ - dsRNA-binding ZF protein -
zinc-fingers. The JAZ proteins are expressed in all
tissues tested and localise in the nucleus,
particularly the nucleolus. JAZ preferentially binds to
double-stranded (ds) RNA or RNA/DNA hybrids rather than
DNA. In addition to binding double-stranded RNA, these
zinc-fingers are required for nucleolar localisation.
Length = 27
Score = 27.9 bits (63), Expect = 0.23
Identities = 6/20 (30%), Positives = 13/20 (65%)
Query: 21 YCKICGKHYSNSSNLKQHIR 40
YC C K++ + + L+ H++
Sbjct: 3 YCVACDKYFKSENALENHLK 22
Score = 27.9 bits (63), Expect = 0.23
Identities = 6/20 (30%), Positives = 13/20 (65%)
Query: 93 YCKICGKHYSNSSNLKQHIR 112
YC C K++ + + L+ H++
Sbjct: 3 YCVACDKYFKSENALENHLK 22
>gnl|CDD|200998 pfam00096, zf-C2H2, Zinc finger, C2H2 type. The C2H2 zinc finger
is the classical zinc finger domain. The two conserved
cysteines and histidines co-ordinate a zinc ion. The
following pattern describes the zinc finger.
#-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can
be any amino acid, and numbers in brackets indicate the
number of residues. The positions marked # are those
that are important for the stable fold of the zinc
finger. The final position can be either his or cys.
The C2H2 zinc finger is composed of two short beta
strands followed by an alpha helix. The amino terminal
part of the helix binds the major groove in DNA binding
zinc fingers. The accepted consensus binding sequence
for Sp1 is usually defined by the asymmetric
hexanucleotide core GGGCGG but this sequence does not
include, among others, the GAG (=CTC) repeat that
constitutes a high-affinity site for Sp1 binding to the
wt1 promoter.
Length = 22
Score = 27.7 bits (62), Expect = 0.31
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 22 CKICGKHYSNSSNLKQHIR 40
C CGK +S SNLK+H+R
Sbjct: 2 CPDCGKSFSRKSNLKRHLR 20
Score = 27.7 bits (62), Expect = 0.31
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 94 CKICGKHYSNSSNLKQHIR 112
C CGK +S SNLK+H+R
Sbjct: 2 CPDCGKSFSRKSNLKRHLR 20
>gnl|CDD|202452 pfam02892, zf-BED, BED zinc finger.
Length = 43
Score = 27.2 bits (61), Expect = 0.59
Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 3/26 (11%)
Query: 21 YCKICGKHYS---NSSNLKQHIRLIH 43
CK CGK S +SNLK+H+
Sbjct: 17 RCKYCGKILSGGGGTSNLKRHLVRKC 42
Score = 27.2 bits (61), Expect = 0.59
Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 3/26 (11%)
Query: 93 YCKICGKHYS---NSSNLKQHIRLIH 115
CK CGK S +SNLK+H+
Sbjct: 17 RCKYCGKILSGGGGTSNLKRHLVRKC 42
>gnl|CDD|215224 PLN02400, PLN02400, cellulose synthase.
Length = 1085
Score = 28.8 bits (64), Expect = 1.1
Identities = 18/70 (25%), Positives = 27/70 (38%), Gaps = 10/70 (14%)
Query: 9 GGSKPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFCPLC---------QKCFKN 59
G KPL +L+ + C+ICG + + + C C Q C +
Sbjct: 26 SGPKPLKNLNGQICQICGDDVGVTETGDVFV-ACNECAFPVCRPCYEYERKDGTQCCPQC 84
Query: 60 KLYLRRHVGT 69
K RRH G+
Sbjct: 85 KTRYRRHKGS 94
>gnl|CDD|233043 TIGR00599, rad18, DNA repair protein rad18. All proteins in this
family for which functions are known are involved in
nucleotide excision repair.This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 397
Score = 28.8 bits (64), Expect = 1.2
Identities = 25/102 (24%), Positives = 34/102 (33%), Gaps = 17/102 (16%)
Query: 46 GILFCPLCQKCFKNKLYLRRHVGTYTHTPSYRS---VPGASKP------LHSLDARYCKI 96
G++ CP+CQ+ K R +PS + P S P S
Sbjct: 180 GLVQCPICQQRMPEKAVERHLDSECLGSPSLGASTTFPTESNPHNKSSSRFSFRTVDKSS 239
Query: 97 CGK-----HYSNSSNLKQHIRLIHLPGILFCPLCQKCFKNKL 133
G+ Y NS K R LP I + L + KL
Sbjct: 240 TGETSHVDKYLNSMMSKPPER---LPKINYSLLTDSQIRKKL 278
>gnl|CDD|223486 COG0409, HypD, Hydrogenase maturation factor [Posttranslational
modification, protein turnover, chaperones].
Length = 364
Score = 28.1 bits (63), Expect = 1.9
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 9/36 (25%)
Query: 24 ICGKH------YSNSSNLKQHIRLIHLPGILFCPLC 53
+CG H Y S L +++ IH PG CP+C
Sbjct: 35 VCGGHTHTIMKYGLRSLLPENVEFIHGPG---CPVC 67
Score = 28.1 bits (63), Expect = 1.9
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 9/36 (25%)
Query: 96 ICGKH------YSNSSNLKQHIRLIHLPGILFCPLC 125
+CG H Y S L +++ IH PG CP+C
Sbjct: 35 VCGGHTHTIMKYGLRSLLPENVEFIHGPG---CPVC 67
>gnl|CDD|214746 smart00614, ZnF_BED, BED zinc finger. DNA-binding domain in
chromatin-boundary-element-binding proteins and
transposases.
Length = 50
Score = 25.9 bits (57), Expect = 2.2
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 5/30 (16%)
Query: 21 YCKICGKHYS-----NSSNLKQHIRLIHLP 45
CK CGK S +SNL++H+R H
Sbjct: 20 KCKYCGKKLSRSSKGGTSNLRRHLRRKHPA 49
Score = 25.9 bits (57), Expect = 2.2
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 5/30 (16%)
Query: 93 YCKICGKHYS-----NSSNLKQHIRLIHLP 117
CK CGK S +SNL++H+R H
Sbjct: 20 KCKYCGKKLSRSSKGGTSNLRRHLRRKHPA 49
>gnl|CDD|215121 PLN02189, PLN02189, cellulose synthase.
Length = 1040
Score = 28.1 bits (62), Expect = 2.3
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 21/61 (34%)
Query: 12 KPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFC-------PLCQKCFKNKLYLR 64
KPL +LD + C+ICG + + G LF P+C+ C++ Y R
Sbjct: 27 KPLRNLDGQVCEICGDEIG-----------LTVDGDLFVACNECGFPVCRPCYE---YER 72
Query: 65 R 65
R
Sbjct: 73 R 73
Score = 28.1 bits (62), Expect = 2.3
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 21/61 (34%)
Query: 84 KPLHSLDARYCKICGKHYSNSSNLKQHIRLIHLPGILFC-------PLCQKCFKNKLYLR 136
KPL +LD + C+ICG + + G LF P+C+ C++ Y R
Sbjct: 27 KPLRNLDGQVCEICGDEIG-----------LTVDGDLFVACNECGFPVCRPCYE---YER 72
Query: 137 R 137
R
Sbjct: 73 R 73
>gnl|CDD|180247 PRK05767, rpl44e, 50S ribosomal protein L44e; Validated.
Length = 92
Score = 26.4 bits (59), Expect = 2.4
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 4 YRSVPGGSKPLHSLDARY-CKICGK 27
+ VPGG+KP +D RY C CGK
Sbjct: 51 FSPVPGGAKPTKKVDLRYRCTECGK 75
>gnl|CDD|205121 pfam12874, zf-met, Zinc-finger of C2H2 type. This is a
zinc-finger domain with the CxxCx(12)Hx(6)H motif,
found in multiple copies in a wide range of proteins
from plants to metazoans. Some member proteins,
particularly those from plants, are annotated as being
RNA-binding.
Length = 25
Score = 24.8 bits (55), Expect = 3.6
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 21 YCKICGKHYSNSSNLKQHIR 40
YC++C +++ S LK H+R
Sbjct: 2 YCELCNVTFTSESQLKSHLR 21
Score = 24.8 bits (55), Expect = 3.6
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 93 YCKICGKHYSNSSNLKQHIR 112
YC++C +++ S LK H+R
Sbjct: 2 YCELCNVTFTSESQLKSHLR 21
>gnl|CDD|240559 cd13116, POLO_box_Plk4_3, C-terminal (third) polo-box domain
(PBD) of polo-like kinase 4 (Plk4/Sak). The polo-like
Ser/Thr kinases (Plk1, Plk2/Snk, Plk3/Prk/Fnk,
Plk4/Sak, and the inactive kinase Plk5) play various
roles in cytokinesis and mitosis. At their C-terminus,
they contain a tandemly repeated polo-box domain (in
the case of Plk4, a tandem repeat of cryptic PBDs is
found in the middle of the protein followed by a
C-terminal single repeat), which appears to be involved
in autoinhibition and in mediating the subcellular
localization. The latter may be controlled via
interactions between the polo-box domain and
phospho-peptide motifs. The phosphopeptide binding site
is formed at the interface between the two tandemly
repeated PBDs. The PBDs of Plk4/Sak appear unique in
participating in homodimer interactions, though it is
not clear whether and how they interact with
phosphopeptides.
Length = 81
Score = 25.2 bits (56), Expect = 5.5
Identities = 9/23 (39%), Positives = 15/23 (65%), Gaps = 2/23 (8%)
Query: 28 HYSNSSNLKQHIR--LIHLPGIL 48
Y+ S +L +H+R L HLP ++
Sbjct: 55 RYNQSDSLPEHVREKLSHLPMVI 77
Score = 25.2 bits (56), Expect = 5.5
Identities = 9/23 (39%), Positives = 15/23 (65%), Gaps = 2/23 (8%)
Query: 100 HYSNSSNLKQHIR--LIHLPGIL 120
Y+ S +L +H+R L HLP ++
Sbjct: 55 RYNQSDSLPEHVREKLSHLPMVI 77
>gnl|CDD|218350 pfam04959, ARS2, Arsenite-resistance protein 2. Arsenite is a
carcinogenic compound which can act as a co-mutagen by
inhibiting DNA repair. Arsenite-resistance protein 2 is
thought to play a role in arsenite resistance.
Length = 211
Score = 26.3 bits (58), Expect = 5.7
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 122 CPLCQKCFKNKLYLRRHVISFHE 144
CPL K FK ++R+H+ + H
Sbjct: 80 CPLSGKKFKGPEFVRKHIFNKHG 102
>gnl|CDD|212564 cd11674, lambda-1, inner capsid protein lambda-1 or VP3. The
reovirus inner capsid protein lambda-1 displays
nucleoside triphosphate phosphohydrolase (NTPase),
RNA-5'-triphosphatase (RTPase), and RNA helicase
activity and may play a role in the transcription of the
virus genome, the unwinding or reannealing of
double-stranded RNA during RNA synthesis. The RTPase
activity constitutes the first step in the capping of
RNA, resulting in a 5'-diphosphorylated RNA plus-strand.
lambda1 is an Orthoreovirus core protein, VP3 is the
homologous core protein in Aquareoviruses.
Length = 1166
Score = 26.7 bits (59), Expect = 5.7
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 74 PSYRSVPGASKPLHSLD-ARY-CKICGKHYSNSSNLKQHIRLIH 115
P+ P SK ++ + Y C +C +S+ L +H R H
Sbjct: 54 PAAVISPPQSKKATPINPSSYVCNVCMAEFSSMDQLAEHQRTTH 97
>gnl|CDD|215078 PLN00150, PLN00150, potassium ion transporter family protein;
Provisional.
Length = 779
Score = 26.8 bits (59), Expect = 5.9
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 9 GGSKPLHSLDARYCKICGKHYSNSSNL 35
GGS L+SL RYC I + +++
Sbjct: 116 GGSFALYSLLCRYCNISLLPNQHPTDV 142
>gnl|CDD|206065 pfam13894, zf-C2H2_4, C2H2-type zinc finger. This family contains
a number of divergent C2H2 type zinc fingers.
Length = 24
Score = 24.1 bits (52), Expect = 6.3
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 122 CPLCQKCFKNKLYLRRHVISFH 143
CPLC K F +K L+RH+ H
Sbjct: 3 CPLCGKSFSSKDALKRHLRKHH 24
>gnl|CDD|216789 pfam01924, HypD, Hydrogenase formation hypA family. HypD is
involved in hydrogenase formation. It contains many
possible metal binding residues, which may bind to
nickel. Transposon Tn5 insertions into hypD resulted in
R. leguminosarum mutants that lacked any hydrogenase
activity in symbiosis with peas.
Length = 355
Score = 26.3 bits (59), Expect = 7.4
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 9/36 (25%)
Query: 24 ICGKH------YSNSSNLKQHIRLIHLPGILFCPLC 53
+CG H Y S L +++ LIH PG CP+C
Sbjct: 27 VCGGHTHAIFRYGIRSLLPENVELIHGPG---CPVC 59
Score = 26.3 bits (59), Expect = 7.4
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 9/36 (25%)
Query: 96 ICGKH------YSNSSNLKQHIRLIHLPGILFCPLC 125
+CG H Y S L +++ LIH PG CP+C
Sbjct: 27 VCGGHTHAIFRYGIRSLLPENVELIHGPG---CPVC 59
>gnl|CDD|130919 TIGR01860, VNFD, nitrogenase vanadium-iron protein, alpha chain.
This model represents the alpha chain of the
vanadium-containing component of the vanadium-iron
nitrogenase compound I. The complex also includes a
second alpha chain, two beta chains and two delta
chains. Compount I interacts with compound II also known
as the iron-protein which transfers electrons to
compound I where the catalysis occurs [Central
intermediary metabolism, Nitrogen fixation].
Length = 461
Score = 26.1 bits (57), Expect = 7.7
Identities = 20/79 (25%), Positives = 30/79 (37%), Gaps = 14/79 (17%)
Query: 45 PGILFCPLCQKCF---KNKLYLR-RHVGTYTHTP--SYRSVPGASKPLHSLDARYCKICG 98
P L C + + +Y++ T P + ++PG SL R C CG
Sbjct: 1 PLKLLE--CDEDIPERQKHVYIKEPGEDTTEFLPLSNIATIPG------SLSERGCSYCG 52
Query: 99 KHYSNSSNLKQHIRLIHLP 117
LK I++IH P
Sbjct: 53 AKLVIGGVLKDTIQMIHGP 71
>gnl|CDD|185542 PTZ00293, PTZ00293, thymidine kinase; Provisional.
Length = 211
Score = 25.8 bits (57), Expect = 8.7
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 5/42 (11%)
Query: 22 CKICGKHYSNSSNL--KQHIRLIHLPGI-LFCPLCQKCFKNK 60
C CGK S S + + I LI G + C+KCF+ K
Sbjct: 140 CMFCGKEASFSKRIVQSEQIELIG--GEDKYIATCRKCFRTK 179
Score = 25.8 bits (57), Expect = 8.7
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 5/42 (11%)
Query: 94 CKICGKHYSNSSNL--KQHIRLIHLPGI-LFCPLCQKCFKNK 132
C CGK S S + + I LI G + C+KCF+ K
Sbjct: 140 CMFCGKEASFSKRIVQSEQIELIG--GEDKYIATCRKCFRTK 179
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 23.6 bits (51), Expect = 9.6
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 22 CKICGKHYSNSSNLKQHIR 40
C CGK + + S L++H+R
Sbjct: 3 CPECGKVFKSKSALREHMR 21
Score = 23.6 bits (51), Expect = 9.6
Identities = 8/19 (42%), Positives = 13/19 (68%)
Query: 94 CKICGKHYSNSSNLKQHIR 112
C CGK + + S L++H+R
Sbjct: 3 CPECGKVFKSKSALREHMR 21
Score = 23.6 bits (51), Expect = 9.7
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 122 CPLCQKCFKNKLYLRRHVIS 141
CP C K FK+K LR H+ +
Sbjct: 3 CPECGKVFKSKSALREHMRT 22
>gnl|CDD|237892 PRK15062, PRK15062, hydrogenase isoenzymes formation protein
HypD; Provisional.
Length = 364
Score = 25.8 bits (58), Expect = 9.7
Identities = 10/19 (52%), Positives = 13/19 (68%), Gaps = 3/19 (15%)
Query: 35 LKQHIRLIHLPGILFCPLC 53
L ++I LIH PG CP+C
Sbjct: 50 LPENIELIHGPG---CPVC 65
Score = 25.8 bits (58), Expect = 9.7
Identities = 10/19 (52%), Positives = 13/19 (68%), Gaps = 3/19 (15%)
Query: 107 LKQHIRLIHLPGILFCPLC 125
L ++I LIH PG CP+C
Sbjct: 50 LPENIELIHGPG---CPVC 65
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
0.326 0.140 0.467
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,220,062
Number of extensions: 595565
Number of successful extensions: 919
Number of sequences better than 10.0: 1
Number of HSP's gapped: 896
Number of HSP's successfully gapped: 84
Length of query: 147
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 59
Effective length of database: 7,034,450
Effective search space: 415032550
Effective search space used: 415032550
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 54 (24.6 bits)