RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4576
(400 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 32.7 bits (75), Expect = 0.015
Identities = 14/26 (53%), Positives = 20/26 (76%)
Query: 326 SLANHMNTHTGLKPHCCEICGRSYST 351
+L HM THTG KP+ C +CG+S+S+
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 27.4 bits (61), Expect = 1.1
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 354 YLKVHMSCHTGETSHTCHLCPQKFRQ 379
L+ HM HTGE + C +C + F
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
>gnl|CDD|221755 pfam12756, zf-C2H2_2, C2H2 type zinc-finger (2 copies). This
family contains two copies of a C2H2-like zinc finger
domain.
Length = 100
Score = 33.4 bits (77), Expect = 0.041
Identities = 15/79 (18%), Positives = 26/79 (32%), Gaps = 22/79 (27%)
Query: 123 ECSLCNESFENKKVLFRHLRGKHGMKI------------------KLSRHKTKCVCHYCN 164
+C CN + + + H+ HG I K+ C YC
Sbjct: 1 DCLFCNHTSDTVEENLEHMFKSHGFFIPEREYLVDLEGLLNYLREKIHE---GNECLYCG 57
Query: 165 RTFDSKAKIQEHIIS-SHM 182
+ F S +++H+ H
Sbjct: 58 KQFKSLEALRQHMRDKGHC 76
>gnl|CDD|218591 pfam05443, ROS_MUCR, ROS/MUCR transcriptional regulator protein.
This family consists of several ROS/MUCR transcriptional
regulator proteins. The ros chromosomal gene is present
in octopine and nopaline strains of Agrobacterium
tumefaciens as well as in Rhizobium meliloti. This gene
encodes a 15.5-kDa protein that specifically represses
the virC and virD operons in the virulence region of the
Ti plasmid and is necessary for succinoglycan
production. Sinorhizobium meliloti can produce two types
of acidic exopolysaccharides, succinoglycan and
galactoglucan, that are interchangeable for infection of
alfalfa nodules. MucR from Sinorhizobium meliloti acts
as a transcriptional repressor that blocks the
expression of the exp genes responsible for
galactoglucan production therefore allowing the
exclusive production of succinoglycan.
Length = 130
Score = 32.1 bits (74), Expect = 0.19
Identities = 16/45 (35%), Positives = 19/45 (42%), Gaps = 15/45 (33%)
Query: 104 SITQTYIHYLECKNRGKLYECSLCNESFENKKVLFRHLRGKHGMK 148
S+T YI LE GK + K L RHLR HG+
Sbjct: 65 SVTPDYIICLED---GKKF------------KTLKRHLRTHHGLT 94
Score = 31.7 bits (73), Expect = 0.25
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 313 VCTICGKMLIDKRSLANHMNTHTGLKP 339
+C GK ++L H+ TH GL P
Sbjct: 72 ICLEDGKKF---KTLKRHLRTHHGLTP 95
>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 = 32.8 bits (75), Expect = 0.34
Identities = 8/30 (26%), Positives = 15/30 (50%)
Query: 152 SRHKTKCVCHYCNRTFDSKAKIQEHIISSH 181
+ + VC+ C F S ++ EH ++H
Sbjct: 68 PINPSSYVCNVCMAEFSSMDQLAEHQRTTH 97
>gnl|CDD|225131 COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin),
alpha and beta subunits [Energy production and
conversion].
Length = 317
Score = 30.0 bits (68), Expect = 2.2
Identities = 20/69 (28%), Positives = 28/69 (40%), Gaps = 12/69 (17%)
Query: 91 DEERCRSCGLL-----SGSIT----QTYIHYLECKNRGKLYECSLCNES-FENKKVLFRH 140
DEE CR CG +G+IT + I +C GK C ++ F +KV
Sbjct: 170 DEELCRGCGKCVKVCPTGAITWDGKKLKIDGSKCIGCGKCIR--ACPKAAFRGEKVGIAI 227
Query: 141 LRGKHGMKI 149
L G +
Sbjct: 228 LVGGKTGRE 236
>gnl|CDD|165133 PHA02768, PHA02768, hypothetical protein; Provisional.
Length = 55
Score = 27.3 bits (60), Expect = 2.5
Identities = 15/34 (44%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 122 YECSLCNESFENKKVLFRHLRGKHGMKIKLSRHK 155
YEC +C E + +K + HLR KH +KLS K
Sbjct: 6 YECPICGEIYIKRKSMITHLR-KHNTNLKLSNCK 38
Score = 25.8 bits (56), Expect = 7.2
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 314 CTICGKMLIDKRSLANHMNTH-TGLKPHCCE 343
C ICG++ I ++S+ H+ H T LK C+
Sbjct: 8 CPICGEIYIKRKSMITHLRKHNTNLKLSNCK 38
>gnl|CDD|236707 PRK10522, PRK10522, multidrug transporter membrane
component/ATP-binding component; Provisional.
Length = 547
Score = 29.9 bits (68), Expect = 2.6
Identities = 18/39 (46%), Positives = 25/39 (64%), Gaps = 3/39 (7%)
Query: 52 FVFSFRSE-NKQIIGDLKVENTVYRIKSKDLLASFSSDV 89
FV+ RSE K+I+ D VE + ++ S LLAS +SDV
Sbjct: 79 FVYRLRSEFIKRIL-DTHVER-IEQLGSASLLASLTSDV 115
>gnl|CDD|177288 PHA00616, PHA00616, hypothetical protein.
Length = 44
Score = 26.7 bits (59), Expect = 2.7
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 160 CHYCNRTFDSKAKIQEHIISSHMHEKL 186
C C F K ++ EH++S H KL
Sbjct: 4 CLRCGGIFRKKKEVIEHLLSVHKQNKL 30
>gnl|CDD|224119 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 29.6 bits (67), Expect = 3.1
Identities = 19/87 (21%), Positives = 26/87 (29%), Gaps = 34/87 (39%)
Query: 109 YIHYLECKNRGKLYECSLCNESFENKKVLFRHLRGKHGMKIKLSRHKTKCVCHYCNRTFD 168
Y L C++ G + EC C+ L + + CHYC
Sbjct: 432 YAPLLLCRDCGYIAECPNCDSPLT------------------LHKATGQLRCHYCGY--- 470
Query: 169 SKAKIQEHIISSHMHEKLYQCDFCGSQ 195
QE I C CGS+
Sbjct: 471 -----QEPIPQ--------SCPECGSE 484
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 29.7 bits (66), Expect = 3.4
Identities = 21/79 (26%), Positives = 29/79 (36%), Gaps = 11/79 (13%)
Query: 282 REFICDV--CGKSYVRKGALTEHHQREHQGKKPVCTICGKMLIDKRSLANHMNTHTGLKP 339
+ + C V C K Y + L H HQ +K L + S KP
Sbjct: 348 KPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQK---------LHENPSPEKMNIFSAKDKP 398
Query: 340 HCCEICGRSYSTAAYLKVH 358
+ CE+C + Y LK H
Sbjct: 399 YRCEVCDKRYKNLNGLKYH 417
>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 = 25.5 bits (57), Expect = 4.1
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 122 YECSLCNESFENKKVLFRHLRGK 144
+ C LCN +F ++ L HLRGK
Sbjct: 1 FYCELCNVTFTSESQLKSHLRGK 23
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 25.5 bits (56), Expect = 4.2
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 368 HTCHLCPQKFRQRSSYTLHYKTH 390
+ C C + F+ +S+ H +TH
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 25.5 bits (56), Expect = 4.9
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 340 HCCEICGRSYSTAAYLKVHMSCH 362
+ C CG+ + + + L+ HM H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
>gnl|CDD|235984 PRK07272, PRK07272, amidophosphoribosyltransferase; Provisional.
Length = 484
Score = 28.9 bits (65), Expect = 5.4
Identities = 13/27 (48%), Positives = 15/27 (55%), Gaps = 3/27 (11%)
Query: 255 CHKPNLTNHIQNVHLKSELEKRTAILK 281
H NLTN V L+ ELEK+ AI
Sbjct: 111 AHNGNLTN---AVSLRKELEKQGAIFH 134
>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 = 25.4 bits (56), Expect = 5.7
Identities = 9/22 (40%), Positives = 11/22 (50%)
Query: 313 VCTICGKMLIDKRSLANHMNTH 334
C CGK K +L H+ TH
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|150637 pfam09986, DUF2225, Uncharacterized protein conserved in bacteria
(DUF2225). This domain, found in various hypothetical
bacterial proteins, has no known function.
Length = 214
Score = 28.4 bits (64), Expect = 6.4
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 120 KLYECSLCNESFENKKVLFRHLR 142
K C +CN F+ KKV LR
Sbjct: 4 KKIVCPVCNNEFKTKKVKSSGLR 26
>gnl|CDD|234322 TIGR03709, PPK2_rel_1, polyphosphate:nucleotide phosphotransferase,
PPK2 family. Members of this protein family belong to
the polyphosphate kinase 2 (PPK2) family, which is not
related in sequence to PPK1. While PPK1 tends to act in
the biosynthesis of polyphosphate, or poly(P), members
of the PPK2 family tend to use the terminal phosphate of
poly(P) to regenerate ATP or GTP from the corresponding
nucleoside diphosphate, or ADP from AMP as is the case
with polyphosphate:AMP phosphotransferase (PAP). Members
of this protein family most likely transfer the terminal
phosphate between poly(P) and some nucleotide, but it is
not clear which [Central intermediary metabolism,
Phosphorus compounds].
Length = 264
Score = 28.3 bits (64), Expect = 7.6
Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 139 RHLRGKHGMKIKLSRHKTKCVCHYCNRTFDSKAKIQEHIIS-SHMHEKLY 187
R G K+ L+ T Y ++ +++A + E + S + EKLY
Sbjct: 2 DTFRVTPGKKVNLADIDTDDTPGYDSKE-EAEALLAELVARLSDLQEKLY 50
>gnl|CDD|197732 smart00451, ZnF_U1, U1-like zinc finger. Family of C2H2-type zinc
fingers, present in matrin, U1 small nuclear
ribonucleoprotein C and other RNA-binding proteins.
Length = 35
Score = 25.3 bits (56), Expect = 7.9
Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 122 YECSLCNESFENKKVLFRHLRGK-HGMKIKL 151
+ C LCN +F ++ + HL+GK H +K
Sbjct: 4 FYCKLCNVTFTDEISVEAHLKGKKHKKNVKK 34
>gnl|CDD|224178 COG1258, COG1258, Predicted pseudouridylate synthase [Translation,
ribosomal structure and biogenesis].
Length = 398
Score = 28.1 bits (63), Expect = 8.5
Identities = 18/75 (24%), Positives = 31/75 (41%), Gaps = 13/75 (17%)
Query: 273 LEKRTAILKREFICDVC-GKSYVRKGALTEHHQREHQGKKPVCTICGKMLIDKRSLANHM 331
+EK IL + +CD C G+ + + G E+ +R G+ + +L
Sbjct: 4 IEKALEILAKYPLCDSCLGRCFAKLGTGLENRER------------GRAIKLSLALELDE 51
Query: 332 NTHTGLKPHCCEICG 346
++P C ICG
Sbjct: 52 EYKNEVEPEPCYICG 66
>gnl|CDD|223641 COG0567, SucA, 2-oxoglutarate dehydrogenase complex, dehydrogenase
(E1) component, and related enzymes [Energy production
and conversion].
Length = 906
Score = 28.4 bits (64), Expect = 9.2
Identities = 20/95 (21%), Positives = 34/95 (35%), Gaps = 30/95 (31%)
Query: 203 YYHLRDKHLSKPANLSCEFCSRIFTK-KELLRSHLAVHKIGKNYQCYYCRKTYC------ 255
++ L + L + N+ F + +EL+ L +KTYC
Sbjct: 104 FHGLTEADLDETFNIGDGFLGKETMTLRELI-EIL--------------KKTYCGSIGVE 148
Query: 256 --HKPN------LTNHIQNVHLKSELEKRTAILKR 282
H + L I++ E++ AILKR
Sbjct: 149 YMHISDPEEKRWLQERIESGKPTFTAEEKKAILKR 183
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
0.325 0.136 0.438
Gapped
Lambda K H
0.267 0.0804 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,986,258
Number of extensions: 1703801
Number of successful extensions: 2277
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2257
Number of HSP's successfully gapped: 99
Length of query: 400
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 301
Effective length of database: 6,546,556
Effective search space: 1970513356
Effective search space used: 1970513356
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 60 (26.7 bits)