RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12199
(597 letters)
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 40.9 bits (95), Expect = 0.002
Identities = 25/98 (25%), Positives = 37/98 (37%), Gaps = 8/98 (8%)
Query: 387 VHELPPEPNSGAGSVLQNNP----YPPLRKAKQHVKSVTCSV--CEKAFSSKENCKAHYT 440
V +LP +S G + P + K C V C K + ++ K H
Sbjct: 313 VRKLPCTNSSSNGKLAHGGERNIDTPSRMLKVKDGKPYKCPVEGCNKKYKNQNGLKYH-- 370
Query: 441 RQHGNKEPKEPKSGEGLPALEQLLKMKPYTCEICSKTY 478
HG++ K ++ K KPY CE+C K Y
Sbjct: 371 MLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRY 408
Score = 30.5 bits (68), Expect = 2.9
Identities = 23/68 (33%), Positives = 31/68 (45%), Gaps = 22/68 (32%)
Query: 190 KCTI--CNKENFKNQLSLSIHMRY-------HENVRE------------YECEICKKKFI 228
KC + CNK+ +KNQ L HM + HEN Y CE+C K++
Sbjct: 351 KCPVEGCNKK-YKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYK 409
Query: 229 NKSTLKEH 236
N + LK H
Sbjct: 410 NLNGLKYH 417
Score = 28.9 bits (64), Expect = 9.8
Identities = 21/82 (25%), Positives = 36/82 (43%), Gaps = 22/82 (26%)
Query: 209 MRYHENVREYECEI--CKKKFINKSTLKEHSV-SHMSV------------------KPFK 247
M ++ + Y+C + C KK+ N++ LK H + H + KP++
Sbjct: 341 MLKVKDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYR 400
Query: 248 CEICGHYLSRASRLRAHLKAHS 269
CE+C + L+ H K HS
Sbjct: 401 CEVCDKRYKNLNGLKYHRK-HS 421
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 30.4 bits (69), Expect = 0.12
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 204 SLSIHMRYHENVREYECEICKKKF 227
+L HMR H + Y+C +C K F
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSF 24
Score = 27.0 bits (60), Expect = 2.5
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 233 LKEHSVSHMSVKPFKCEICG 252
L+ H +H KP+KC +CG
Sbjct: 2 LRRHMRTHTGEKPYKCPVCG 21
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 31.0 bits (70), Expect = 0.76
Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 5/63 (7%)
Query: 460 LEQLLKMKPYTCEICSKTYTVEGSLLTH--YDMHSGEFYQCDVCFKEFRSSVTLRNHTRR 517
L + PY C +C ++ SL H Y HS C VC KEFR++ + +H +
Sbjct: 65 LLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYTEHS---KVCPVCGKEFRNTDSTLDHVCK 121
Query: 518 HDN 520
N
Sbjct: 122 KHN 124
Score = 28.7 bits (64), Expect = 4.1
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 496 YQCDVCFKEFRSSVTLRNHTR-RHDNFSCDECSVECQDLNALRMHTLREH 544
Y C +C F SSV+L+ H R + C C E ++ ++ H ++H
Sbjct: 74 YVCPLCLMPFSSSVSLKQHIRYTEHSKVCPVCGKEFRNTDSTLDHVCKKH 123
Score = 28.7 bits (64), Expect = 4.4
Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 187 NQLKCTICNKENFKNQLSLSIHMRYHENVREYECEICKKKFINKSTLKEH 236
+ C +C F + +SL H+RY E+ + C +C K+F N + +H
Sbjct: 72 SPYVCPLCLMP-FSSSVSLKQHIRYTEHSKV--CPVCGKEFRNTDSTLDH 118
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 27.8 bits (62), Expect = 1.0
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 218 YECEICKKKFINKSTLKEHSVSH 240
Y C C K F +KS L+EH +H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 26.7 bits (59), Expect = 2.7
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 496 YQCDVCFKEFRSSVTLRNHTRRH 518
Y+C C K F+S LR H R H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 25.1 bits (55), Expect = 9.0
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 469 YTCEICSKTYTVEGSLLTHYDMH 491
Y C C K + + +L H H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
>gnl|CDD|234471 TIGR04104, cxxc_20_cxxc, cxxc_20_cxxc protein. This small,
uncommon, poorly conserved protein is found primarily in
the Firmicutes. It features are pair of CxxC motifs
separated by about 20 amino acids, followed by a highly
hydrophobic region of about 45 amino acids. It has no
conserved gene neighborhood, and its function is
unknown.
Length = 94
Score = 29.6 bits (67), Expect = 1.3
Identities = 16/45 (35%), Positives = 21/45 (46%), Gaps = 5/45 (11%)
Query: 220 CEICKKKFINKSTLKEHSVSHMSVKPFKCEICG--HYLSRASRLR 262
C+ C +KF K LK +P KC CG YL+ SR +
Sbjct: 3 CKNCNEKFSYKELLK---SLFSLYRPIKCPNCGTKQYLTAKSRKK 44
>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 = 27.3 bits (61), Expect = 1.5
Identities = 8/22 (36%), Positives = 10/22 (45%)
Query: 497 QCDVCFKEFRSSVTLRNHTRRH 518
+C C K F L+ H R H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 27.3 bits (61), Expect = 1.8
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 219 ECEICKKKFINKSTLKEHSVSH 240
+C C K F KS LK H +H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 25.4 bits (56), Expect = 6.9
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 247 KCEICGHYLSRASRLRAHLKAH 268
KC CG SR S L+ HL+ H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|227233 COG4896, COG4896, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 68
Score = 28.4 bits (63), Expect = 1.7
Identities = 16/68 (23%), Positives = 31/68 (45%), Gaps = 4/68 (5%)
Query: 216 REYECEICKKK-FINKSTLKEHSVSHMSVKPFKCEICGHYLSRASRLRA---HLKAHSVV 271
+C IC + I+ T K + + ++ + C C H ++ + R H VV
Sbjct: 1 MNVKCIICDRVDEIDNRTFKTKRLRNKPIRTYMCPECEHRVAIKTISRVNSGHFNFKPVV 60
Query: 272 ASNNKVQN 279
SN++++N
Sbjct: 61 MSNSELKN 68
>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 = 26.7 bits (60), Expect = 2.4
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 218 YECEICKKKFINKSTLKEH 236
+ CE+C F ++S LK H
Sbjct: 1 FYCELCNVTFTSESQLKSH 19
>gnl|CDD|215560 PLN03076, PLN03076, ARF guanine nucleotide exchange factor
(ARF-GEF); Provisional.
Length = 1780
Score = 30.9 bits (70), Expect = 2.7
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 225 KKFINKSTLKEHSVSHMSVKPFKCEICGHYLSRASRLRAHLKA 267
K+++ S LK + S M + C I ++S SR RA LKA
Sbjct: 406 KQYLCLSLLKNSASSLMIIFQLSCSI---FISLVSRFRAGLKA 445
>gnl|CDD|165133 PHA02768, PHA02768, hypothetical protein; Provisional.
Length = 55
Score = 27.3 bits (60), Expect = 3.0
Identities = 13/42 (30%), Positives = 24/42 (57%), Gaps = 3/42 (7%)
Query: 241 MSVKPFKCEICGHYLSRASRLRAHLKAHSVVASNNKVQNCKK 282
M++ ++C ICG + + HL+ H+ +N K+ NCK+
Sbjct: 1 MALLGYECPICGEIYIKRKSMITHLRKHN---TNLKLSNCKR 39
>gnl|CDD|216357 pfam01197, Ribosomal_L31, Ribosomal protein L31.
Length = 69
Score = 27.5 bits (62), Expect = 3.2
Identities = 12/45 (26%), Positives = 18/45 (40%), Gaps = 10/45 (22%)
Query: 207 IHMRYHENVREYECEICKKKFINKSTLKEHSVSHMSVKPFKCEIC 251
IH Y E V + C C F+ ST + + K ++C
Sbjct: 5 IHPEYREVV--FTCSSCGNVFVTGSTKEYPVI--------KIDVC 39
>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 = 26.4 bits (59), Expect = 3.3
Identities = 6/20 (30%), Positives = 12/20 (60%)
Query: 217 EYECEICKKKFINKSTLKEH 236
++ C C K F +++ L+ H
Sbjct: 1 QFYCVACDKYFKSENALENH 20
>gnl|CDD|191775 pfam07535, zf-DBF, DBF zinc finger. This domain is predicted to
bind metal ions and is often found associated with
pfam00533 and pfam02178.
Length = 49
Score = 26.9 bits (60), Expect = 4.2
Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 7/31 (22%)
Query: 542 REHGYKILACEKCDVKFTHKALLAEHINTKH 572
++ GY CE C VK+ L EHI ++
Sbjct: 3 KKPGY----CENCRVKYDD---LEEHIVSEK 26
>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 = 26.1 bits (58), Expect = 5.2
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 466 MKPYTCEICSKTYTVEGSLLTHY 488
+ C++C+ T+T E S+ H
Sbjct: 1 TGGFYCKLCNVTFTDEISVEAHL 23
>gnl|CDD|203088 pfam04780, DUF629, Protein of unknown function (DUF629). This
family represents a region of several plant proteins of
unknown function. A C2H2 zinc finger is predicted in
this region in some family members, but the spacing
between the cysteine residues is not conserved
throughout the family.
Length = 463
Score = 29.3 bits (66), Expect = 7.0
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 422 CSVCEKAFSSKENCKAHYTRQH-GNKEPKEPK 452
C C K FSS E CK H ++H +P
Sbjct: 60 CRTCSKKFSSSEECKNHLEQEHAAKFKPSSEM 91
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
0.322 0.134 0.422
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 29,016,813
Number of extensions: 2681594
Number of successful extensions: 2488
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2480
Number of HSP's successfully gapped: 82
Length of query: 597
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 495
Effective length of database: 6,413,494
Effective search space: 3174679530
Effective search space used: 3174679530
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: 62 (27.6 bits)