RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8466
(431 letters)
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 45.1 bits (106), Expect = 5e-05
Identities = 42/208 (20%), Positives = 59/208 (28%), Gaps = 23/208 (11%)
Query: 152 RRSINYKCQEKHMKLHQGVRYKCDLCSKKFSTKSYLTAHM--KLHQGLKNK-----CDLC 204
S N + K C+ FS S LT H+ H G K LC
Sbjct: 272 SSSPNESDSSSE--KGFSLPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLC 329
Query: 205 SKEFSSKSYLTEHMKLHQGIKNKCDLCSKEFSTKSYLTEHMKLHQGIKNKCDLCSKEFST 264
K FS L H+ LH I K L + N +
Sbjct: 330 GKLFSRNDALKRHILLHTSISPA----------KEKLLNSSSKFSPLLNNEPP---QSLQ 376
Query: 265 KSYLTEHMKLHQGIKNKCDLCSKEFSTKSYLTEHMKLHQGLKNKCDLCSKEFSRKSYLTE 324
+ ++ K + + N C K S S + K CSK F+R L
Sbjct: 377 QYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIP 436
Query: 325 HMKLHQGIKNKCDLCSKEFSHKSNLTKH 352
H K+H + + +
Sbjct: 437 HKKIHT-NHAPLLCSILKSFRRDLDLSN 463
Score = 31.6 bits (71), Expect = 0.91
Identities = 42/157 (26%), Positives = 58/157 (36%), Gaps = 21/157 (13%)
Query: 276 QGIKNKCDLCSKEFSTKSYLTEHM--KLHQGLKNK-----CDLCSKEFSRKSYLTEHMKL 328
+ K C+ FS S LT H+ H G K LC K FSR L H+ L
Sbjct: 286 FSLPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILL 345
Query: 329 HQGIKNKC---DLCSKEFSHKSN------LTKHMNLHQGIRYKCDL--CSKEFSWKGHLT 377
H I S +FS N L ++ +L + + C + F +L+
Sbjct: 346 HTSISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLS 405
Query: 378 EHRKLH---QDIKNKCDLCSKEFSSKRILTEHMKLHQ 411
H H + K CSK F+ L H K+H
Sbjct: 406 LHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHT 442
>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 = 30.4 bits (69), Expect = 0.11
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 335 KCDLCSKEFSHKSNLTKHMNLH 356
KC C K FS KSNL +H+ H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 29.2 bits (66), Expect = 0.27
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 173 KCDLCSKKFSTKSYLTAHMKLH 194
KC C K FS KS L H++ H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 28.9 bits (65), Expect = 0.36
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 308 KCDLCSKEFSRKSYLTEHMKLH 329
KC C K FSRKS L H++ H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 28.1 bits (63), Expect = 0.55
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 227 KCDLCSKEFSTKSYLTEHMKLH 248
KC C K FS KS L H++ H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 28.1 bits (63), Expect = 0.55
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 254 KCDLCSKEFSTKSYLTEHMKLH 275
KC C K FS KS L H++ H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 28.1 bits (63), Expect = 0.55
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 281 KCDLCSKEFSTKSYLTEHMKLH 302
KC C K FS KS L H++ H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 28.1 bits (63), Expect = 0.66
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 200 KCDLCSKEFSSKSYLTEHMKLH 221
KC C K FS KS L H++ H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 25.4 bits (56), Expect = 6.1
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 362 KCDLCSKEFSWKGHLTEHRKLH 383
KC C K FS K +L H + H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 29.7 bits (67), Expect = 0.17
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 172 YKCDLCSKKFSTKSYLTAHMKLH 194
Y+C C K F +KS L HM+ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 28.6 bits (64), Expect = 0.38
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 200 KCDLCSKEFSSKSYLTEHMKLH 221
+C C K F SKS L EHM+ H
Sbjct: 2 RCPECGKVFKSKSALREHMRTH 23
Score = 28.6 bits (64), Expect = 0.42
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 227 KCDLCSKEFSTKSYLTEHMKLH 248
+C C K F +KS L EHM+ H
Sbjct: 2 RCPECGKVFKSKSALREHMRTH 23
Score = 28.6 bits (64), Expect = 0.42
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 254 KCDLCSKEFSTKSYLTEHMKLH 275
+C C K F +KS L EHM+ H
Sbjct: 2 RCPECGKVFKSKSALREHMRTH 23
Score = 28.6 bits (64), Expect = 0.42
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 281 KCDLCSKEFSTKSYLTEHMKLH 302
+C C K F +KS L EHM+ H
Sbjct: 2 RCPECGKVFKSKSALREHMRTH 23
Score = 28.2 bits (63), Expect = 0.65
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 308 KCDLCSKEFSRKSYLTEHMKLH 329
+C C K F KS L EHM+ H
Sbjct: 2 RCPECGKVFKSKSALREHMRTH 23
Score = 27.8 bits (62), Expect = 0.92
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 361 YKCDLCSKEFSWKGHLTEHRKLH 383
Y+C C K F K L EH + H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 27.4 bits (61), Expect = 0.99
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 335 KCDLCSKEFSHKSNLTKHMNLH 356
+C C K F KS L +HM H
Sbjct: 2 RCPECGKVFKSKSALREHMRTH 23
Score = 26.7 bits (59), Expect = 1.9
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 389 KCDLCSKEFSSKRILTEHMKLH 410
+C C K F SK L EHM+ H
Sbjct: 2 RCPECGKVFKSKSALREHMRTH 23
>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 = 27.2 bits (60), Expect = 1.2
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 172 YKCDLCSKKFSTKSYLTAHMKLH 194
+KC LC K FS+K L H++ H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
Score = 25.7 bits (56), Expect = 5.3
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 200 KCDLCSKEFSSKSYLTEHMKLH 221
KC LC K FSSK L H++ H
Sbjct: 2 KCPLCGKSFSSKDALKRHLRKH 23
Score = 25.3 bits (55), Expect = 5.6
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 227 KCDLCSKEFSTKSYLTEHMKLH 248
KC LC K FS+K L H++ H
Sbjct: 2 KCPLCGKSFSSKDALKRHLRKH 23
Score = 25.3 bits (55), Expect = 5.6
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 254 KCDLCSKEFSTKSYLTEHMKLH 275
KC LC K FS+K L H++ H
Sbjct: 2 KCPLCGKSFSSKDALKRHLRKH 23
Score = 25.3 bits (55), Expect = 5.6
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 281 KCDLCSKEFSTKSYLTEHMKLH 302
KC LC K FS+K L H++ H
Sbjct: 2 KCPLCGKSFSSKDALKRHLRKH 23
Score = 24.9 bits (54), Expect = 7.8
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 308 KCDLCSKEFSRKSYLTEHMKLH 329
KC LC K FS K L H++ H
Sbjct: 2 KCPLCGKSFSSKDALKRHLRKH 23
>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 = 28.4 bits (64), Expect = 2.8
Identities = 25/99 (25%), Positives = 33/99 (33%), Gaps = 19/99 (19%)
Query: 336 CDLCSKEFSHKSNLTKHMNLHQG-----IRYKCDLCSKEFSWKGHLTE--HRKLHQDIKN 388
C C+ +HM G Y DL L K+H N
Sbjct: 2 CLFCNHTSDTVEENLEHMFKSHGFFIPEREYLVDL--------EGLLNYLREKIH--EGN 51
Query: 389 KCDLCSKEFSSKRILTEHM--KLHQGITYKCGLCSKEFS 425
+C C K+F S L +HM K H I Y+ E +
Sbjct: 52 ECLYCGKQFKSLEALRQHMRDKGHCKIPYETEEEKDEIA 90
Score = 27.2 bits (61), Expect = 6.8
Identities = 17/74 (22%), Positives = 28/74 (37%), Gaps = 5/74 (6%)
Query: 228 CDLCSKEFSTKSYLTEHMKLHQGIKNKCDLCSKE-FSTKSYLTEHMKLHQGIKNKCDLCS 286
C C+ T EHM G + +E L +++ N+C C
Sbjct: 2 CLFCNHTSDTVEENLEHMFKSHGF----FIPEREYLVDLEGLLNYLREKIHEGNECLYCG 57
Query: 287 KEFSTKSYLTEHMK 300
K+F + L +HM+
Sbjct: 58 KQFKSLEALRQHMR 71
Score = 26.8 bits (60), Expect = 8.3
Identities = 16/74 (21%), Positives = 28/74 (37%), Gaps = 5/74 (6%)
Query: 201 CDLCSKEFSSKSYLTEHMKLHQGIKNKCDLCSKE-FSTKSYLTEHMKLHQGIKNKCDLCS 259
C C+ + EHM G + +E L +++ N+C C
Sbjct: 2 CLFCNHTSDTVEENLEHMFKSHGF----FIPEREYLVDLEGLLNYLREKIHEGNECLYCG 57
Query: 260 KEFSTKSYLTEHMK 273
K+F + L +HM+
Sbjct: 58 KQFKSLEALRQHMR 71
>gnl|CDD|216971 pfam02317, Octopine_DH, NAD/NADP octopine/nopaline dehydrogenase,
alpha-helical domain. This group of enzymes act on the
CH-NH substrate bond using NAD(+) or NADP(+) as an
acceptor. The Pfam family consists mainly of octopine
and nopaline dehydrogenases from Ti plasmids.
Length = 152
Score = 29.1 bits (66), Expect = 2.8
Identities = 19/80 (23%), Positives = 32/80 (40%), Gaps = 16/80 (20%)
Query: 28 KVDNETVEVSKEC-KDPKKVANIFNLHYIKVGSSLSENGTHRTAVMELNVEESEDHVGL- 85
+D E + V+ + ++ NL Y GS+L E + + + GL
Sbjct: 55 ALDAERLAVAAALGLRLVTLLDVLNLWYGVDGSNLYE-------AI----RTNAAYNGLP 103
Query: 86 SPPLYDPSRVIKHEPLDIPY 105
+PP R I E D+P+
Sbjct: 104 APPKSLDHRYI-TE--DVPF 120
>gnl|CDD|206083 pfam13912, zf-C2H2_6, C2H2-type zinc finger.
Length = 27
Score = 25.6 bits (57), Expect = 4.2
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 389 KCDLCSKEFSSKRILTEHMKLH 410
C +C K FSS + L H K H
Sbjct: 3 TCGVCGKTFSSLQALGGHKKSH 24
Score = 25.3 bits (56), Expect = 5.8
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 172 YKCDLCSKKFSTKSYLTAHMKLH 194
+ C +C K FS+ L H K H
Sbjct: 2 HTCGVCGKTFSSLQALGGHKKSH 24
Score = 24.9 bits (55), Expect = 8.7
Identities = 10/22 (45%), Positives = 11/22 (50%)
Query: 200 KCDLCSKEFSSKSYLTEHMKLH 221
C +C K FSS L H K H
Sbjct: 3 TCGVCGKTFSSLQALGGHKKSH 24
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 25.8 bits (57), Expect = 4.2
Identities = 11/24 (45%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 161 EKHMKLHQGVR-YKCDLCSKKFST 183
+HM+ H G + YKC +C K FS+
Sbjct: 3 RRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 25.0 bits (55), Expect = 8.1
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 348 NLTKHMNLHQGIR-YKCDLCSKEFS 371
NL +HM H G + YKC +C K FS
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFS 25
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 27.9 bits (62), Expect = 4.8
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 201 CDLCSKEFSSKSYLTEHMKLHQGIKNKCDLCSKEFSTKSYLTEHM 245
C LC FSS L +H++ + K C +C KEF +H+
Sbjct: 76 CPLCLMPFSSSVSLKQHIRYTEHSK-VCPVCGKEFRNTDSTLDHV 119
Score = 27.5 bits (61), Expect = 7.8
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 172 YKCDLCSKKFSTKSYLTAHMKLHQGLKNKCDLCSKEFSSKSYLTEHM 218
Y C LC FS+ L H++ + K C +C KEF + +H+
Sbjct: 74 YVCPLCLMPFSSSVSLKQHIRYTEHSK-VCPVCGKEFRNTDSTLDHV 119
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 28.8 bits (64), Expect = 6.9
Identities = 23/103 (22%), Positives = 31/103 (30%), Gaps = 17/103 (16%)
Query: 278 IKNKC--DLCSKEFSTKSYLTEHMKLHQGLKNKCDLCSK---------EFSRKSYLTEHM 326
+ KC C + + L +H K G C C R S L +H
Sbjct: 150 LSFKCPKSKCHRRCGSLKELKKHYKAQHG-FVLCSECIGNKKDFWNEIRLFRSSTLRDHK 208
Query: 327 KL---HQGIKN--KCDLCSKEFSHKSNLTKHMNLHQGIRYKCD 364
+G K C C F L +H L + CD
Sbjct: 209 NGGLEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRHEACHICD 251
>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 = 24.8 bits (55), Expect = 9.2
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 171 RYKCDLCSKKFSTKSYLTAHMK 192
++ C C K F +++ L H+K
Sbjct: 1 QFYCVACDKYFKSENALENHLK 22
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
0.317 0.131 0.400
Gapped
Lambda K H
0.267 0.0672 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,878,478
Number of extensions: 1794440
Number of successful extensions: 1825
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1772
Number of HSP's successfully gapped: 112
Length of query: 431
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 331
Effective length of database: 6,502,202
Effective search space: 2152228862
Effective search space used: 2152228862
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (27.0 bits)