RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12560
(440 letters)
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 47.4 bits (112), Expect = 9e-06
Identities = 39/206 (18%), Positives = 71/206 (34%), Gaps = 17/206 (8%)
Query: 98 HIHCTSLKAKLSCDICDKTFVNKSHLDYHKLSHQD-LNPYECSNCHKGFKNKGKLNRHMK 156
+S + + + S + S + P + C+ F L RH++
Sbjct: 251 SDSSSSASESPRSSLPTASSQSSSPNESDSSSEKGFSLPIKSKQCNISFSRSSPLTRHLR 310
Query: 157 IHSDSKE---QWFCKV--CNKALMSVESLKKHMKIHAGLKNYHCDIC-------EKSFIE 204
+ S E + C C K ++LK+H+ +H + + E
Sbjct: 311 SVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLNNE 370
Query: 205 KNDLIKHQVTHSDKKIFVCE--NCGKSFKRKYDLALHIRTH--FPLKRFQCKLCDKIFFT 260
++ + K +C ++FKR +L+LHI TH F + C K F
Sbjct: 371 PPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNR 430
Query: 261 LHNMRRHMRIHKDRPLFECHDCHKSF 286
+N+ H +IH + C
Sbjct: 431 HYNLIPHKKIHTNHAPLLCSILKSFR 456
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 35.1 bits (81), Expect = 0.002
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 179 SLKKHMKIHAGLKNYHCDICEKSF 202
+L++HM+ H G K Y C +C KSF
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSF 24
Score = 31.6 bits (72), Expect = 0.040
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 263 NMRRHMRIHKDRPLFECHDCHKSFTR 288
N+RRHMR H ++C C KSF+
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 30.1 bits (68), Expect = 0.13
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 207 DLIKHQVTHSDKKIFVCENCGKSFKR 232
+L +H TH+ +K + C CGKSF
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 28.9 bits (65), Expect = 0.39
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 235 DLALHIRTHFPLKRFQCKLCDKIF 258
+L H+RTH K ++C +C K F
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSF 24
Score = 28.1 bits (63), Expect = 0.74
Identities = 9/26 (34%), Positives = 13/26 (50%)
Query: 122 HLDYHKLSHQDLNPYECSNCHKGFKN 147
+L H +H PY+C C K F +
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
>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 = 32.3 bits (74), Expect = 0.018
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 222 VCENCGKSFKRKYDLALHIRTH 243
C +CGKSF RK +L H+RTH
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 30.8 bits (70), Expect = 0.066
Identities = 12/21 (57%), Positives = 18/21 (85%)
Query: 278 ECHDCHKSFTRKDNLERHVKS 298
+C DC KSF+RK NL+RH+++
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRT 21
Score = 30.0 bits (68), Expect = 0.14
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 137 ECSNCHKGFKNKGKLNRHMKIH 158
+C +C K F K L RH++ H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 29.6 bits (67), Expect = 0.21
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 250 QCKLCDKIFFTLHNMRRHMRIH 271
+C C K F N++RH+R H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 28.1 bits (63), Expect = 0.58
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 109 SCDICDKTFVNKSHLDYHKLSH 130
C C K+F KS+L H +H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 26.5 bits (59), Expect = 2.5
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 195 CDICEKSFIEKNDLIKHQVTH 215
C C KSF K++L +H TH
Sbjct: 2 CPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 32.1 bits (73), Expect = 0.029
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 136 YECSNCHKGFKNKGKLNRHMKIH 158
Y C C K FK+K L HM+ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 30.9 bits (70), Expect = 0.071
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 221 FVCENCGKSFKRKYDLALHIRTH 243
+ C CGK FK K L H+RTH
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 30.5 bits (69), Expect = 0.090
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 249 FQCKLCDKIFFTLHNMRRHMRIH 271
++C C K+F + +R HMR H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 28.2 bits (63), Expect = 0.63
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 193 YHCDICEKSFIEKNDLIKHQVTH 215
Y C C K F K+ L +H TH
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 27.0 bits (60), Expect = 1.3
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 165 WFCKVCNKALMSVESLKKHMKIH 187
+ C C K S +L++HM+ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 27.0 bits (60), Expect = 1.4
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 108 LSCDICDKTFVNKSHLDYHKLSH 130
C C K F +KS L H +H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 27.0 bits (60), Expect = 1.4
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 277 FECHDCHKSFTRKDNLERHVKS 298
+ C +C K F K L H+++
Sbjct: 1 YRCPECGKVFKSKSALREHMRT 22
>gnl|CDD|178635 PLN03086, PLN03086, PRLI-interacting factor K; Provisional.
Length = 567
Score = 35.2 bits (81), Expect = 0.068
Identities = 25/116 (21%), Positives = 46/116 (39%), Gaps = 22/116 (18%)
Query: 129 SHQDLNPYECSNCHKGFKNKGKL------NRHMKIHS-----------DSKEQWFCKVCN 171
S D++ EC NC ++ +RH + ++K C+ C
Sbjct: 401 SSMDVDTVECRNCKHYIPSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCG 460
Query: 172 KALMSVESLKKHMKIHAGLKNYHCDICEKSFIEKNDLIKHQVTHSDKKIFVCENCG 227
+A E ++KHMK+ C + +EK +++HQ + ++ C CG
Sbjct: 461 QAFQQGE-MEKHMKVFHEPLQCPCGVV----LEKEQMVQHQASTCPLRLITCRFCG 511
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 33.5 bits (76), Expect = 0.18
Identities = 20/75 (26%), Positives = 28/75 (37%), Gaps = 10/75 (13%)
Query: 170 CNKALMSVESLKKHMKIHAGLKNYHCDICEKSFIEKNDLIKHQVTHSDKKIFVCENCGKS 229
CNK + LK HM + H + + E K + + K + CE C K
Sbjct: 357 CNKKYKNQNGLKYHML------HGHQN---QKLHENPSPEKMNIFSAKDKPYRCEVCDKR 407
Query: 230 FKRKYDLALHIRTHF 244
+K L H R H
Sbjct: 408 YKNLNGLKYH-RKHS 421
Score = 31.6 bits (71), Expect = 0.94
Identities = 21/76 (27%), Positives = 31/76 (40%), Gaps = 16/76 (21%)
Query: 113 CDKTFVNKSHLDYHKL---SHQDLNPYECSNCHKGFKNKGKLNRHMKIHSDSKEQWFCKV 169
C+K + N++ L YH L +Q L+ F K K R C+V
Sbjct: 357 CNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYR-------------CEV 403
Query: 170 CNKALMSVESLKKHMK 185
C+K ++ LK H K
Sbjct: 404 CDKRYKNLNGLKYHRK 419
>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 = 29.1 bits (65), Expect = 0.25
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 249 FQCKLCDKIFFTLHNMRRHMRIHK 272
F+C LC K F + ++RH+R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKHH 24
Score = 28.4 bits (63), Expect = 0.62
Identities = 12/23 (52%), Positives = 13/23 (56%)
Query: 221 FVCENCGKSFKRKYDLALHIRTH 243
F C CGKSF K L H+R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
Score = 28.0 bits (62), Expect = 0.64
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 277 FECHDCHKSFTRKDNLERHVKSIH 300
F+C C KSF+ KD L+RH++ H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKHH 24
Score = 27.6 bits (61), Expect = 1.1
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 136 YECSNCHKGFKNKGKLNRHMKIH 158
++C C K F +K L RH++ H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
Score = 25.7 bits (56), Expect = 5.3
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 110 CDICDKTFVNKSHLDYHKLSH 130
C +C K+F +K L H H
Sbjct: 3 CPLCGKSFSSKDALKRHLRKH 23
Score = 24.9 bits (54), Expect = 8.3
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 193 YHCDICEKSFIEKNDLIKHQVTH 215
+ C +C KSF K+ L +H H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
>gnl|CDD|227561 COG5236, COG5236, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 493
Score = 30.8 bits (69), Expect = 1.4
Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 11/57 (19%)
Query: 251 CKLCDKIFFTLHNMRRHMRIHKDRPLFECHDC-------HKSFTRKDNLERHVKSIH 300
C C F+ +RRH R+ + CH C ++ F ++LE H ++ H
Sbjct: 223 CIFCKIYFYDDDELRRHCRLRHEA----CHICDMVGPIRYQYFKSYEDLEAHFRNAH 275
>gnl|CDD|132173 TIGR03129, one_C_dehyd_B, formylmethanofuran dehydrogenase subunit
B. Members of this largely archaeal protein family are
subunit B of the formylmethanofuran dehydrogenase.
Nomenclature in some bacteria may reflect inclusion of
the formyltransferase described by TIGR03119 as part of
the complex, and therefore call this protein
formyltransferase/hydrolase complex Fhc subunit C. Note
that this model does not distinguish tungsten (FwdB)
from molybdenum-containing (FmdB) forms of this enzyme.
Length = 421
Score = 30.7 bits (70), Expect = 1.4
Identities = 24/84 (28%), Positives = 38/84 (45%), Gaps = 19/84 (22%)
Query: 286 FTRKDNLERHVKSIHLEDP--SENTNTINGHLAIEPKEDR---------INGIEPRESKI 334
FT++ +R V + DP ++ + HL I+P D + G EP+ ++
Sbjct: 167 FTQRGREDRTVIVV---DPRKTDTAKLADYHLQIKPGSDYELISALRAVLRGKEPQPEEV 223
Query: 335 IGILAIEPKESIDEIVANELKQSS 358
GI PKE I E+ A LK +
Sbjct: 224 AGI----PKEKILEL-AEILKNAK 242
>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 = 29.2 bits (66), Expect = 1.5
Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 4/32 (12%)
Query: 154 HMKIHSDSKEQWFCKVCNKALMSVESLKKHMK 185
KIH E C C K S+E+L++HM+
Sbjct: 44 REKIH----EGNECLYCGKQFKSLEALRQHMR 71
>gnl|CDD|215056 PLN00104, PLN00104, MYST -like histone acetyltransferase;
Provisional.
Length = 450
Score = 30.1 bits (68), Expect = 2.8
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 218 KKIFVCENCGKSFKRKYDLALHIRT 242
K++ CE C K KRK L H++
Sbjct: 196 SKLYFCEFCLKFMKRKEQLQRHMKK 220
>gnl|CDD|235240 PRK04173, PRK04173, glycyl-tRNA synthetase; Provisional.
Length = 456
Score = 28.9 bits (66), Expect = 5.7
Identities = 12/41 (29%), Positives = 15/41 (36%), Gaps = 2/41 (4%)
Query: 275 PLFECHDCHKSFTRKDNL-ERHVKSIHLEDPSENTNTINGH 314
PL EC C K + R D+L E E I +
Sbjct: 85 PLVECKKCKKRY-RADHLIEELGIDAEGLSNEELKELIREN 124
>gnl|CDD|226202 COG3677, COG3677, Transposase and inactivated derivatives [DNA
replication, recombination, and repair].
Length = 129
Score = 27.8 bits (62), Expect = 5.7
Identities = 12/57 (21%), Positives = 19/57 (33%), Gaps = 7/57 (12%)
Query: 235 DLALHIRTHFPLKRFQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKSFTRKDN 291
D A IR C C N+ + I + ++C C +FT +
Sbjct: 19 DAAYAIRMQITKVN--CPRC-----KSSNVVKIGGIRRGHQRYKCKSCGSTFTVETG 68
>gnl|CDD|224934 COG2023, RPR2, RNase P subunit RPR2 [Translation, ribosomal
structure and biogenesis].
Length = 105
Score = 27.3 bits (61), Expect = 5.8
Identities = 18/58 (31%), Positives = 23/58 (39%), Gaps = 8/58 (13%)
Query: 231 KRKYDLALHI----RTHFP--LKRFQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDC 282
+R LA I R P +KR CK C N R R+ K R + C +C
Sbjct: 33 RRYVKLARRISMKYRVRLPREIKRTICKKCYTPLVPGKNARV--RLRKGRVVVTCLEC 88
>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 = 5.9
Identities = 7/21 (33%), Positives = 13/21 (61%)
Query: 165 WFCKVCNKALMSVESLKKHMK 185
++C++CN S LK H++
Sbjct: 1 FYCELCNVTFTSESQLKSHLR 21
Score = 25.2 bits (56), Expect = 7.2
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 108 LSCDICDKTFVNKSHLDYHKLSHQ 131
C++C+ TF ++S L H +
Sbjct: 1 FYCELCNVTFTSESQLKSHLRGKK 24
>gnl|CDD|179595 PRK03564, PRK03564, formate dehydrogenase accessory protein FdhE;
Provisional.
Length = 309
Score = 28.5 bits (64), Expect = 7.7
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 3/34 (8%)
Query: 166 FCKVCNKALMSVESLKKHMKIHAGLKNYHCDICE 199
FC VC M V S+ + GL+ HC++CE
Sbjct: 189 FCPVCGS--MPVSSVV-QIGTTQGLRYLHCNLCE 219
>gnl|CDD|234747 PRK00398, rpoP, DNA-directed RNA polymerase subunit P;
Provisional.
Length = 46
Score = 25.6 bits (57), Expect = 8.4
Identities = 5/16 (31%), Positives = 9/16 (56%)
Query: 78 VMYKCLKCKRQFKVKY 93
YKC +C R+ ++
Sbjct: 2 AEYKCARCGREVELDE 17
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
0.321 0.135 0.426
Gapped
Lambda K H
0.267 0.0704 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,944,022
Number of extensions: 1942965
Number of successful extensions: 2058
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2023
Number of HSP's successfully gapped: 120
Length of query: 440
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 340
Effective length of database: 6,502,202
Effective search space: 2210748680
Effective search space used: 2210748680
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: 60 (26.9 bits)