RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4573
(306 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 33.1 bits (76), Expect = 0.007
Identities = 13/26 (50%), Positives = 18/26 (69%)
Query: 220 ALTEHIRIHTGQRPYVCEICGKGFTQ 245
L H+R HTG++PY C +CGK F+
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 32.4 bits (74), Expect = 0.016
Identities = 15/26 (57%), Positives = 17/26 (65%)
Query: 192 HLRLHMRTHTNERPAVCSYCGKGFRR 217
+LR HMRTHT E+P C CGK F
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 30.1 bits (68), Expect = 0.088
Identities = 13/26 (50%), Positives = 15/26 (57%)
Query: 248 ALNTHKRGHTGEIPYHCEFCSERFST 273
L H R HTGE PY C C + FS+
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 26.2 bits (58), Expect = 2.1
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 59 LKIHMKSHTLSKRYACSICLAEFHT 83
L+ HM++HT K Y C +C F +
Sbjct: 2 LRRHMRTHTGEKPYKCPVCGKSFSS 26
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 37.4 bits (86), Expect = 0.007
Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 231 QRPYVCEICGKGFTQKQALNTHKRGHTGEIPYHCEF--CSERFSTKALVRHHVRSHHSS 287
RP C C F++ + L H R HTGE P C + C + FS + H+R+HH++
Sbjct: 31 PRPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNN 89
Score = 35.1 bits (80), Expect = 0.039
Identities = 25/84 (29%), Positives = 35/84 (41%), Gaps = 6/84 (7%)
Query: 180 CEVCHRKLSTKNHLRLHMRT--HTNE--RPAVC--SYCGKGFRRGDALTEHIRIHTGQRP 233
+ C+ S + L H+R+ H+ E +P C S CGK F R DAL HI +HT P
Sbjct: 292 SKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISP 351
Query: 234 YVCEICGKGFTQKQALNTHKRGHT 257
++ LN
Sbjct: 352 AKEKLLNSSSKFSPLLNNEPPQSL 375
Score = 35.1 bits (80), Expect = 0.047
Identities = 22/66 (33%), Positives = 29/66 (43%), Gaps = 2/66 (3%)
Query: 178 FECEVCHRKLSTKNHLRLHMRTHTNERPAVCSY--CGKGFRRGDALTEHIRIHTGQRPYV 235
C C S HL H+R+HT E+P+ CSY C K F R L+ H+R H +
Sbjct: 34 DSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNNPSDL 93
Query: 236 CEICGK 241
Sbjct: 94 NSKSLP 99
Score = 30.4 bits (68), Expect = 1.3
Identities = 22/107 (20%), Positives = 39/107 (36%), Gaps = 7/107 (6%)
Query: 170 NTTHLGIKFECEVCHRKLSTKNHLRLHMRTHTNER-PAVCSYCGKGFRRGDALTEHIR-- 226
+++ + + + + P C F R LT H+R
Sbjct: 253 SSSSASESPRSSLPTASSQSSSPNESDSSSEKGFSLPIKSKQCNISFSRSSPLTRHLRSV 312
Query: 227 IHTGQ--RPYVC--EICGKGFTQKQALNTHKRGHTGEIPYHCEFCSE 269
H+G+ +P+ C +CGK F++ AL H HT P + +
Sbjct: 313 NHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNS 359
Score = 29.7 bits (66), Expect = 2.4
Identities = 24/80 (30%), Positives = 30/80 (37%), Gaps = 4/80 (5%)
Query: 166 TYHKNTTHLGIKFECEV--CHRKLSTKNHLRLHMRTHTNERPAVC--SYCGKGFRRGDAL 221
K E C R ++L LH+ TH + RP C C K F R L
Sbjct: 375 LQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNL 434
Query: 222 TEHIRIHTGQRPYVCEICGK 241
H +IHT P +C I
Sbjct: 435 IPHKKIHTNHAPLLCSILKS 454
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 36.6 bits (84), Expect = 0.012
Identities = 17/77 (22%), Positives = 28/77 (36%), Gaps = 21/77 (27%)
Query: 230 GQRPYVCEI--CGKGFTQKQALNTHKR-GHTGEI------------------PYHCEFCS 268
+PY C + C K + + L H GH + PY CE C
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCD 405
Query: 269 ERFSTKALVRHHVRSHH 285
+R+ +++H + H
Sbjct: 406 KRYKNLNGLKYHRKHSH 422
>gnl|CDD|177301 PHA00733, PHA00733, hypothetical protein.
Length = 128
Score = 32.5 bits (74), Expect = 0.088
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 178 FECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFRRGDALTEHI 225
+ C +C S+ L+ H+R E VC CGK FR D+ +H+
Sbjct: 74 YVCPLCLMPFSSSVSLKQHIRY--TEHSKVCPVCGKEFRNTDSTLDHV 119
Score = 29.5 bits (66), Expect = 0.98
Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 2/48 (4%)
Query: 205 PAVCSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGKGFTQKQALNTH 252
P VC C F +L +HIR + VC +CGK F + H
Sbjct: 73 PYVCPLCLMPFSSSVSLKQHIRYTEHSK--VCPVCGKEFRNTDSTLDH 118
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 27.0 bits (60), Expect = 1.1
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 178 FECEVCHRKLSTKNHLRLHMRTH 200
+ C C + +K+ LR HMRTH
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 26.7 bits (59), Expect = 1.5
Identities = 12/23 (52%), Positives = 12/23 (52%)
Query: 234 YVCEICGKGFTQKQALNTHKRGH 256
Y C CGK F K AL H R H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 25.5 bits (56), Expect = 3.7
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 262 YHCEFCSERFSTKALVRHHVRSH 284
Y C C + F +K+ +R H+R+H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
Score = 25.1 bits (55), Expect = 4.9
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 207 VCSYCGKGFRRGDALTEHIRIH 228
C CGK F+ AL EH+R H
Sbjct: 2 RCPECGKVFKSKSALREHMRTH 23
Score = 25.1 bits (55), Expect = 5.4
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 46 CNVCSKRCGSKSGLKIHMKSH 66
C C K SKS L+ HM++H
Sbjct: 3 CPECGKVFKSKSALREHMRTH 23
Score = 24.7 bits (54), Expect = 8.2
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 100 YKCNQCDHVAKKLAYLQAHMKKH 122
Y+C +C V K + L+ HM+ H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
>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 = 26.5 bits (59), Expect = 1.7
Identities = 10/22 (45%), Positives = 11/22 (50%)
Query: 207 VCSYCGKGFRRGDALTEHIRIH 228
C CGK F R L H+R H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 25.8 bits (57), Expect = 2.6
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 235 VCEICGKGFTQKQALNTHKRGH 256
C CGK F++K L H R H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
Score = 25.8 bits (57), Expect = 3.1
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 179 ECEVCHRKLSTKNHLRLHMRTH 200
+C C + S K++L+ H+RTH
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
>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 = 26.4 bits (58), Expect = 2.1
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 262 YHCEFCSERFSTKALVRHHVRSHH 285
+ C C + FS+K ++ H+R HH
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKHH 24
Score = 24.5 bits (53), Expect = 8.3
Identities = 9/23 (39%), Positives = 16/23 (69%)
Query: 178 FECEVCHRKLSTKNHLRLHMRTH 200
F+C +C + S+K+ L+ H+R H
Sbjct: 1 FKCPLCGKSFSSKDALKRHLRKH 23
>gnl|CDD|224272 COG1353, COG1353, Predicted CRISPR-associated polymerase [Defense
mechanisms].
Length = 799
Score = 28.6 bits (64), Expect = 5.4
Identities = 9/48 (18%), Positives = 15/48 (31%), Gaps = 6/48 (12%)
Query: 176 IKFECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFRRGDALTE 223
+ C VC K + + + +C C + G L E
Sbjct: 394 GERTCSVCGNKRAKGDSEKEMRAET------LCDVCRVLYELGSILIE 435
>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 = 6.9
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 234 YVCEICGKGFTQKQALNTHKRGH 256
+ CE+C FT + L +H RG
Sbjct: 1 FYCELCNVTFTSESQLKSHLRGK 23
>gnl|CDD|224119 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 27.7 bits (62), Expect = 9.4
Identities = 10/30 (33%), Positives = 11/30 (36%), Gaps = 7/30 (23%)
Query: 156 FECESCKKIFTYHKNTTHLGIKFECEVCHR 185
EC +C T HK T L CH
Sbjct: 445 AECPNCDSPLTLHKATGQL-------RCHY 467
>gnl|CDD|165133 PHA02768, PHA02768, hypothetical protein; Provisional.
Length = 55
Score = 25.4 bits (55), Expect = 9.6
Identities = 9/23 (39%), Positives = 16/23 (69%)
Query: 234 YVCEICGKGFTQKQALNTHKRGH 256
Y C ICG+ + +++++ TH R H
Sbjct: 6 YECPICGEIYIKRKSMITHLRKH 28
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
0.323 0.134 0.431
Gapped
Lambda K H
0.267 0.0759 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,367,323
Number of extensions: 1253923
Number of successful extensions: 1745
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1730
Number of HSP's successfully gapped: 96
Length of query: 306
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 209
Effective length of database: 6,635,264
Effective search space: 1386770176
Effective search space used: 1386770176
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 59 (26.4 bits)