RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3500
(98 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 33.5 bits (77), Expect = 0.001
Identities = 14/26 (53%), Positives = 19/26 (73%)
Query: 33 DMKKHMRKHTGEKPYKCEYCAYSCTQ 58
++++HMR HTGEKPYKC C S +
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 28.9 bits (65), Expect = 0.063
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 61 ALKIHERKHTGDKPYICQQCRDTFSS 86
L+ H R HTG+KPY C C +FSS
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 27.0 bits (59), Expect = 1.5
Identities = 20/77 (25%), Positives = 25/77 (32%), Gaps = 21/77 (27%)
Query: 38 MRKHTGEKPYKCEY--CAYSCTQSSALKIH---------------ERKHTG----DKPYI 76
M K KPYKC C + LK H K DKPY
Sbjct: 341 MLKVKDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYR 400
Query: 77 CQQCRDTFSSLYLFRNH 93
C+ C + +L + H
Sbjct: 401 CEVCDKRYKNLNGLKYH 417
Score = 25.4 bits (55), Expect = 6.0
Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 24 CDYHTLMSEDMKKHMRKHTGEKPYKCEYCAYSCTQSSALKIHERKHTGD 72
+ + +K +KPY+CE C + LK H RKH+ D
Sbjct: 376 QNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYH-RKHSHD 423
>gnl|CDD|177730 PLN00116, PLN00116, translation elongation factor EF-2 subunit;
Provisional.
Length = 843
Score = 27.0 bits (60), Expect = 1.6
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 11 SRPNISYKYTCYACDYHTLMSEDMKKHMR 39
S P +S++ T T+MS+ KH R
Sbjct: 558 SDPVVSFRETVLEKSCRTVMSKSPNKHNR 586
>gnl|CDD|235828 PRK06556, PRK06556, vitamin B12-dependent ribonucleotide reductase;
Validated.
Length = 953
Score = 26.9 bits (60), Expect = 1.8
Identities = 9/21 (42%), Positives = 9/21 (42%), Gaps = 4/21 (19%)
Query: 4 CKTCSTLSRPNISYKYTCYAC 24
C TC T N S CY C
Sbjct: 927 CPTCGTKMVRNGS----CYVC 943
>gnl|CDD|224119 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 26.5 bits (59), Expect = 2.8
Identities = 7/43 (16%), Positives = 11/43 (25%), Gaps = 15/43 (34%)
Query: 38 MRKHTGEKPYKCEYCAYSCTQSSALKIHERKHTGDKPYICQQC 80
+ H +C YC + P C +C
Sbjct: 454 LTLHKATGQLRCHYC---------------GYQEPIPQSCPEC 481
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 24.3 bits (53), Expect = 2.9
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 47 YKCEYCAYSCTQSSALKIHERKH 69
Y+C C SAL+ H R H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
>gnl|CDD|215560 PLN03076, PLN03076, ARF guanine nucleotide exchange factor
(ARF-GEF); Provisional.
Length = 1780
Score = 26.3 bits (58), Expect = 3.2
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 25 DYHTLMSEDMKKHMRKHTGEKPYKCEYCAYSCTQSSALK 63
D + S+D+ KHM++ EK K E Y+ T L+
Sbjct: 835 DSYMETSDDLIKHMQEQFKEKARKSESVYYAATDVVILR 873
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 25.8 bits (56), Expect = 3.9
Identities = 20/79 (25%), Positives = 33/79 (41%), Gaps = 5/79 (6%)
Query: 8 STLSRPNISYKYTCYACDYHTL---MSEDMKKHMRKHTGEKPYKCEY--CAYSCTQSSAL 62
+ ++S +C T E + +H+R HTGEKP +C Y C S ++ L
Sbjct: 20 PKSTLKSLSNAPRPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLEL 79
Query: 63 KIHERKHTGDKPYICQQCR 81
H R H + + +
Sbjct: 80 SRHLRTHHNNPSDLNSKSL 98
>gnl|CDD|118742 pfam10218, DUF2054, Uncharacterized conserved protein (DUF2054).
This entry contains 14 conserved cysteines, three of
which are CC-dimers. The region is of approximately 200
residues in length but its function is unknown.
Length = 132
Score = 25.5 bits (56), Expect = 4.2
Identities = 17/75 (22%), Positives = 32/75 (42%), Gaps = 8/75 (10%)
Query: 2 YHCKTCSTLSRPNISYKYTCYACDYHTLMSEDMKKHMRKHTGEKPY-------KCEYCAY 54
+ C+TC+ S+ Y+Y C +C + +++ + K +P E+C
Sbjct: 50 FSCRTCNLSSQCCSVYEY-CVSCCLNPSKRPLLERVLAKAAVARPAVYATVTDHFEFCLA 108
Query: 55 SCTQSSALKIHERKH 69
C +S HE K+
Sbjct: 109 KCRTNSHSVQHENKY 123
>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 = 23.1 bits (50), Expect = 9.5
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 48 KCEYCAYSCTQSSALKIHERKH 69
KC C S ++ S LK H R H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|191151 pfam04988, AKAP95, A-kinase anchoring protein 95 (AKAP95).
A-kinase (or PKA)-anchoring protein AKAP95 is
implicated in mitotic chromosome condensation by acting
as a targeting molecule for the condensin complex. The
protein contains two zinc fingers which are thought to
mediate the binding of AKAP95 to DNA.
Length = 165
Score = 24.7 bits (54), Expect = 9.7
Identities = 6/21 (28%), Positives = 14/21 (66%)
Query: 19 YTCYACDYHTLMSEDMKKHMR 39
+TC C + T +++++H+R
Sbjct: 1 FTCSFCKFRTFYEKEIEQHLR 21
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 0.132 0.444
Gapped
Lambda K H
0.267 0.0633 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,348,301
Number of extensions: 305600
Number of successful extensions: 488
Number of sequences better than 10.0: 1
Number of HSP's gapped: 483
Number of HSP's successfully gapped: 50
Length of query: 98
Length of database: 10,937,602
Length adjustment: 64
Effective length of query: 34
Effective length of database: 8,098,946
Effective search space: 275364164
Effective search space used: 275364164
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 (21.6 bits)
S2: 53 (24.4 bits)