RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3507
(134 letters)
>gnl|CDD|222150 pfam13465, zf-H2C2_2, Zinc-finger double domain.
Length = 26
Score = 35.4 bits (82), Expect = 4e-04
Identities = 14/26 (53%), Positives = 19/26 (73%)
Query: 69 DMKKHMRKHTGEKPYKCEYCAYSCTQ 94
++++HMR HTGEKPYKC C S +
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
Score = 30.4 bits (69), Expect = 0.026
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 97 ALKIHERKHTGDKPYICQQCRDTFSS 122
L+ H R HTG+KPY C C +FSS
Sbjct: 1 NLRRHMRTHTGEKPYKCPVCGKSFSS 26
>gnl|CDD|177730 PLN00116, PLN00116, translation elongation factor EF-2 subunit;
Provisional.
Length = 843
Score = 28.9 bits (65), Expect = 0.81
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 46 VSHPNISYKYTCYACDYHTLMSEDMKKHMR 75
VS P +S++ T T+MS+ KH R
Sbjct: 557 VSDPVVSFRETVLEKSCRTVMSKSPNKHNR 586
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 28.5 bits (63), Expect = 1.00
Identities = 22/81 (27%), Positives = 27/81 (33%), Gaps = 25/81 (30%)
Query: 74 MRKHTGEKPYKCEY--CAYSCTQSSALKIH---------------ERKHTG----DKPYI 112
M K KPYKC C + LK H K DKPY
Sbjct: 341 MLKVKDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYR 400
Query: 113 CQQCRDTFSSLYLFRNRLQSH 133
C+ C + +L N L+ H
Sbjct: 401 CEVCDKRYKNL----NGLKYH 417
Score = 26.2 bits (57), Expect = 5.9
Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 60 CDYHTLMSEDMKKHMRKHTGEKPYKCEYCAYSCTQSSALKIHERKHTGD 108
+ + +K +KPY+CE C + LK H RKH+ D
Sbjct: 376 QNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYH-RKHSHD 423
>gnl|CDD|237798 PRK14714, PRK14714, DNA polymerase II large subunit; Provisional.
Length = 1337
Score = 28.5 bits (64), Expect = 1.3
Identities = 12/42 (28%), Positives = 15/42 (35%), Gaps = 5/42 (11%)
Query: 20 ATCIHCRLLLVPTAEELMYHCKTCSTVSHPNISYKYTCYACD 61
C C T E +Y C C P+ S + C CD
Sbjct: 680 NRCPDCG-----THTEPVYVCPDCGAEVPPDESGRVECPRCD 716
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 28.1 bits (62), Expect = 1.3
Identities = 20/79 (25%), Positives = 33/79 (41%), Gaps = 5/79 (6%)
Query: 44 STVSHPNISYKYTCYACDYHTL---MSEDMKKHMRKHTGEKPYKCEY--CAYSCTQSSAL 98
+ ++S +C T E + +H+R HTGEKP +C Y C S ++ L
Sbjct: 20 PKSTLKSLSNAPRPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLEL 79
Query: 99 KIHERKHTGDKPYICQQCR 117
H R H + + +
Sbjct: 80 SRHLRTHHNNPSDLNSKSL 98
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 25.5 bits (56), Expect = 1.7
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 83 YKCEYCAYSCTQSSALKIHERKH 105
Y+C C SAL+ H R H
Sbjct: 1 YRCPECGKVFKSKSALREHMRTH 23
>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 = 26.3 bits (58), Expect = 3.4
Identities = 17/75 (22%), Positives = 31/75 (41%), Gaps = 8/75 (10%)
Query: 38 YHCKTCSTVSHPNISYKYTCYACDYHTLMSEDMKKHMRKHTGEKPY-------KCEYCAY 90
+ C+TC+ S Y+Y C +C + +++ + K +P E+C
Sbjct: 50 FSCRTCNLSSQCCSVYEY-CVSCCLNPSKRPLLERVLAKAAVARPAVYATVTDHFEFCLA 108
Query: 91 SCTQSSALKIHERKH 105
C +S HE K+
Sbjct: 109 KCRTNSHSVQHENKY 123
>gnl|CDD|237128 PRK12530, PRK12530, RNA polymerase sigma factor; Provisional.
Length = 189
Score = 26.3 bits (58), Expect = 5.2
Identities = 11/22 (50%), Positives = 16/22 (72%), Gaps = 2/22 (9%)
Query: 112 ICQQCRDTFSSLY--LFRNRLQ 131
ICQ+C + S+L+ L+R RLQ
Sbjct: 156 ICQECDISTSNLHVLLYRARLQ 177
>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 = 23.8 bits (52), Expect = 5.7
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 84 KCEYCAYSCTQSSALKIHERKH 105
KC C S ++ S LK H R H
Sbjct: 1 KCPDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|185600 PTZ00410, PTZ00410, NAD-dependent SIR2; Provisional.
Length = 349
Score = 26.0 bits (57), Expect = 7.1
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 12/46 (26%)
Query: 17 FTLATCIHCRLLLVPTAEELMY---------HCKTCSTVSHPNISY 53
F+ A+CI C P E Y HC TC + P++ +
Sbjct: 145 FSAASCIECH---TPYDIEQAYLEARSGKVPHCSTCGGIVKPDVVF 187
>gnl|CDD|215560 PLN03076, PLN03076, ARF guanine nucleotide exchange factor
(ARF-GEF); Provisional.
Length = 1780
Score = 26.3 bits (58), Expect = 7.3
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 61 DYHTLMSEDMKKHMRKHTGEKPYKCEYCAYSCTQSSALK 99
D + S+D+ KHM++ EK K E Y+ T L+
Sbjct: 835 DSYMETSDDLIKHMQEQFKEKARKSESVYYAATDVVILR 873
>gnl|CDD|224119 COG1198, PriA, Primosomal protein N' (replication factor Y) -
superfamily II helicase [DNA replication, recombination,
and repair].
Length = 730
Score = 26.1 bits (58), Expect = 7.6
Identities = 7/43 (16%), Positives = 11/43 (25%), Gaps = 15/43 (34%)
Query: 74 MRKHTGEKPYKCEYCAYSCTQSSALKIHERKHTGDKPYICQQC 116
+ H +C YC + P C +C
Sbjct: 454 LTLHKATGQLRCHYC---------------GYQEPIPQSCPEC 481
>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 = 25.4 bits (56), Expect = 9.7
Identities = 6/21 (28%), Positives = 14/21 (66%)
Query: 55 YTCYACDYHTLMSEDMKKHMR 75
+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
0.325 0.134 0.446
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: 6,142,373
Number of extensions: 472043
Number of successful extensions: 647
Number of sequences better than 10.0: 1
Number of HSP's gapped: 642
Number of HSP's successfully gapped: 51
Length of query: 134
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 48
Effective length of database: 7,123,158
Effective search space: 341911584
Effective search space used: 341911584
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (24.8 bits)