RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12030
(245 letters)
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 37.8 bits (87), Expect = 0.004
Identities = 25/77 (32%), Positives = 34/77 (44%), Gaps = 7/77 (9%)
Query: 68 KGFECQV--CGKRYKYKRGLHRHKQDECGQEPKYQCPQCKDSFFSWSAFHKNLSGMFACD 125
K ++C V C K+YK + GL H Q K + +SA K + C+
Sbjct: 348 KPYKCPVEGCNKKYKNQNGLKYHML-HGHQNQKLHENPSPEKMNIFSAKDKP----YRCE 402
Query: 126 VCGKEYKYKRGLYRHKK 142
VC K YK GL H+K
Sbjct: 403 VCDKRYKNLNGLKYHRK 419
Score = 29.7 bits (66), Expect = 1.3
Identities = 19/70 (27%), Positives = 25/70 (35%), Gaps = 22/70 (31%)
Query: 122 FACDV--CGKEYKYKRGLYRHKK-------------------FECGQEPKYQCPHCPHRA 160
+ C V C K+YK + GL H F +P Y+C C R
Sbjct: 350 YKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKP-YRCEVCDKRY 408
Query: 161 KHKANLKTHI 170
K+ LK H
Sbjct: 409 KNLNGLKYHR 418
Score = 27.8 bits (61), Expect = 6.0
Identities = 19/75 (25%), Positives = 26/75 (34%), Gaps = 22/75 (29%)
Query: 176 VFACNV--CGKGYRYKTGLYRHKRE-ECGQEPK-----------------YQCPHCPHKA 215
+ C V C K Y+ + GL H Q+ Y+C C +
Sbjct: 349 PYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRY 408
Query: 216 KHKANLKTHIAIKHS 230
K+ LK H KHS
Sbjct: 409 KNLNGLKYH--RKHS 421
>gnl|CDD|235202 PRK04023, PRK04023, DNA polymerase II large subunit; Validated.
Length = 1121
Score = 31.4 bits (72), Expect = 0.47
Identities = 18/54 (33%), Positives = 23/54 (42%), Gaps = 8/54 (14%)
Query: 164 ANLKTHIAPQLGVFACNVCGKGYRYKTGLYRHKREECGQ--EPKYQCPHCPHKA 215
A K I ++G C CGK YR + CG EP Y+CP C +
Sbjct: 614 AKYKGTIEVEIGRRKCPSCGK-----ETFYR-RCPFCGTHTEPVYRCPRCGIEV 661
Score = 29.9 bits (68), Expect = 1.6
Identities = 13/59 (22%), Positives = 15/59 (25%), Gaps = 27/59 (45%)
Query: 99 YQCPQCKDSFFSWSAFHKNLSGMFACDVCGKEYKYKRGLYRHKKFECGQEPKYQCPHCP 157
+CP C F C CG EP Y+CP C
Sbjct: 627 RKCPSCGKETF-----------YRRCPFCGTH----------------TEPVYRCPRCG 658
Score = 28.3 bits (64), Expect = 5.1
Identities = 18/62 (29%), Positives = 24/62 (38%), Gaps = 19/62 (30%)
Query: 71 ECQVCGKRYKYKRGLHRHKQDECGQ--EPKYQCPQCKDSFFSWSAFHKNLSGMFACDVCG 128
+C CGK Y+R CG EP Y+CP+C C+ CG
Sbjct: 628 KCPSCGKETFYRRC------PFCGTHTEPVYRCPRCGIE-----------VEEDECEKCG 670
Query: 129 KE 130
+E
Sbjct: 671 RE 672
>gnl|CDD|238698 cd01407, SIR2-fam, SIR2 family of proteins includes silent
information regulator 2 (Sir2) enzymes which catalyze
NAD+-dependent protein/histone deacetylation, where the
acetyl group from the lysine epsilon-amino group is
transferred to the ADP-ribose moiety of NAD+, producing
nicotinamide and the novel metabolite
O-acetyl-ADP-ribose. Sir2 proteins, also known as
sirtuins, are found in all eukaryotes and many archaea
and prokaryotes and have been shown to regulate gene
silencing, DNA repair, metabolic enzymes, and life span.
The most-studied function, gene silencing, involves the
inactivation of chromosome domains containing key
regulatory genes by packaging them into a specialized
chromatin structure that is inaccessible to DNA-binding
proteins. The oligomerization state of Sir2 appears to
be organism-dependent, sometimes occurring as a monomer
and sometimes as a multimer.
Length = 218
Score = 30.2 bits (69), Expect = 0.75
Identities = 16/68 (23%), Positives = 28/68 (41%), Gaps = 18/68 (26%)
Query: 42 NVD----KSLNTNVLNAHGFNIWPLVQQYSKGFECQVCGKRYKYKRGLHRHKQDECGQEP 97
NVD ++ + V+ HG +++ + C CGK Y ++E P
Sbjct: 87 NVDGLHQRAGSPKVIELHG-SLFRVR--------CTKCGKEYPRDELQADIDREE---VP 134
Query: 98 KYQCPQCK 105
+ CP+C
Sbjct: 135 R--CPKCG 140
>gnl|CDD|235871 PRK06835, PRK06835, DNA replication protein DnaC; Validated.
Length = 329
Score = 30.3 bits (69), Expect = 0.89
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 96 EPKYQCPQCKDSFF 109
E KY CP+CKD+ F
Sbjct: 96 EMKYTCPKCKDTGF 109
>gnl|CDD|216153 pfam00854, PTR2, POT family. The POT (proton-dependent
oligopeptide transport) family all appear to be proton
dependent transporters.
Length = 372
Score = 30.4 bits (69), Expect = 0.96
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 95 QEPKYQCPQCKDSFFSWSAFHKNLSGMFACDVCG 128
Q + Q P+ +D FFSW F N + A +
Sbjct: 60 QFDETQDPR-RDGFFSWFYFSINAGSLIATIITP 92
>gnl|CDD|236694 PRK10436, PRK10436, hypothetical protein; Provisional.
Length = 462
Score = 29.9 bits (68), Expect = 1.4
Identities = 14/45 (31%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 153 CPHCPHRAKHKANLKTHIAP----QLGVFACNVCGKGYRYKTGLY 193
CPHC +A +L +I P C C GY +T L+
Sbjct: 358 CPHCRQQASEPIHLPPNIWPGPLPHWQAVGCEHCYHGYYGRTALF 402
>gnl|CDD|238702 cd01411, SIR2H, SIR2H: Uncharacterized prokaryotic Sir2 homologs
from several gram positive bacterial species and
Fusobacteria; and are members of the SIR2 family of
proteins, silent information regulator 2 (Sir2) enzymes
which catalyze NAD+-dependent protein/histone
deacetylation. Sir2 proteins have been shown to regulate
gene silencing, DNA repair, metabolic enzymes, and life
span.
Length = 225
Score = 28.9 bits (65), Expect = 2.0
Identities = 20/68 (29%), Positives = 29/68 (42%), Gaps = 13/68 (19%)
Query: 31 TKMEFIAIRNSNVD----KSLNTNVLNAHGFNIWPLVQQYSKGFECQVCGKRYKYKRGLH 86
KM A+ N+D K+ + NV+ HG L + Y C VCGK ++ L
Sbjct: 85 EKMGLKAVITQNIDGLHQKAGSKNVVEFHG----SLYRIY-----CTVCGKTVDWEEYLK 135
Query: 87 RHKQDECG 94
+CG
Sbjct: 136 SPYHAKCG 143
>gnl|CDD|202726 pfam03691, UPF0167, Uncharacterized protein family (UPF0167). The
proteins in this family are about 200 amino acids long
and each contain 3 CXXC motifs.
Length = 177
Score = 28.5 bits (64), Expect = 2.3
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 4/33 (12%)
Query: 124 CDVCGKEYKYKRGLYRHKKFECGQEPKYQCPHC 156
CD CG+ RG F ++ +Y CP C
Sbjct: 27 CDCCGQA----RGYVYTGPFYTVEDVEYLCPWC 55
>gnl|CDD|227480 COG5151, SSL1, RNA polymerase II transcription
initiation/nucleotide excision repair factor TFIIH,
subunit SSL1 [Transcription / DNA replication,
recombination, and repair].
Length = 421
Score = 28.0 bits (62), Expect = 4.7
Identities = 16/60 (26%), Positives = 21/60 (35%), Gaps = 5/60 (8%)
Query: 68 KGFECQVCGKRYKYKRGLHRHKQDECGQEPKYQCPQCKDSFFSWSA--FHKNLSGMFACD 125
K C VC + DE +YQC CK +F S H+ L C+
Sbjct: 361 KSTHCFVCQGPFPK---PPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCE 417
>gnl|CDD|240332 PTZ00255, PTZ00255, 60S ribosomal protein L37a; Provisional.
Length = 90
Score = 26.6 bits (59), Expect = 5.2
Identities = 16/45 (35%), Positives = 20/45 (44%), Gaps = 10/45 (22%)
Query: 141 KKFECGQEPKYQCPHC-PHRAKHKANLKTHIAPQLGVFACNVCGK 184
KK E Q KY CP C H K +A +G++ C C K
Sbjct: 27 KKIEISQHAKYFCPFCGKHAVKRQA---------VGIWRCKGCKK 62
>gnl|CDD|236613 PRK09693, PRK09693, Cascade antiviral complex protein; Validated.
Length = 489
Score = 27.4 bits (61), Expect = 6.9
Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 3/50 (6%)
Query: 111 WSAFHKNLS---GMFACDVCGKEYKYKRGLYRHKKFECGQEPKYQCPHCP 157
W H L G+ C CG+E + + + +KF + PH P
Sbjct: 234 WQPAHIELCIPDGIGKCSCCGQESEQRYTGFLKEKFNFTVNGLWPHPHSP 283
>gnl|CDD|222450 pfam13909, zf-H2C2_5, C2H2-type zinc-finger domain.
Length = 24
Score = 24.5 bits (54), Expect = 7.2
Identities = 8/24 (33%), Positives = 14/24 (58%), Gaps = 1/24 (4%)
Query: 206 YQCPHCPHKAKHKANLKTHIAIKH 229
Y+C HCP+ + L+ H+ + H
Sbjct: 1 YKCSHCPYSST-PKKLERHLKLHH 23
>gnl|CDD|233040 TIGR00595, priA, primosomal protein N'. All proteins in this
family for which functions are known are components of
the primosome which is involved in replication, repair,
and recombination.This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 505
Score = 27.3 bits (61), Expect = 7.8
Identities = 18/50 (36%), Positives = 21/50 (42%), Gaps = 11/50 (22%)
Query: 66 YSKGFECQVCGKRYKYKR---GLHRHKQDE------CG-QEPK-YQCPQC 104
YSK C+ CG L HK++ CG QEP CPQC
Sbjct: 210 YSKNLLCRSCGYILCCPNCDVSLTYHKKEGKLRCHYCGYQEPIPKTCPQC 259
>gnl|CDD|225373 COG2816, NPY1, NTP pyrophosphohydrolases containing a Zn-finger,
probably nucleic-acid-binding [DNA replication,
recombination, and repair].
Length = 279
Score = 27.3 bits (61), Expect = 8.6
Identities = 13/77 (16%), Positives = 18/77 (23%), Gaps = 22/77 (28%)
Query: 83 RGLHRHKQDECGQEPKYQCPQCKDSFFSWSAFHKNLSGMFACDVCGKEYKYKRGLYRHKK 142
R L + + W H+ F C CG + + G
Sbjct: 84 RSLLTELDEGLFGL----AARAV-QLLEWYRSHR-----F-CGRCGTKTYPREG------ 126
Query: 143 FECGQEPKYQCPHCPHR 159
CP C H
Sbjct: 127 -----GWARVCPKCGHE 138
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
0.322 0.136 0.454
Gapped
Lambda K H
0.267 0.0655 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,473,662
Number of extensions: 959844
Number of successful extensions: 1054
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1049
Number of HSP's successfully gapped: 70
Length of query: 245
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 151
Effective length of database: 6,768,326
Effective search space: 1022017226
Effective search space used: 1022017226
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: 58 (26.3 bits)