RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

Searching..................................................done

Query= psy12028
         (118 letters)



>gnl|CDD|222450 pfam13909, zf-H2C2_5, C2H2-type zinc-finger domain. 
          Length = 24

 Score = 25.7 bits (57), Expect = 1.3
 Identities = 12/24 (50%), Positives = 17/24 (70%), Gaps = 1/24 (4%)

Query: 92  FECPHCPYRSKRKDTLDRHMKIIH 115
           ++C HCPY S  K  L+RH+K+ H
Sbjct: 1   YKCSHCPYSSTPK-KLERHLKLHH 23


>gnl|CDD|221323 pfam11931, DUF3449, Domain of unknown function (DUF3449).  This
           presumed domain is functionally uncharacterized. This
           domain is found in eukaryotes. This domain is typically
           between 181 to 207 amino acids in length. This domain
           has two conserved sequence motifs: PIP and CEICG. The
           domain carries a zinc-finger domain of the C2H2-type.
          Length = 187

 Score = 27.2 bits (61), Expect = 1.7
 Identities = 12/46 (26%), Positives = 22/46 (47%), Gaps = 11/46 (23%)

Query: 46  LNRHLGWE---------QLQGNAHVMYACDVCG-KVYQHKQTLDRH 81
           LN  LGW+         +L G     + C++CG   Y+ ++  ++H
Sbjct: 68  LNLPLGWDGKPIPYWLYKLHG-LGKEFKCEICGNTSYKGRKAFEKH 112


>gnl|CDD|216498 pfam01430, HSP33, Hsp33 protein.  Hsp33 is a molecular chaperone,
           distinguished from all other known chaperones by its
           mode of functional regulation. Its activity is redox
           regulated. Hsp33 is a cytoplasmically localised protein
           with highly reactive cysteines that respond quickly to
           changes in the redox environment. Oxidising conditions
           like H2O2 cause disulfide bonds to form in Hsp33, a
           process that leads to the activation of its chaperone
           function.
          Length = 274

 Score = 27.1 bits (61), Expect = 2.1
 Identities = 19/54 (35%), Positives = 25/54 (46%), Gaps = 13/54 (24%)

Query: 27  QEPKFGCPQCPYRSRQK-ATLNRHLGWEQL------QGNAHVMYACDVCGKVYQ 73
           Q  +FGC  C   SR++ A     LG E+L       G   V   C+ CGK Y+
Sbjct: 224 QPVRFGCS-C---SRERVANALASLGKEELQDMIEEDGKIEV--TCEFCGKKYR 271


>gnl|CDD|233043 TIGR00599, rad18, DNA repair protein rad18.  All proteins in this
           family for which functions are known are involved in
           nucleotide excision repair.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 = 397

 Score = 27.3 bits (60), Expect = 2.2
 Identities = 7/25 (28%), Positives = 12/25 (48%), Gaps = 1/25 (4%)

Query: 62  MYACDVCGKVYQHKQTLDRHKKDEC 86
           +  C +C +    K  ++RH   EC
Sbjct: 181 LVQCPICQQRMPEKA-VERHLDSEC 204


>gnl|CDD|224200 COG1281, COG1281, Disulfide bond chaperones of the HSP33 family
           [Posttranslational modification, protein turnover,
           chaperones].
          Length = 286

 Score = 26.8 bits (60), Expect = 2.4
 Identities = 18/53 (33%), Positives = 22/53 (41%), Gaps = 11/53 (20%)

Query: 27  QEPKFGCPQCPYRSRQKATLNRHLGWEQLQ------GNAHVMYACDVCGKVYQ 73
           Q  +F C  C  R R  A L   LG E+L+      G   V   C+ CG  Y 
Sbjct: 230 QPVEFRCS-CS-RERVAAALLS-LGKEELEDMLEEDGGIEV--TCEFCGTKYL 277


>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 = 24.5 bits (53), Expect = 2.9
 Identities = 10/24 (41%), Positives = 13/24 (54%)

Query: 92  FECPHCPYRSKRKDTLDRHMKIIH 115
           F+CP C      KD L RH++  H
Sbjct: 1   FKCPLCGKSFSSKDALKRHLRKHH 24


>gnl|CDD|215056 PLN00104, PLN00104, MYST -like histone acetyltransferase;
           Provisional.
          Length = 450

 Score = 26.6 bits (59), Expect = 3.5
 Identities = 9/22 (40%), Positives = 12/22 (54%)

Query: 1   MYACDVCGKEYQHKRTLYRHKK 22
           +Y C+ C K  + K  L RH K
Sbjct: 198 LYFCEFCLKFMKRKEQLQRHMK 219



 Score = 26.3 bits (58), Expect = 5.2
 Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 11/48 (22%)

Query: 62  MYACDVCGKVYQHKQTLDRHKKDECGQEPKFECPHCP----YRSKRKD 105
           +Y C+ C K  + K+ L RH K       K +  H P    YR   + 
Sbjct: 198 LYFCEFCLKFMKRKEQLQRHMK-------KCDLKHPPGDEIYRHPTRQ 238



 Score = 25.9 bits (57), Expect = 7.1
 Identities = 12/30 (40%), Positives = 14/30 (46%), Gaps = 1/30 (3%)

Query: 84  DECGQEPK-FECPHCPYRSKRKDTLDRHMK 112
            E     K + C  C    KRK+ L RHMK
Sbjct: 190 PEYNDCSKLYFCEFCLKFMKRKEQLQRHMK 219


>gnl|CDD|232808 TIGR00069, hisD, histidinol dehydrogenase.  This model describes a
           polypeptide sequence catalyzing the final step in
           histidine biosynthesis, found sometimes as an
           independent protein and sometimes as a part of a
           multifunctional protein [Amino acid biosynthesis,
           Histidine family].
          Length = 393

 Score = 26.3 bits (59), Expect = 4.0
 Identities = 6/18 (33%), Positives = 10/18 (55%), Gaps = 2/18 (11%)

Query: 58  NAHVMYACDVCG--KVYQ 73
           N  V+ A  + G  +VY+
Sbjct: 135 NPAVLAAAKLAGVDEVYK 152


>gnl|CDD|234853 PRK00877, hisD, bifunctional histidinal dehydrogenase/ histidinol
           dehydrogenase; Reviewed.
          Length = 425

 Score = 26.2 bits (59), Expect = 4.3
 Identities = 5/18 (27%), Positives = 10/18 (55%), Gaps = 2/18 (11%)

Query: 58  NAHVMYACDVCG--KVYQ 73
           N  ++ A  + G  +VY+
Sbjct: 166 NPAILAAAALAGVDEVYK 183


>gnl|CDD|239134 cd02669, Peptidase_C19M, A subfamily of Peptidase C19. Peptidase
          C19 contains ubiquitinyl hydrolases. They are
          intracellular peptidases that remove ubiquitin
          molecules from polyubiquinated peptides by cleavage of
          isopeptide bonds. They hydrolyze bonds involving the
          carboxyl group of the C-terminal Gly residue of
          ubiquitin. The purpose of the de-ubiquitination is
          thought to be editing of the ubiquitin conjugates,
          which could rescue them from degradation, as well as
          recycling of the ubiquitin. The ubiquitin/proteasome
          system is responsible for most protein turnover in the
          mammalian cell, and with over 50 members, family C19 is
          one of the largest families of peptidases in the human
          genome.
          Length = 440

 Score = 26.1 bits (58), Expect = 4.5
 Identities = 10/16 (62%), Positives = 12/16 (75%), Gaps = 1/16 (6%)

Query: 58 NAHVMYACDVCGKVYQ 73
          N +V YAC VCGK +Q
Sbjct: 25 NLNV-YACLVCGKYFQ 39



 Score = 26.1 bits (58), Expect = 5.5
 Identities = 10/22 (45%), Positives = 12/22 (54%), Gaps = 3/22 (13%)

Query: 2  YACDVCGKEYQHKRT---LYRH 20
          YAC VCGK +Q +      Y H
Sbjct: 29 YACLVCGKYFQGRGKGSHAYTH 50


>gnl|CDD|236291 PRK08565, PRK08565, DNA-directed RNA polymerase subunit B;
            Provisional.
          Length = 1103

 Score = 26.5 bits (59), Expect = 4.6
 Identities = 11/37 (29%), Positives = 15/37 (40%), Gaps = 11/37 (29%)

Query: 61   VMYACDVCGKVYQHKQTLDRHKKDECGQEPKFECPHC 97
             +Y C++CG    H    DR K        K+ CP  
Sbjct: 1041 TIYVCELCG----HIAWYDRRKN-------KYVCPIH 1066


>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger. 
          Length = 23

 Score = 24.0 bits (52), Expect = 4.6
 Identities = 8/22 (36%), Positives = 10/22 (45%)

Query: 92  FECPHCPYRSKRKDTLDRHMKI 113
           + CP C    K K  L  HM+ 
Sbjct: 1   YRCPECGKVFKSKSALREHMRT 22


>gnl|CDD|211415 cd11574, GH99, Glycoside hydrolase family 99, an
           endo-alpha-1,2-mannosidase.  This family of glycoside
           hydrolases 99 (following the CAZY nomenclature) includes
           endo-alpha-1,2-mannosidase (EC 3.2.1.130), which is an
           important membrane-associated eukaryotic enzyme involved
           in the maturation of N-linked glycans. Specifically, it
           cleaves mannoside linkages internal to N-linked glycan
           chains by hydrolyzing an alpha-1,2-mannosidic bond
           between a glucose-substituted mannose and the remainder
           of the chain. The biological function and significance
           of the soluble bacterial orthologs, which may have
           obtained the genes via horizontal transfer, is not
           clear.
          Length = 338

 Score = 26.1 bits (58), Expect = 5.6
 Identities = 8/17 (47%), Positives = 9/17 (52%)

Query: 98  PYRSKRKDTLDRHMKII 114
           PY S     +D HMK I
Sbjct: 56  PYSSSDPSVIDDHMKQI 72


>gnl|CDD|227360 COG5027, SAS2, Histone acetyltransferase (MYST family) [Chromatin
           structure and dynamics].
          Length = 395

 Score = 25.5 bits (56), Expect = 9.1
 Identities = 10/27 (37%), Positives = 16/27 (59%), Gaps = 1/27 (3%)

Query: 1   MYACDVCGKEYQHKRTLYRHKKDECGQ 27
           +Y C+ C K Y  + +L RH+K +C  
Sbjct: 158 VYICEFCLKYYGSQTSLVRHRK-KCSL 183


  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    0.138    0.475 

Gapped
Lambda     K      H
   0.267   0.0804    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,433,636
Number of extensions: 409464
Number of successful extensions: 504
Number of sequences better than 10.0: 1
Number of HSP's gapped: 502
Number of HSP's successfully gapped: 73
Length of query: 118
Length of database: 10,937,602
Length adjustment: 81
Effective length of query: 37
Effective length of database: 7,344,928
Effective search space: 271762336
Effective search space used: 271762336
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: 41 (22.0 bits)
S2: 53 (24.1 bits)