RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy15119
         (96 letters)



>gnl|CDD|185399 PTZ00017, PTZ00017, histone H2A; Provisional.
          Length = 134

 Score =  162 bits (413), Expect = 1e-53
 Identities = 74/99 (74%), Positives = 84/99 (84%), Gaps = 3/99 (3%)

Query: 1  MSGRGKGGKAKAKSK---TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEY 57
            G+GK G  KA  K   +RS++AGLQFPVGR+HR L+KG YA+RVGAGAPVYLAAV+EY
Sbjct: 1  KGGKGKTGGGKAGKKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEY 60

Query: 58 LAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL 96
          L AEVLELAGNAA+DNKK RI PRH+QLAIRNDEELNKL
Sbjct: 61 LTAEVLELAGNAAKDNKKKRITPRHIQLAIRNDEELNKL 99


>gnl|CDD|238029 cd00074, H2A, Histone 2A; H2A is a subunit of the nucleosome. The
          nucleosome is an octamer containing two H2A, H2B, H3,
          and H4 subunits. The H2A subunit performs essential
          roles in maintaining structural integrity of the
          nucleosome, chromatin condensation, and binding of
          specific chromatin-associated proteins.
          Length = 115

 Score =  157 bits (399), Expect = 9e-52
 Identities = 76/90 (84%), Positives = 83/90 (92%)

Query: 7  GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELA 66
          GGK K+K ++RS+RAGLQFPVGRIHR L+KG YAERVGAGAPVYLAAV+EYL AEVLELA
Sbjct: 3  GGKKKSKKRSRSARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELA 62

Query: 67 GNAARDNKKTRIIPRHLQLAIRNDEELNKL 96
          GNAARDNKK RI PRHLQLA+RNDEELNKL
Sbjct: 63 GNAARDNKKKRITPRHLQLAVRNDEELNKL 92


>gnl|CDD|177758 PLN00157, PLN00157, histone H2A; Provisional.
          Length = 132

 Score =  154 bits (391), Expect = 3e-50
 Identities = 75/98 (76%), Positives = 86/98 (87%), Gaps = 2/98 (2%)

Query: 1  MSGRGK--GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYL 58
          MSGRGK  GG    K+ +RS++AGLQFPVGRI R L+ G YA RVGAGAPVYLAAV+EYL
Sbjct: 1  MSGRGKRKGGGGGKKATSRSAKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYL 60

Query: 59 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL 96
          AAEVLELAGNAARDNKK+RI+PRH+QLA+RNDEEL+KL
Sbjct: 61 AAEVLELAGNAARDNKKSRIVPRHIQLAVRNDEELSKL 98


>gnl|CDD|197711 smart00414, H2A, Histone 2A. 
          Length = 106

 Score =  149 bits (378), Expect = 1e-48
 Identities = 73/81 (90%), Positives = 77/81 (95%)

Query: 16 TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 75
          +RS+RAGLQFPVGRIHRLLRKG YA+RVGAGAPVYLAAV+EYL AEVLELAGNAARDNKK
Sbjct: 1  SRSARAGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKK 60

Query: 76 TRIIPRHLQLAIRNDEELNKL 96
           RI PRHLQLAIRNDEELNKL
Sbjct: 61 RRITPRHLQLAIRNDEELNKL 81


>gnl|CDD|215080 PLN00156, PLN00156, histone H2AX; Provisional.
          Length = 139

 Score =  140 bits (355), Expect = 1e-44
 Identities = 74/97 (76%), Positives = 85/97 (87%), Gaps = 1/97 (1%)

Query: 1   MSGRGKGGKAKA-KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 59
            + +G  GK KA KS +RSS+AGLQFPVGRI R L+ G YAERVGAGAPVYL+AV+EYLA
Sbjct: 5   GTTKGGRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLA 64

Query: 60  AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL 96
           AEVLELAGNAARDNKK RI+PRH+QLA+RNDEEL+KL
Sbjct: 65  AEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKL 101


>gnl|CDD|227587 COG5262, HTA1, Histone H2A [Chromatin structure and dynamics].
          Length = 132

 Score =  136 bits (343), Expect = 6e-43
 Identities = 75/96 (78%), Positives = 84/96 (87%), Gaps = 2/96 (2%)

Query: 3  GRGKGGKAKA--KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
            GKGGKA     S++RS++AGL FPVGR+ RLL+KGNY  R+GAGAPVYLAAV+EYLAA
Sbjct: 3  SGGKGGKAADARVSQSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAA 62

Query: 61 EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL 96
          E+LELAGNAARDNKK RIIPRHLQLAIRNDEELNKL
Sbjct: 63 EILELAGNAARDNKKKRIIPRHLQLAIRNDEELNKL 98


>gnl|CDD|165721 PLN00153, PLN00153, histone H2A; Provisional.
          Length = 129

 Score =  129 bits (325), Expect = 2e-40
 Identities = 74/96 (77%), Positives = 85/96 (88%)

Query: 1  MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
          M+GRGKG  +  K+ +RS++AGLQFPVGRI R L+KG YAER+GAGAPVYLAAV+EYL A
Sbjct: 1  MAGRGKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTA 60

Query: 61 EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL 96
          EVLELAGNAARDNKK RI+PRH+QLAIRNDEEL KL
Sbjct: 61 EVLELAGNAARDNKKNRIVPRHIQLAIRNDEELGKL 96


>gnl|CDD|177756 PLN00154, PLN00154, histone H2A; Provisional.
          Length = 136

 Score =  111 bits (278), Expect = 3e-33
 Identities = 62/97 (63%), Positives = 71/97 (73%), Gaps = 1/97 (1%)

Query: 1   MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLA 59
            +   K  K K K  +RSSRAGLQFPVGRIHR L++   A  RVGA A VY AA++EYL 
Sbjct: 15  TAAAAKKDKDKKKPTSRSSRAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLT 74

Query: 60  AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKL 96
           AEVLELAGNA++D K  RI PRHLQLAIR DEEL+ L
Sbjct: 75  AEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTL 111


>gnl|CDD|201020 pfam00125, Histone, Core histone H2A/H2B/H3/H4. 
          Length = 75

 Score = 85.3 bits (212), Expect = 1e-23
 Identities = 33/75 (44%), Positives = 44/75 (58%), Gaps = 1/75 (1%)

Query: 17 RSSRAGLQFPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 75
           S    L+ P  R+ R L++G YAE R+ + APV L   +E L  E+LE AG  AR  K+
Sbjct: 1  SSRLLILKLPFSRVVRELKEGFYAELRISSKAPVALQEALEDLLEEILEDAGLLARHAKR 60

Query: 76 TRIIPRHLQLAIRND 90
            I PR +QLA+R D
Sbjct: 61 KTITPRDIQLAVRLD 75


>gnl|CDD|240330 PTZ00252, PTZ00252, histone H2A; Provisional.
          Length = 134

 Score = 81.9 bits (202), Expect = 1e-21
 Identities = 46/90 (51%), Positives = 61/90 (67%), Gaps = 2/90 (2%)

Query: 9  KAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGN 68
          KA      RS++AGL FPVGR+  LLR+G YA R+GA   VY+AAV+EYL AE+LEL+  
Sbjct: 10 KASKSGSGRSAKAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVK 69

Query: 69 AARDN--KKTRIIPRHLQLAIRNDEELNKL 96
          AA     K  R+ PR + LA+R+D++L  L
Sbjct: 70 AAAQQAKKPKRLTPRTVTLAVRHDDDLGSL 99


>gnl|CDD|165723 PLN00155, PLN00155, histone H2A; Provisional.
          Length = 58

 Score = 70.5 bits (172), Expect = 5e-18
 Identities = 41/58 (70%), Positives = 50/58 (86%)

Query: 1  MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYL 58
          M+GRGKG  +  K+ +RS++AGLQFPVGRI R L+KG YAER+GAGAPVYLAAV+EYL
Sbjct: 1  MAGRGKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYL 58


>gnl|CDD|227572 COG5247, BUR6, Class 2 transcription repressor NC2, alpha subunit
          (DRAP1 homolog) [Transcription].
          Length = 113

 Score = 40.7 bits (95), Expect = 8e-06
 Identities = 18/73 (24%), Positives = 36/73 (49%)

Query: 24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHL 83
          +FP+ R+ ++++      +VG   PV  +  +E    E++ L+   AR     R+    L
Sbjct: 23 RFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFL 82

Query: 84 QLAIRNDEELNKL 96
          + A  +DE+ + L
Sbjct: 83 KRATESDEKFDFL 95


>gnl|CDD|201453 pfam00808, CBFD_NFYB_HMF, Histone-like transcription factor
          (CBF/NF-Y) and archaeal histone.  This family includes
          archaebacterial histones and histone like transcription
          factors from eukaryotes.
          Length = 65

 Score = 33.7 bits (78), Expect = 0.001
 Identities = 14/63 (22%), Positives = 28/63 (44%)

Query: 25 FPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQ 84
           P+ R+ R+++    A R+   A   +A  +E     +   A    +  K+  I   H++
Sbjct: 3  LPIARVKRIMKSDPDAGRISQDAKELIAECVEEFIEFIASEAAEICKKEKRKTINAEHIK 62

Query: 85 LAI 87
          LA+
Sbjct: 63 LAV 65


>gnl|CDD|237406 PRK13515, PRK13515, carboxylate-amine ligase; Provisional.
          Length = 371

 Score = 27.2 bits (61), Expect = 1.2
 Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 3/41 (7%)

Query: 27  VGRIHRLLRKGNYAER---VGAGAPVYLAAVMEYLAAEVLE 64
           V     +L +G  A+R   V A     L AV+++L  E LE
Sbjct: 326 VEYARTILEEGTSADRQLRVYAETGGALRAVVDWLIEETLE 366


>gnl|CDD|227533 COG5208, HAP5, CCAAT-binding factor, subunit C [Transcription].
          Length = 286

 Score = 26.6 bits (58), Expect = 2.0
 Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 1/59 (1%)

Query: 23  LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPR 81
              P+ RI ++++     + + A APV  A + E    E+   A   A +NK+ R + +
Sbjct: 108 HNLPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKR-RTLQK 165


>gnl|CDD|227296 COG4961, TadG, Flp pilus assembly protein TadG [Intracellular
          trafficking and secretion].
          Length = 185

 Score = 24.7 bits (54), Expect = 8.4
 Identities = 11/38 (28%), Positives = 15/38 (39%), Gaps = 2/38 (5%)

Query: 19 SRAGLQFPVGRIHRLLR--KGNYAERVGAGAPVYLAAV 54
          +RA  +   G + R  R  +G  A      AP  L  V
Sbjct: 1  ARARRRGLRGLLRRFRRDRRGAAAVEFALVAPPLLLLV 38


>gnl|CDD|177669 PLN00035, PLN00035, histone H4; Provisional.
          Length = 103

 Score = 24.4 bits (53), Expect = 9.7
 Identities = 17/42 (40%), Positives = 21/42 (50%), Gaps = 5/42 (11%)

Query: 1  MSGRGKGGKAKAKSKTRSSRAGLQFPV-----GRIHRLLRKG 37
          MSGRGKGGK   K   +  R  L+  +       I RL R+G
Sbjct: 1  MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRG 42


  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
   0.317    0.133    0.366 

Gapped
Lambda     K      H
   0.267   0.0632    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,938,887
Number of extensions: 430363
Number of successful extensions: 412
Number of sequences better than 10.0: 1
Number of HSP's gapped: 406
Number of HSP's successfully gapped: 42
Length of query: 96
Length of database: 10,937,602
Length adjustment: 63
Effective length of query: 33
Effective length of database: 8,143,300
Effective search space: 268728900
Effective search space used: 268728900
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.4 bits)