RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17761
(92 letters)
>2hue_C Histone H4; mini beta sheet, elongated beta sandwhich, DNA
binding prote; 1.70A {Xenopus laevis} SCOP: a.22.1.1
PDB: 3nqj_B 1aoi_B 3kwq_B* 1hio_D 2yfv_B
Length = 84
Score = 49.4 bits (118), Expect = 1e-09
Identities = 29/35 (82%), Positives = 31/35 (88%)
Query: 34 FAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+GLIYEETRGVLKV LENVIRDAVTY HAKR+T
Sbjct: 28 ISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKT 62
>2l5a_A Histone H3-like centromeric protein CSE4, protein histone H4; A
single chain of CSE4+SCM3+H4, fusion protein; NMR
{Saccharomyces cerevisiae}
Length = 235
Score = 51.2 bits (121), Expect = 2e-09
Identities = 24/35 (68%), Positives = 28/35 (80%)
Query: 34 FAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+GLIYEE R VLK LE+VIRD+VTY HAKR+T
Sbjct: 179 ISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKT 213
>1tzy_D Histone H4-VI; histone-fold, tetramer-dimer-dimer, DNA binding
protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB:
1f66_B 1eqz_D 1hq3_D 1u35_B 2aro_D 2cv5_B* 2f8n_B
3nqu_B 3r45_B 3azg_B 3a6n_B 3an2_B 3av1_B 3av2_B 3ayw_B
3aze_B 3azf_B 3afa_B 3azh_B 3azk_B ...
Length = 103
Score = 48.0 bits (114), Expect = 6e-09
Identities = 29/35 (82%), Positives = 31/35 (88%)
Query: 34 FAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+GLIYEETRGVLKV LENVIRDAVTY HAKR+T
Sbjct: 47 ISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKT 81
>2yfw_B Histone H4, H4; cell cycle, kinetochore, centromere, histone
chaperone, BUDD; 2.60A {Kluyveromyces lactis nrrl
y-1140}
Length = 103
Score = 44.3 bits (104), Expect = 2e-07
Identities = 25/35 (71%), Positives = 28/35 (80%)
Query: 34 FAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+GLIYEE R VLK LE+VIRDAVTY HAKR+T
Sbjct: 47 ISGLIYEEVRNVLKTFLESVIRDAVTYTEHAKRKT 81
>1id3_B Histone H4; nucleosome core particle, chromatin, protein/DNA
interaction, nucleoprotein, supercoiled DNA; 3.10A
{Saccharomyces cerevisiae} SCOP: a.22.1.1
Length = 102
Score = 44.3 bits (104), Expect = 2e-07
Identities = 24/35 (68%), Positives = 28/35 (80%)
Query: 34 FAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+GLIYEE R VLK LE+VIRD+VTY HAKR+T
Sbjct: 46 ISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKT 80
>3b0c_T CENP-T, centromere protein T; histone fold, DNA binding, DNA
binding protein; HET: CIT; 2.20A {Gallus gallus} PDB:
3b0d_T* 3vh5_T 3vh6_T
Length = 111
Score = 40.0 bits (93), Expect = 7e-06
Identities = 7/35 (20%), Positives = 13/35 (37%)
Query: 34 FAGLIYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
Y+ + + + D Y +HA R+T
Sbjct: 25 VTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKT 59
>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A
{Pyrococcus horikoshii} SCOP: a.22.1.2
Length = 70
Score = 36.2 bits (84), Expect = 1e-04
Identities = 8/31 (25%), Positives = 14/31 (45%)
Query: 38 IYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
+ L+ + + AV + RHA R+T
Sbjct: 28 AAKVLAEYLEEYAIEIAKKAVEFARHAGRKT 58
>1b67_A Protein (histone HMFA); DNA binding protein; 1.48A
{Methanothermus fervidus} SCOP: a.22.1.2 PDB: 1hta_A
1a7w_A 1b6w_A 1bfm_A
Length = 68
Score = 34.2 bits (79), Expect = 6e-04
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 38 IYEETRGVLKVVLENVIRDAVTYPRHAKRQT 68
VL+ + E + +AV +HA R+T
Sbjct: 24 ARIALAKVLEEMGEEIASEAVKLAKHAGRKT 54
>3b0b_B CENP-S, centromere protein S; histone fold, DNA binding, DNA,
nucleus, DNA binding protein; 2.15A {Gallus gallus}
Length = 107
Score = 25.0 bits (54), Expect = 2.7
Identities = 10/19 (52%), Positives = 11/19 (57%)
Query: 50 LENVIRDAVTYPRHAKRQT 68
EN RD + RHAKR T
Sbjct: 56 CENFARDLEMFARHAKRST 74
>4dra_A Centromere protein S; DNA binding complex, DNA damage repair,
histone-fold, DNA BI protein; 2.41A {Homo sapiens} PDB:
4drb_A
Length = 113
Score = 25.0 bits (54), Expect = 3.0
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 50 LENVIRDAVTYPRHAKRQT 68
EN +D + RHAKR T
Sbjct: 64 CENFAKDLEMFARHAKRTT 82
>1f1e_A Histone fold protein; archaeal histone protein, DNA binding
protein; HET: MSE; 1.37A {Methanopyrus kandleri} SCOP:
a.22.1.2
Length = 154
Score = 25.1 bits (54), Expect = 3.4
Identities = 9/45 (20%), Positives = 14/45 (31%), Gaps = 1/45 (2%)
Query: 40 EETRGVLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRP 84
+ ++ E + A Y R+T Q D S P
Sbjct: 106 DLYNKLICRATEELGEKAAEYADEDGRKT-VQGEDVEKAITYSMP 149
>3vh5_A CENP-S; histone fold, chromosome segregation, DNA binding,
nucleus, binding protein; 2.40A {Gallus gallus} PDB:
3vh6_A
Length = 140
Score = 24.7 bits (53), Expect = 4.8
Identities = 10/19 (52%), Positives = 11/19 (57%)
Query: 50 LENVIRDAVTYPRHAKRQT 68
EN RD + RHAKR T
Sbjct: 56 AENFARDLEMFARHAKRST 74
>3v9r_A MHF1, uncharacterized protein YOL086W-A; histone fold, fanconi
anemia, DNA repair, DNA BI protein; 2.40A
{Saccharomyces cerevisiae}
Length = 90
Score = 23.8 bits (51), Expect = 8.4
Identities = 6/19 (31%), Positives = 8/19 (42%)
Query: 50 LENVIRDAVTYPRHAKRQT 68
L + D + RHA R
Sbjct: 49 LGEMGSDLQAFARHAGRGV 67
>3g3d_A UMP synthase, uridine 5'-monophosphate synthase; C-terminal
domain, orotidine 5'-monophosphate decarboxylase,
human, 5-fluoro-6-azido-UMP; HET: 5FU; 1.70A {Homo
sapiens} PDB: 3bvj_A* 3mw7_A* 2p1f_A 2eaw_A 3bgg_A*
3bgj_A*
Length = 312
Score = 24.2 bits (52), Expect = 8.7
Identities = 13/55 (23%), Positives = 20/55 (36%), Gaps = 1/55 (1%)
Query: 35 AGLIYEETRG-VLKVVLENVIRDAVTYPRHAKRQTGHQRMDSRLRAKTSRPHPCT 88
+ ET G V + + ENV A + + + RA+ R HP
Sbjct: 18 GSHMDAETVGRVKRFIQENVFVAANHNGSPLSIKEAPKELSFGARAELPRIHPVA 72
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.134 0.405
Gapped
Lambda K H
0.267 0.0535 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,392,581
Number of extensions: 68715
Number of successful extensions: 133
Number of sequences better than 10.0: 1
Number of HSP's gapped: 133
Number of HSP's successfully gapped: 19
Length of query: 92
Length of database: 6,701,793
Length adjustment: 59
Effective length of query: 33
Effective length of database: 5,054,454
Effective search space: 166796982
Effective search space used: 166796982
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 (21.8 bits)
S2: 51 (23.9 bits)