RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7425
(331 letters)
>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C*
Length = 123
Score = 153 bits (388), Expect = 7e-47
Identities = 117/122 (95%), Positives = 120/122 (98%)
Query: 210 GRGKGGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEV 269
GRGKGGK K K+K+RS+RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEV
Sbjct: 2 GRGKGGKVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEV 61
Query: 270 LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEK 329
LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEK
Sbjct: 62 LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEK 121
Query: 330 KA 331
KA
Sbjct: 122 KA 123
>1tzy_A Histone H2A-IV; histone-fold, tetramer-dimer-dimer, DNA binding
protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB:
1eqz_A 1hq3_A 2aro_A 2hio_A 3c9k_A 3azg_C 3a6n_C 3an2_C
3av1_C 3av2_C 3ayw_C 3aze_C 3azf_C 3afa_C 3azh_C 3azi_C
3azj_C 3azk_C 3azl_C 3azm_C ...
Length = 129
Score = 151 bits (381), Expect = 1e-45
Identities = 108/123 (87%), Positives = 115/123 (93%), Gaps = 1/123 (0%)
Query: 210 GRGK-GGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE 268
GRGK GGKA+ K+K+RSSRAGLQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL AE
Sbjct: 3 GRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAE 62
Query: 269 VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 328
+LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL VTIAQGGVLPNIQAVLLPKKT+
Sbjct: 63 ILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPKKTD 122
Query: 329 KKA 331
Sbjct: 123 SHK 125
>2f8n_G Core histone macro-H2A.1; nucleosome, NCP, macroh2A, histone
variant, chromatin, X- RAY structure, crystallography,
structural protein/DNA complex; 2.90A {Homo sapiens}
SCOP: a.22.1.1 PDB: 1u35_C
Length = 120
Score = 149 bits (376), Expect = 4e-45
Identities = 73/117 (62%), Positives = 91/117 (77%)
Query: 212 GKGGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLE 271
+GGK K+ +RS++AG+ FPVGR+ R ++KG+ R+G GAPVY+AAV+EYL AE+LE
Sbjct: 3 SRGGKKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILE 62
Query: 272 LAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 328
LA NAARDNKK R+ PRH+ LA+ NDEELN+LL GVTIA GGVLPNI LL KK
Sbjct: 63 LAVNAARDNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELLAKKRG 119
Score = 26.8 bits (58), Expect = 6.1
Identities = 11/14 (78%), Positives = 12/14 (85%)
Query: 197 LNKLLSGVTIAQGG 210
LN+LL GVTIA GG
Sbjct: 91 LNQLLKGVTIASGG 104
>2f8n_K Histone H2A type 1; nucleosome, NCP, macroh2A, histone variant,
chromatin, X- RAY structure, crystallography, structural
protein/DNA complex; 2.90A {Mus musculus} SCOP: a.22.1.1
Length = 149
Score = 150 bits (378), Expect = 4e-45
Identities = 106/123 (86%), Positives = 113/123 (91%)
Query: 209 GGRGKGGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE 268
G +GGKA+ K+KTRSSRAGLQFPVGR+HRLLRKGNY+ERVGAGAPVYLAAV+EYL AE
Sbjct: 22 GRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAE 81
Query: 269 VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 328
+LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL VTIAQGGVLPNIQAVLLPKKTE
Sbjct: 82 ILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTE 141
Query: 329 KKA 331
Sbjct: 142 SHH 144
>1id3_C Histone H2A.1; nucleosome core particle, chromatin, protein/DNA
interaction, nucleoprotein, supercoiled DNA; 3.10A
{Saccharomyces cerevisiae} SCOP: a.22.1.1
Length = 131
Score = 141 bits (356), Expect = 5e-42
Identities = 93/125 (74%), Positives = 107/125 (85%)
Query: 207 AQGGRGKGGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 266
+ G GK G A S++RS++AGL FPVGR+HRLLR+GNYA+R+G+GAPVYL AV+EYLA
Sbjct: 1 SGGKGGKAGSAAKASQSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLA 60
Query: 267 AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKK 326
AE+LELAGNAARDNKKTRIIPRHLQLAIRND+ELNKLL VTIAQGGVLPNI LLPKK
Sbjct: 61 AEILELAGNAARDNKKTRIIPRHLQLAIRNDDELNKLLGNVTIAQGGVLPNIHQNLLPKK 120
Query: 327 TEKKA 331
+ K
Sbjct: 121 SAKAT 125
>1f66_C Histone H2A.Z; nucleosome, chromatin, histone variant, protein DNA
interaction, nucleoprotein, supercoiled DNA, complex
(nucleosome core/DNA); 2.60A {Homo sapiens} SCOP:
a.22.1.1
Length = 128
Score = 131 bits (329), Expect = 5e-38
Identities = 73/124 (58%), Positives = 88/124 (70%), Gaps = 2/124 (1%)
Query: 209 GGRGKGGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAER-VGAGAPVYLAAVMEYLAA 267
GKAKTK+ +RS RAGLQFPVGRIHR L+ + VGA A VY AA++EYL A
Sbjct: 5 KAGKDSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTA 64
Query: 268 EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKT 327
EVLELAGNA++D K RI PRHLQLAIR DEEL+ L+ TIA GGV+P+I L+ KK
Sbjct: 65 EVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI-KATIAGGGVIPHIHKSLIGKKG 123
Query: 328 EKKA 331
++K
Sbjct: 124 QQKT 127
>1tzy_C Histone H3; histone-fold, tetramer-dimer-dimer, DNA binding
protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB:
1eqz_C 1hq3_C 2aro_C 2f8n_A 2hio_C 3av1_A 3lel_A 3afa_A
3azi_A 3azj_A 3azk_A 3azl_A 3azm_A 3azn_A 2cv5_A*
1u35_A* 2nqb_A 2io5_B 2pyo_A* 3c9k_C ...
Length = 136
Score = 125 bits (315), Expect = 6e-36
Identities = 118/119 (99%), Positives = 118/119 (99%)
Query: 45 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 104
MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 60
Query: 105 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRQT 163
LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR T
Sbjct: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVT 119
Score = 39.3 bits (90), Expect = 3e-04
Identities = 50/136 (36%), Positives = 68/136 (50%), Gaps = 11/136 (8%)
Query: 161 RQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPLLNKLLSGVTIAQGGRGKGGKAKTK 220
+QTARKSTGGKAPRKQLATKAARKSAPATGGVKKP + + +
Sbjct: 5 KQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYR----------PGTVALREIRR 54
Query: 221 SKTRSSRAGLQFPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLAAEVLELAGNAARD 279
+ + + P R+ R + + + R + A + L E + E A
Sbjct: 55 YQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIH 114
Query: 280 NKKTRIIPRHLQLAIR 295
K+ I+P+ +QLA R
Sbjct: 115 AKRVTIMPKDIQLARR 130
>2yfv_A Histone H3-like centromeric protein CSE4; cell cycle, kinetochore,
centromere, histone chaperone, BUDD; 2.32A
{Kluyveromyces lactis nrrl y-1140} PDB: 2yfw_A
Length = 100
Score = 108 bits (271), Expect = 8e-30
Identities = 52/86 (60%), Positives = 66/86 (76%), Gaps = 3/86 (3%)
Query: 81 KKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTD---LRFQSSAVMAL 137
+ RY+P +AL EIR+YQ+ST+LLI ++PF RLV+E+ F T+ LR+QS A+MAL
Sbjct: 2 ARGTRYKPTDLALAEIRKYQRSTDLLISRMPFARLVKEVTDQFTTESEPLRWQSMAIMAL 61
Query: 138 QEASEAYLVGLFEDTNLCAIHAKRQT 163
QEASEAYLVGL E TNL A+HAKR T
Sbjct: 62 QEASEAYLVGLLEHTNLLALHAKRIT 87
>2jss_A Chimera of histone H2B.1 and histone H2A.Z; histone/chaperone
complex, intrinsically unfolded protein,
chaperone/structural protein complex; NMR {Saccharomyces
cerevisiae} SCOP: a.22.1.1 a.22.1.1
Length = 192
Score = 109 bits (272), Expect = 5e-29
Identities = 73/212 (34%), Positives = 104/212 (49%), Gaps = 21/212 (9%)
Query: 108 RKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRQTARKS 167
RK + + ++ + D ++ L + + + A + K+ T
Sbjct: 1 RKETYSSYIYKVLKQTHPDTGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTISAR 60
Query: 168 TGGKAPRKQLATKAARKSAPATGGVKKPLLNKLLSGVTIAQGGRGKGGKAKTKSKTRSSR 227
A R L + A+ + + T++++ S+R
Sbjct: 61 EIQTAVRLILPGELAKHAVSEGTRAVTKYSSS-------------------TQAQSSSAR 101
Query: 228 AGLQFPVGRIHRLLRKGNYAER-VGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRII 286
AGLQFPVGRI R L++ VG+ A +YL AV+EYL AEVLELAGNAA+D K RI
Sbjct: 102 AGLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAAKDLKVKRIT 161
Query: 287 PRHLQLAIRNDEELNKLLSGVTIAQGGVLPNI 318
PRHLQLAIR D+EL+ L+ TIA GGVLP+I
Sbjct: 162 PRHLQLAIRGDDELDSLI-RATIASGGVLPHI 192
>2hue_B Histone H3; mini beta sheet, elongated beta sandwhich, DNA binding
prote; 1.70A {Xenopus laevis}
Length = 77
Score = 98.0 bits (244), Expect = 4e-26
Identities = 56/59 (94%), Positives = 56/59 (94%)
Query: 105 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRQT 163
LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLV LFEDTNLCAIHAKR T
Sbjct: 2 ALIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVT 60
>3nqu_A Histone H3-like centromeric protein A; alpha helix, histone fold,
centromere, DNA binding protein; 2.50A {Homo sapiens}
PDB: 3an2_A
Length = 140
Score = 98.8 bits (245), Expect = 1e-25
Identities = 53/118 (44%), Positives = 68/118 (57%), Gaps = 7/118 (5%)
Query: 52 ARKSTGGKAPRKQ----LATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLI 107
R+S +APR++ T + P+ G H R L+EIR+ QKST LLI
Sbjct: 4 RRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQH-SRRRQGWLKEIRKLQKSTHLLI 62
Query: 108 RKLPFQRLVREIAQDF--KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRQT 163
RKLPF RL REI F D +Q+ A++ALQEA+EA+LV LFED L +HA R T
Sbjct: 63 RKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVT 120
Score = 35.6 bits (81), Expect = 0.006
Identities = 8/36 (22%), Positives = 14/36 (38%), Gaps = 4/36 (11%)
Query: 164 ARKSTGGKAPRKQ----LATKAARKSAPATGGVKKP 195
R+S +APR++ T + P+ G
Sbjct: 4 RRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQ 39
>3r45_A Histone H3-like centromeric protein A; histone fold, centromere,
CENP-A, histone chaperone, hjurp; 2.60A {Homo sapiens}
Length = 156
Score = 97.0 bits (240), Expect = 1e-24
Identities = 56/136 (41%), Positives = 72/136 (52%), Gaps = 7/136 (5%)
Query: 34 GGVKKPHPSSSMARTKQTARKSTGGKAPRKQ----LATKAARKSAPATGGVKKPHRYRPG 89
G H S + R+S +APR++ T + P+ G H R
Sbjct: 2 GSSHHHHHHSQDPNSMGPRRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQHS-RRR 60
Query: 90 TVALREIRRYQKSTELLIRKLPFQRLVREIAQDF--KTDLRFQSSAVMALQEASEAYLVG 147
L+EIR+ QKST LLIRKLPF RL REI F D +Q+ A++ALQEA+EA+LV
Sbjct: 61 QGWLKEIRKLQKSTHLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVH 120
Query: 148 LFEDTNLCAIHAKRQT 163
LFED L +HA R T
Sbjct: 121 LFEDAYLLTLHAGRVT 136
Score = 34.6 bits (78), Expect = 0.017
Identities = 8/42 (19%), Positives = 14/42 (33%), Gaps = 4/42 (9%)
Query: 158 HAKRQTARKSTGGKAPRKQ----LATKAARKSAPATGGVKKP 195
R+S +APR++ T + P+ G
Sbjct: 14 PNSMGPRRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQ 55
>3nqj_A Histone H3-like centromeric protein A; alpha helix, histone fold,
centromere, DNA binding protein; 2.10A {Homo sapiens}
Length = 82
Score = 83.1 bits (205), Expect = 2e-20
Identities = 35/61 (57%), Positives = 42/61 (68%), Gaps = 2/61 (3%)
Query: 105 LLIRKLPFQRLVREIAQDFKT--DLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRQ 162
LLIRKLPF RL REI F D +Q+ A++ALQEA+EA+LV LFED L +HA R
Sbjct: 2 LLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRV 61
Query: 163 T 163
T
Sbjct: 62 T 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 = 85.1 bits (209), Expect = 2e-19
Identities = 52/151 (34%), Positives = 72/151 (47%), Gaps = 22/151 (14%)
Query: 96 IRRYQKSTELLIRKLPFQRLVREIAQDFKT---DLRFQSSAVMALQEASEAYLVGLFEDT 152
+ + +LLI K+PF RLV+E+ +F T DLR+QS A+MALQEASEAYLVGL E T
Sbjct: 1 MHHHHHHKKLLISKIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQEASEAYLVGLLEHT 60
Query: 153 NLCAIHAKRQTARKSTGGKAPR-------------------KQLATKAARKSAPATGGVK 193
NL A+HAKR T K A R + + + + +
Sbjct: 61 NLLALHAKRITIMKKDMQLARRIRGQFLVPRGSMERHKLADENMRKVWSNIISKYESIEE 120
Query: 194 KPLLNKLLSGVTIAQGGRGKGGKAKTKSKTR 224
+ L L +G + G K A +K +
Sbjct: 121 QGDLVDLKTGEIVEDNGHIKTLTANNSTKDK 151
>1jfi_A Transcription regulator NC2 alpha chain; histone, H2A/H2B,
tata-DNA, transcription initiation, NC2, negative
cofactor, structural genomics, PSI; 2.62A {Homo sapiens}
SCOP: a.22.1.3
Length = 98
Score = 79.2 bits (195), Expect = 8e-19
Identities = 14/77 (18%), Positives = 33/77 (42%)
Query: 223 TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 282
++ + +FP RI ++++ +V A PV ++ +E +L+ A +
Sbjct: 3 SKKKKYNARFPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNA 62
Query: 283 TRIIPRHLQLAIRNDEE 299
+ HL+ I + +
Sbjct: 63 KTMTTSHLKQCIELEGD 79
>1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens}
SCOP: a.22.1.3
Length = 97
Score = 51.1 bits (122), Expect = 1e-08
Identities = 15/70 (21%), Positives = 31/70 (44%)
Query: 231 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHL 290
+ P+ RI ++++ + + A APV A + E+ A DNK+ + +
Sbjct: 19 ELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDI 78
Query: 291 QLAIRNDEEL 300
+AI ++
Sbjct: 79 AMAITKFDQF 88
>3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator, disease
mutation, guanine-nucleotide releasing factor, signaling
protein; 3.18A {Homo sapiens} PDB: 1xd4_A 1xdv_A 1q9c_A
Length = 1049
Score = 54.8 bits (131), Expect = 2e-08
Identities = 26/84 (30%), Positives = 49/84 (58%), Gaps = 1/84 (1%)
Query: 217 AKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNA 276
A++ + R R L PV +IH LL++ ++ VY+ AV+EY++A++L+L GN
Sbjct: 90 AQSAIEKRKRRNPLSLPVEKIHPLLKEVL-GYKIDHQVSVYIVAVLEYISADILKLVGNY 148
Query: 277 ARDNKKTRIIPRHLQLAIRNDEEL 300
R+ + I + +++A+ D+ L
Sbjct: 149 VRNIRHYEITKQDIKVAMCADKVL 172
>2x4w_B Histone H3.2; transcription, metal-binding, zinc-finger,
chromatin regulator, transcription regulation; HET:
M3L; 1.50A {Homo sapiens} PDB: 2x4x_B* 2x4y_B*
Length = 26
Score = 37.2 bits (85), Expect = 2e-04
Identities = 20/21 (95%), Positives = 20/21 (95%)
Query: 67 TKAARKSAPATGGVKKPHRYR 87
TKAARKSAPATGGV KPHRYR
Sbjct: 1 TKAARKSAPATGGVXKPHRYR 21
Score = 31.8 bits (71), Expect = 0.015
Identities = 17/18 (94%), Positives = 17/18 (94%)
Query: 23 TKAARKSAPATGGVKKPH 40
TKAARKSAPATGGV KPH
Sbjct: 1 TKAARKSAPATGGVXKPH 18
Score = 29.5 bits (65), Expect = 0.12
Identities = 16/17 (94%), Positives = 16/17 (94%)
Query: 179 TKAARKSAPATGGVKKP 195
TKAARKSAPATGGV KP
Sbjct: 1 TKAARKSAPATGGVXKP 17
>2byk_A Chrac-16; nucleosome sliding, histone fold, DNA-binding protein;
2.4A {Drosophila melanogaster} SCOP: a.22.1.3 PDB:
2bym_A
Length = 140
Score = 37.8 bits (87), Expect = 0.001
Identities = 10/88 (11%), Positives = 23/88 (26%), Gaps = 1/88 (1%)
Query: 214 GGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELA 273
G R A P+ R+ +++ + + E + A
Sbjct: 2 GEPRSQPPVERPPTAETFLPLSRVRTIMKSSMDTGLITNEVLFLMTKCTELFVRHLAGAA 61
Query: 274 GNAARDNKKTRII-PRHLQLAIRNDEEL 300
+ + HL + ++ L
Sbjct: 62 YTEEFGQRPGEALKYEHLSQVVNKNKNL 89
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 37.1 bits (85), Expect = 0.008
Identities = 34/236 (14%), Positives = 57/236 (24%), Gaps = 62/236 (26%)
Query: 99 YQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAI- 157
+ E + ++ ++ F + + + + + I
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAFVDNFDCKD---------VQDMPKSILSKEEIDHII 55
Query: 158 ---HAKRQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPLLNKLLSGVTIAQGGRGKG 214
A T R L +K V + L+S I R
Sbjct: 56 MSKDAVSGTLRLFW-------TLLSKQEEMVQKFVEEVLRINYKFLMS--PIKTEQRQPS 106
Query: 215 GKAKTKSKTRSS--RAGLQFP---VGRIHRL--LRKGNY----AERV------GAGAPVY 257
+ + R F V R+ LR+ A+ V G+G
Sbjct: 107 MMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW- 165
Query: 258 LAAVMEYLAAEVLELAGNAARDNKKTRIIPRH---LQLAIRNDEE-----LNKLLS 305
+A +V K + L L N E L KLL
Sbjct: 166 -------VALDVC-------LSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY 207
Score = 36.0 bits (82), Expect = 0.020
Identities = 24/110 (21%), Positives = 39/110 (35%), Gaps = 43/110 (39%)
Query: 71 RKSAPATGGVKKPHRYRPGTVA--LREIRRYQKSTELLIRKLP-FQRLVREIAQDF---- 123
R + A G++ L++++ Y+ + P ++RLV I DF
Sbjct: 508 RHDSTAWNA--------SGSILNTLQQLKFYKP---YICDNDPKYERLVNAI-LDFLPKI 555
Query: 124 --------KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRQTAR 165
TDL + +AL EA FE+ A +Q R
Sbjct: 556 EENLICSKYTDL-LR----IALMAEDEAI----FEE-------AHKQVQR 589
Score = 32.9 bits (74), Expect = 0.17
Identities = 14/80 (17%), Positives = 27/80 (33%), Gaps = 6/80 (7%)
Query: 220 KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARD 279
+ K R ++ L + Y + P Y V L + L
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAIL--DFLPKIEENLIC 561
Query: 280 NKKTRIIPRHLQLAIRNDEE 299
+K T + L++A+ ++E
Sbjct: 562 SKYTDL----LRIALMAEDE 577
>3avr_B Histone H3; cupin superfamily, TRI/dimethyllysine demethylase,
oxidoredu structural protein complex; HET: M3L OGA EDO;
1.80A {Homo sapiens}
Length = 26
Score = 31.8 bits (71), Expect = 0.014
Identities = 21/22 (95%), Positives = 21/22 (95%)
Query: 18 RKQLATKAARKSAPATGGVKKP 39
RKQLATKAAR SAPATGGVKKP
Sbjct: 1 RKQLATKAARXSAPATGGVKKP 22
Score = 31.8 bits (71), Expect = 0.014
Identities = 21/22 (95%), Positives = 21/22 (95%)
Query: 62 RKQLATKAARKSAPATGGVKKP 83
RKQLATKAAR SAPATGGVKKP
Sbjct: 1 RKQLATKAARXSAPATGGVKKP 22
Score = 31.8 bits (71), Expect = 0.014
Identities = 21/22 (95%), Positives = 21/22 (95%)
Query: 174 RKQLATKAARKSAPATGGVKKP 195
RKQLATKAAR SAPATGGVKKP
Sbjct: 1 RKQLATKAARXSAPATGGVKKP 22
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 36.2 bits (83), Expect = 0.017
Identities = 33/178 (18%), Positives = 52/178 (29%), Gaps = 50/178 (28%)
Query: 131 SSAVMA-------LQEASEAYLVGLFEDTNLCAIHAKRQTARKSTGGKAPRKQLATKAAR 183
++ +A + + LF I + A P L
Sbjct: 279 TAVAIAETDSWESFFVSVRKAITVLF------FIGVRCYEA-------YPNTSLPPSILE 325
Query: 184 KSAPATGGVKKPLLNKLLSGVTIAQGGRGKGGKAKTKSKTRSSRAGLQFPVGR-IHRLLR 242
S GV P+L+ +S +T Q + + + L P G+ + L
Sbjct: 326 DSLENNEGVPSPMLS--ISNLTQEQ----------VQDYVNKTNSHL--PAGKQVEISLV 371
Query: 243 KG--NYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIP---RHLQLAIR 295
G N V +G P L + L L A IP R L+ + R
Sbjct: 372 NGAKNL---VVSGPPQSLYGL-------NLTLRKAKAPSGLDQSRIPFSERKLKFSNR 419
>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A
{Pyrococcus horikoshii} SCOP: a.22.1.2
Length = 70
Score = 27.0 bits (60), Expect = 2.2
Identities = 15/53 (28%), Positives = 21/53 (39%), Gaps = 5/53 (9%)
Query: 111 PFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRQT 163
P RL+R+ R A L E E Y + + + A HA R+T
Sbjct: 11 PVDRLIRK-----AGAERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKT 58
>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 = 27.7 bits (61), Expect = 2.3
Identities = 14/51 (27%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 113 QRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRQT 163
L E+A D + +F + A+ E + +D + A HAKR T
Sbjct: 34 GCLCEEVALDKEM--QFSKQTIAAISELTFRQCENFAKDLEMFARHAKRTT 82
>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 = 26.5 bits (59), Expect = 2.9
Identities = 10/36 (27%), Positives = 15/36 (41%)
Query: 128 RFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRQT 163
R A +AL + E + + A HA R+T
Sbjct: 19 RVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKT 54
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.2 bits (59), Expect = 4.5
Identities = 9/31 (29%), Positives = 10/31 (32%), Gaps = 13/31 (41%)
Query: 5 KQTARKSTGG-K--APRKQLATKAARKSAPA 32
KQ +K K A SAPA
Sbjct: 19 KQALKKLQASLKLYAD----------DSAPA 39
Score = 27.2 bits (59), Expect = 4.5
Identities = 9/31 (29%), Positives = 10/31 (32%), Gaps = 13/31 (41%)
Query: 49 KQTARKSTGG-K--APRKQLATKAARKSAPA 76
KQ +K K A SAPA
Sbjct: 19 KQALKKLQASLKLYAD----------DSAPA 39
>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 = 26.5 bits (58), Expect = 5.2
Identities = 10/48 (20%), Positives = 20/48 (41%), Gaps = 1/48 (2%)
Query: 116 VREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRQT 163
+++I + A +++ SE Y + D + HA R+T
Sbjct: 13 IKQIFSHY-VKTPVTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKT 59
>3v9r_A MHF1, uncharacterized protein YOL086W-A; histone fold, fanconi
anemia, DNA repair, DNA BI protein; 2.40A {Saccharomyces
cerevisiae}
Length = 90
Score = 26.1 bits (57), Expect = 6.0
Identities = 9/50 (18%), Positives = 20/50 (40%), Gaps = 2/50 (4%)
Query: 114 RLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRQT 163
++++ D+++ + +L E + L + D A HA R
Sbjct: 20 ERLQQVLSSE--DIKYTPRFINSLLELAYLQLGEMGSDLQAFARHAGRGV 67
>2y1q_A CLPC N-domain, negative regulator of genetic competence CLPC/MEC;
transcription, proteolysis; 1.50A {Bacillus subtilis}
PDB: 2y1r_A* 2k77_A
Length = 150
Score = 26.5 bits (59), Expect = 7.5
Identities = 9/34 (26%), Positives = 18/34 (52%)
Query: 266 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE 299
A +V+EL+ + AR + + H+ L + + E
Sbjct: 84 AKKVIELSMDEARKLGHSYVGTEHILLGLIREGE 117
>3b0b_B CENP-S, centromere protein S; histone fold, DNA binding, DNA,
nucleus, DNA binding protein; 2.15A {Gallus gallus}
Length = 107
Score = 26.1 bits (57), Expect = 8.2
Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 2/50 (4%)
Query: 114 RLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRQT 163
L +++A+D F V A+ E + D + A HAKR T
Sbjct: 27 CLCQDVAEDKGV--LFSKQTVAAISEITFRQCENFARDLEMFARHAKRST 74
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
0.314 0.128 0.348
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: 4,714,477
Number of extensions: 289903
Number of successful extensions: 475
Number of sequences better than 10.0: 1
Number of HSP's gapped: 449
Number of HSP's successfully gapped: 61
Length of query: 331
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 237
Effective length of database: 4,077,219
Effective search space: 966300903
Effective search space used: 966300903
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 57 (26.2 bits)