RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2783
(340 letters)
>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 = 122 bits (305), Expect = 2e-34
Identities = 120/122 (98%), Positives = 121/122 (99%)
Query: 110 KRTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIR 169
K+TARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIR
Sbjct: 5 KQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIR 64
Query: 170 KLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKD 229
KLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKD
Sbjct: 65 KLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKD 124
Query: 230 IH 231
I
Sbjct: 125 IQ 126
Score = 106 bits (264), Expect = 3e-28
Identities = 111/111 (100%), Positives = 111/111 (100%)
Query: 1 TARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKL 60
TARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKL
Sbjct: 7 TARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKL 66
Query: 61 PFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 111
PFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR
Sbjct: 67 PFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 117
Score = 89.0 bits (219), Expect = 8e-22
Identities = 89/89 (100%), Positives = 89/89 (100%)
Query: 252 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 311
MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 60
Query: 312 LLIRKLPFQRLVREIAQDFKTDLRFQSSA 340
LLIRKLPFQRLVREIAQDFKTDLRFQSSA
Sbjct: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSSA 89
>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 = 114 bits (286), Expect = 5e-32
Identities = 56/93 (60%), Positives = 72/93 (77%), Gaps = 3/93 (3%)
Query: 142 KKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTD---LRFQSSAVMAL 198
+ RY+P +AL EIR+YQ+ST+LLI ++PF RLV+E+ F T+ LR+QS A+MAL
Sbjct: 2 ARGTRYKPTDLALAEIRKYQRSTDLLISRMPFARLVKEVTDQFTTESEPLRWQSMAIMAL 61
Query: 199 QEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIH 231
QEASEAYLVGL E TNL A+HAKR+TIM KD+
Sbjct: 62 QEASEAYLVGLLEHTNLLALHAKRITIMRKDMQ 94
Score = 99.9 bits (248), Expect = 2e-26
Identities = 51/84 (60%), Positives = 65/84 (77%), Gaps = 3/84 (3%)
Query: 31 KKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTD---LRFQSSAVMAL 87
+ RY+P +AL EIR+YQ+ST+LLI ++PF RLV+E+ F T+ LR+QS A+MAL
Sbjct: 2 ARGTRYKPTDLALAEIRKYQRSTDLLISRMPFARLVKEVTDQFTTESEPLRWQSMAIMAL 61
Query: 88 QEASEAYLVGLFEDTNLCAIHAKR 111
QEASEAYLVGL E TNL A+HAKR
Sbjct: 62 QEASEAYLVGLLEHTNLLALHAKR 85
Score = 69.4 bits (169), Expect = 4e-15
Identities = 23/46 (50%), Positives = 34/46 (73%)
Query: 288 KKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTD 333
+ RY+P +AL EIR+YQ+ST+LLI ++PF RLV+E+ F T+
Sbjct: 2 ARGTRYKPTDLALAEIRKYQRSTDLLISRMPFARLVKEVTDQFTTE 47
>2hue_B Histone H3; mini beta sheet, elongated beta sandwhich, DNA binding
prote; 1.70A {Xenopus laevis}
Length = 77
Score = 109 bits (274), Expect = 2e-30
Identities = 63/66 (95%), Positives = 63/66 (95%)
Query: 166 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTI 225
LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLV LFEDTNLCAIHAKRVTI
Sbjct: 2 ALIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVTI 61
Query: 226 MPKDIH 231
MPKDI
Sbjct: 62 MPKDIQ 67
Score = 93.0 bits (231), Expect = 4e-24
Identities = 55/57 (96%), Positives = 55/57 (96%)
Query: 55 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 111
LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLV LFEDTNLCAIHAKR
Sbjct: 2 ALIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKR 58
Score = 54.9 bits (132), Expect = 3e-10
Identities = 28/29 (96%), Positives = 28/29 (96%)
Query: 312 LLIRKLPFQRLVREIAQDFKTDLRFQSSA 340
LIRKLPFQRLVREIAQDFKTDLRFQSSA
Sbjct: 2 ALIRKLPFQRLVREIAQDFKTDLRFQSSA 30
>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 = 109 bits (274), Expect = 9e-30
Identities = 57/125 (45%), Positives = 74/125 (59%), Gaps = 7/125 (5%)
Query: 113 ARKSTGGKAPRKQ----LATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLI 168
R+S +APR++ T + P+ G H R L+EIR+ QKST LLI
Sbjct: 4 RRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQH-SRRRQGWLKEIRKLQKSTHLLI 62
Query: 169 RKLPFQRLVREIAQDF--KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIM 226
RKLPF RL REI F D +Q+ A++ALQEA+EA+LV LFED L +HA RVT+
Sbjct: 63 RKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLF 122
Query: 227 PKDIH 231
PKD+
Sbjct: 123 PKDVQ 127
Score = 96.9 bits (240), Expect = 1e-24
Identities = 52/116 (44%), Positives = 67/116 (57%), Gaps = 7/116 (6%)
Query: 2 ARKSTGGKAPRKQ----LATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLI 57
R+S +APR++ T + P+ G H R L+EIR+ QKST LLI
Sbjct: 4 RRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQH-SRRRQGWLKEIRKLQKSTHLLI 62
Query: 58 RKLPFQRLVREIAQDF--KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 111
RKLPF RL REI F D +Q+ A++ALQEA+EA+LV LFED L +HA R
Sbjct: 63 RKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGR 118
Score = 73.0 bits (178), Expect = 6e-16
Identities = 34/86 (39%), Positives = 43/86 (50%), Gaps = 5/86 (5%)
Query: 259 ARKSTGGKAPRKQ----LATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLI 314
R+S +APR++ T + P+ G H R L+EIR+ QKST LLI
Sbjct: 4 RRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQH-SRRRQGWLKEIRKLQKSTHLLI 62
Query: 315 RKLPFQRLVREIAQDFKTDLRFQSSA 340
RKLPF RL REI F + F A
Sbjct: 63 RKLPFSRLAREICVKFTRGVDFNWQA 88
>3r45_A Histone H3-like centromeric protein A; histone fold, centromere,
CENP-A, histone chaperone, hjurp; 2.60A {Homo sapiens}
Length = 156
Score = 101 bits (251), Expect = 4e-26
Identities = 57/130 (43%), Positives = 76/130 (58%), Gaps = 7/130 (5%)
Query: 108 HAKRTARKSTGGKAPRKQ----LATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKS 163
++ R+S +APR++ T + P+ G H R L+EIR+ QKS
Sbjct: 15 NSMGPRRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQHS-RRRQGWLKEIRKLQKS 73
Query: 164 TELLIRKLPFQRLVREIAQDF--KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAK 221
T LLIRKLPF RL REI F D +Q+ A++ALQEA+EA+LV LFED L +HA
Sbjct: 74 THLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAG 133
Query: 222 RVTIMPKDIH 231
RVT+ PKD+
Sbjct: 134 RVTLFPKDVQ 143
Score = 87.0 bits (214), Expect = 6e-21
Identities = 52/117 (44%), Positives = 67/117 (57%), Gaps = 7/117 (5%)
Query: 1 TARKSTGGKAPRKQ----LATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELL 56
R+S +APR++ T + P+ G H R L+EIR+ QKST LL
Sbjct: 19 PRRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQHS-RRRQGWLKEIRKLQKSTHLL 77
Query: 57 IRKLPFQRLVREIAQDF--KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 111
IRKLPF RL REI F D +Q+ A++ALQEA+EA+LV LFED L +HA R
Sbjct: 78 IRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGR 134
Score = 72.7 bits (177), Expect = 9e-16
Identities = 36/97 (37%), Positives = 47/97 (48%), Gaps = 5/97 (5%)
Query: 248 HNSTMARTKQTARKSTGGKAPRKQ----LATKAARKSAPATGGVKKPHRYRPGTVALREI 303
H+S + R+S +APR++ T + P+ G H R L+EI
Sbjct: 9 HHSQDPNSMGPRRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQHS-RRRQGWLKEI 67
Query: 304 RRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSA 340
R+ QKST LLIRKLPF RL REI F + F A
Sbjct: 68 RKLQKSTHLLIRKLPFSRLAREICVKFTRGVDFNWQA 104
>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 = 100 bits (249), Expect = 5e-25
Identities = 55/187 (29%), Positives = 81/187 (43%), Gaps = 7/187 (3%)
Query: 157 IRRYQKSTELLIRKLPFQRLVREIAQDFKT---DLRFQSSAVMALQEASEAYLVGLFEDT 213
+ + +LLI K+PF RLV+E+ +F T DLR+QS A+MALQEASEAYLVGL E T
Sbjct: 1 MHHHHHHKKLLISKIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQEASEAYLVGLLEHT 60
Query: 214 NLCAIHAKRVTIMPKDIHWPSQWCDNLTECSTWQHNSTMARTKQTARKSTGGKAPRKQLA 273
NL A+HAKR+TIM KD+ + + RK + +
Sbjct: 61 NLLALHAKRITIMKKDMQLARRIRGQF--LVPRGSMERHKLADENMRKVWSNIISKYESI 118
Query: 274 TKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTD 333
+ TG + + + + A + + ++R + E D
Sbjct: 119 EEQGDLVDLKTGEIVEDNGHIKTLTANNSTKDKRTKYTSVLRD--IIDISDEEDGDKGGV 176
Query: 334 LRFQSSA 340
R
Sbjct: 177 KRISGLI 183
Score = 97.8 bits (242), Expect = 5e-24
Identities = 58/221 (26%), Positives = 89/221 (40%), Gaps = 38/221 (17%)
Query: 46 IRRYQKSTELLIRKLPFQRLVREIAQDFKT---DLRFQSSAVMALQEASEAYLVGLFEDT 102
+ + +LLI K+PF RLV+E+ +F T DLR+QS A+MALQEASEAYLVGL E T
Sbjct: 1 MHHHHHHKKLLISKIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQEASEAYLVGLLEHT 60
Query: 103 NLCAIHAKRT---------------------------------ARKSTGGKAPRKQLATK 129
NL A+HAKR RK + + +
Sbjct: 61 NLLALHAKRITIMKKDMQLARRIRGQFLVPRGSMERHKLADENMRKVWSNIISKYESIEE 120
Query: 130 AARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLR 189
TG + + + + A + + ++R + E D R
Sbjct: 121 QGDLVDLKTGEIVEDNGHIKTLTANNSTKDKRTKYTSVLRD--IIDISDEEDGDKGGVKR 178
Query: 190 FQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDI 230
++ +++L + D+ HAKR T+ D+
Sbjct: 179 ISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDV 219
>3nqj_A Histone H3-like centromeric protein A; alpha helix, histone fold,
centromere, DNA binding protein; 2.10A {Homo sapiens}
Length = 82
Score = 95.1 bits (236), Expect = 8e-25
Identities = 39/68 (57%), Positives = 48/68 (70%), Gaps = 2/68 (2%)
Query: 166 LLIRKLPFQRLVREIAQDFKT--DLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRV 223
LLIRKLPF RL REI F D +Q+ A++ALQEA+EA+LV LFED L +HA RV
Sbjct: 2 LLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRV 61
Query: 224 TIMPKDIH 231
T+ PKD+
Sbjct: 62 TLFPKDVQ 69
Score = 78.5 bits (193), Expect = 1e-18
Identities = 34/59 (57%), Positives = 41/59 (69%), Gaps = 2/59 (3%)
Query: 55 LLIRKLPFQRLVREIAQDFKT--DLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 111
LLIRKLPF RL REI F D +Q+ A++ALQEA+EA+LV LFED L +HA R
Sbjct: 2 LLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGR 60
Score = 46.9 bits (111), Expect = 2e-07
Identities = 16/29 (55%), Positives = 17/29 (58%)
Query: 312 LLIRKLPFQRLVREIAQDFKTDLRFQSSA 340
LLIRKLPF RL REI F + F A
Sbjct: 2 LLIRKLPFSRLAREICVKFTRGVDFNWQA 30
>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 = 48.7 bits (115), Expect = 2e-06
Identities = 55/384 (14%), Positives = 100/384 (26%), Gaps = 104/384 (27%)
Query: 13 KQ-LATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQ 71
K +A K + ++ S E ++ L Q+L+ +I
Sbjct: 163 KTWVALDVCLS--------YKVQCKMDFKIFWLNLKNCN-SPETVLEML--QKLLYQIDP 211
Query: 72 DFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCA-------IHAKRTARKSTGGKAPRK 124
++ T SS + + +A L L + + + K
Sbjct: 212 NW-TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC---K 267
Query: 125 QLATKAARKSAPATGGVKKPHRYRPGTVALREIRR---YQKSTELLIRKL--PFQRLVRE 179
L T ++ H ++L + LL++ L Q L RE
Sbjct: 268 ILLTTRFKQVTDFLSAATTTH------ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE 321
Query: 180 -----------IAQDFKTDL----RFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVT 224
IA+ + L ++ L E+ L L + R++
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVL--EPAEYRKMFDRLS 379
Query: 225 IMPKDIHWPSQ-----WCDNLTECSTWQHNSTMARTKQTARKSTGGKAPRK--------Q 271
+ P H P+ W D + M + + S K P++
Sbjct: 380 VFPPSAHIPTILLSLIWFDVIKSD-------VMVVVNKLHKYSLVEKQPKESTISIPSIY 432
Query: 272 LATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLP--------FQRLV 323
L K ++ A HR + Y L + +
Sbjct: 433 LELKVKLENEYAL------HR--------SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIG 478
Query: 324 R-----EIAQDFK------TDLRF 336
E + D RF
Sbjct: 479 HHLKNIEHPERMTLFRMVFLDFRF 502
Score = 35.2 bits (80), Expect = 0.029
Identities = 39/318 (12%), Positives = 86/318 (27%), Gaps = 88/318 (27%)
Query: 49 YQKSTELLIRKLPFQRLVREIAQDFKTDLRFQ----------SSAVM--ALQEASEA--- 93
+ E + ++ ++ F + + S + +
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGT 64
Query: 94 -YLVGLFEDTNLCAIHAKRTARKSTGG--KAPRKQLATKAARKSAPATGGVKKPHRYRPG 150
L + +K + K L + + ++P
Sbjct: 65 LRLFWTLLSKQ------EEMVQKFVEEVLRINYKFLMSPIKTEQ-------RQPSMMTRM 111
Query: 151 TVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGL- 209
+ R+ R ++ K RL + + LR A++ L+ A + G+
Sbjct: 112 YIEQRD--RLYNDNQVF-AKYNVSRL-QPYLK-----LR---QALLELRPAKNVLIDGVL 159
Query: 210 -FEDTNLCAIHA----KRVTIMPKDIHWPSQWCDNLTECSTWQHNSTMARTKQTARKSTG 264
T + A+ K M I W NL C++ + + ++ +
Sbjct: 160 GSGKTWV-ALDVCLSYKVQCKMDFKIFWL-----NLKNCNS--PETVLEMLQKLLYQID- 210
Query: 265 GKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREI---RRYQKSTELLIRKLPFQR 321
+++ S R LR + + Y+ LL+
Sbjct: 211 -----PNWTSRSDHSSNI-------KLRIHSIQAELRRLLKSKPYENC--LLV------- 249
Query: 322 L--VR--EIAQDFKTDLR 335
L V+ + F +L
Sbjct: 250 LLNVQNAKAWNAF--NLS 265
>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 = 39.9 bits (92), Expect = 2e-05
Identities = 20/21 (95%), Positives = 20/21 (95%)
Query: 17 TKAARKSAPATGGVKKPHRYR 37
TKAARKSAPATGGV KPHRYR
Sbjct: 1 TKAARKSAPATGGVXKPHRYR 21
Score = 39.9 bits (92), Expect = 2e-05
Identities = 20/21 (95%), Positives = 20/21 (95%)
Query: 128 TKAARKSAPATGGVKKPHRYR 148
TKAARKSAPATGGV KPHRYR
Sbjct: 1 TKAARKSAPATGGVXKPHRYR 21
Score = 39.9 bits (92), Expect = 2e-05
Identities = 20/21 (95%), Positives = 20/21 (95%)
Query: 274 TKAARKSAPATGGVKKPHRYR 294
TKAARKSAPATGGV KPHRYR
Sbjct: 1 TKAARKSAPATGGVXKPHRYR 21
>3avr_B Histone H3; cupin superfamily, TRI/dimethyllysine demethylase,
oxidoredu structural protein complex; HET: M3L OGA EDO;
1.80A {Homo sapiens}
Length = 26
Score = 36.0 bits (82), Expect = 5e-04
Identities = 21/22 (95%), Positives = 21/22 (95%)
Query: 12 RKQLATKAARKSAPATGGVKKP 33
RKQLATKAAR SAPATGGVKKP
Sbjct: 1 RKQLATKAARXSAPATGGVKKP 22
Score = 36.0 bits (82), Expect = 5e-04
Identities = 21/22 (95%), Positives = 21/22 (95%)
Query: 123 RKQLATKAARKSAPATGGVKKP 144
RKQLATKAAR SAPATGGVKKP
Sbjct: 1 RKQLATKAARXSAPATGGVKKP 22
Score = 36.0 bits (82), Expect = 5e-04
Identities = 21/22 (95%), Positives = 21/22 (95%)
Query: 269 RKQLATKAARKSAPATGGVKKP 290
RKQLATKAAR SAPATGGVKKP
Sbjct: 1 RKQLATKAARXSAPATGGVKKP 22
>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A
{Pyrococcus horikoshii} SCOP: a.22.1.2
Length = 70
Score = 33.1 bits (76), Expect = 0.015
Identities = 17/61 (27%), Positives = 24/61 (39%), Gaps = 5/61 (8%)
Query: 172 PFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIH 231
P RL+R+ R A L E E Y + + + A HA R T+ +DI
Sbjct: 11 PVDRLIRK-----AGAERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIK 65
Query: 232 W 232
Sbjct: 66 L 66
>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 = 32.7 bits (75), Expect = 0.017
Identities = 15/61 (24%), Positives = 23/61 (37%), Gaps = 5/61 (8%)
Query: 172 PFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIH 231
P R+++ R A +AL + E + + A HA R TI +DI
Sbjct: 7 PIGRIIKN-----AGAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIE 61
Query: 232 W 232
Sbjct: 62 L 62
>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 = 32.0 bits (72), Expect = 0.076
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 2/57 (3%)
Query: 174 QRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDI 230
L E+A D + +F + A+ E + +D + A HAKR TI +D+
Sbjct: 34 GCLCEEVALDKEM--QFSKQTIAAISELTFRQCENFAKDLEMFARHAKRTTINTEDV 88
>3v9r_A MHF1, uncharacterized protein YOL086W-A; histone fold, fanconi
anemia, DNA repair, DNA BI protein; 2.40A {Saccharomyces
cerevisiae}
Length = 90
Score = 30.7 bits (69), Expect = 0.14
Identities = 10/56 (17%), Positives = 23/56 (41%), Gaps = 2/56 (3%)
Query: 175 RLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDI 230
++++ D+++ + +L E + L + D A HA R + D+
Sbjct: 20 ERLQQVLSSE--DIKYTPRFINSLLELAYLQLGEMGSDLQAFARHAGRGVVNKSDL 73
>3b0b_B CENP-S, centromere protein S; histone fold, DNA binding, DNA,
nucleus, DNA binding protein; 2.15A {Gallus gallus}
Length = 107
Score = 30.8 bits (69), Expect = 0.19
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 175 RLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDI 230
L +++A+D F V A+ E + D + A HAKR TI +D+
Sbjct: 27 CLCQDVAEDKGV--LFSKQTVAAISEITFRQCENFARDLEMFARHAKRSTITSEDV 80
>1n1j_A NF-YB; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens}
SCOP: a.22.1.3
Length = 93
Score = 30.2 bits (68), Expect = 0.24
Identities = 12/65 (18%), Positives = 23/65 (35%)
Query: 169 RKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPK 228
LP + R + + A +QE ++ + + + KR TI +
Sbjct: 7 IYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGE 66
Query: 229 DIHWP 233
DI +
Sbjct: 67 DILFA 71
>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 = 30.3 bits (68), Expect = 0.26
Identities = 11/54 (20%), Positives = 22/54 (40%), Gaps = 1/54 (1%)
Query: 177 VREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDI 230
+++I + A +++ SE Y + D + HA R T+ D+
Sbjct: 13 IKQIFSHY-VKTPVTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADV 65
>3ebh_A PFA-M1, M1 family aminopeptidase; hydrolase, metal-binding,
metalloprotease, P hydrolase inhibitor; HET: BES; 1.65A
{Plasmodium falciparum} PDB: 3ebg_A* 3ebi_A* 3q43_A*
3q44_A* 3t8v_A*
Length = 889
Score = 31.4 bits (71), Expect = 0.54
Identities = 11/99 (11%), Positives = 28/99 (28%), Gaps = 5/99 (5%)
Query: 62 FQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRTARKSTGGKA 121
F ++ + +D D F+S + + Y++ + + + + G
Sbjct: 608 FIDAIKYLLEDPHADAGFKS---YIVSLPQDRYIINFVSNLDTDVLADTKEYIYKQIGDK 664
Query: 122 PRKQLAT--KAARKSAPATGGVKKPHRYRPGTVALREIR 158
K+ A + +R +R
Sbjct: 665 LNDVYYKMFKSLEAKADDLTYFNDESHVDFDQMNMRTLR 703
>3vh5_A CENP-S; histone fold, chromosome segregation, DNA binding, nucleus,
binding protein; 2.40A {Gallus gallus} PDB: 3vh6_A
Length = 140
Score = 29.4 bits (65), Expect = 0.86
Identities = 21/104 (20%), Positives = 42/104 (40%), Gaps = 2/104 (1%)
Query: 174 QRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIHWP 233
L +++A+D + F V A+ E + D + A HAKR TI +D+
Sbjct: 26 GALAQDVAEDK--GVLFSKQTVAAISEITFRQAENFARDLEMFARHAKRSTITSEDVKLL 83
Query: 234 SQWCDNLTECSTWQHNSTMARTKQTARKSTGGKAPRKQLATKAA 277
++ ++L + T + + + + K + K T+
Sbjct: 84 ARRSNSLLKYITQKSDELASSNMEQKEKKKKKSSAAKGRKTEEN 127
>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 = 28.0 bits (61), Expect = 2.9
Identities = 9/31 (29%), Positives = 10/31 (32%), Gaps = 13/31 (41%)
Query: 256 KQTARKSTGG-K--APRKQLATKAARKSAPA 283
KQ +K K A SAPA
Sbjct: 19 KQALKKLQASLKLYAD----------DSAPA 39
>2byk_B Chrac-14; nucleosome sliding, histone fold, DNA-binding protein;
2.4A {Drosophila melanogaster} SCOP: a.22.1.3 PDB:
2bym_B
Length = 128
Score = 27.6 bits (61), Expect = 3.2
Identities = 13/65 (20%), Positives = 21/65 (32%)
Query: 169 RKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPK 228
LP + R I + A A+ A+ + + + + A TI K
Sbjct: 8 LNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAK 67
Query: 229 DIHWP 233
DI
Sbjct: 68 DILQT 72
>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 = 26.7 bits (59), Expect = 4.0
Identities = 9/42 (21%), Positives = 15/42 (35%)
Query: 189 RFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDI 230
R + + +L + D HAKR T+ D+
Sbjct: 27 RISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDV 68
>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 = 26.9 bits (59), Expect = 4.3
Identities = 15/73 (20%), Positives = 24/73 (32%), Gaps = 5/73 (6%)
Query: 158 RRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCA 217
R+ + I K +RL R R + + +L + D
Sbjct: 20 RKVLRDNIQGITKPAIRRLARRGGVK-----RISGLIYEETRGVLKVFLENVIRDAVTYT 74
Query: 218 IHAKRVTIMPKDI 230
HAKR T+ D+
Sbjct: 75 EHAKRKTVTAMDV 87
>1jfi_B DR1 protein, transcription regulator NC2 beta chain; histone,
H2A/H2B, tata-DNA, transcription initiation, NC2,
negative cofactor, structural genomics, PSI; 2.62A {Homo
sapiens} SCOP: a.22.1.3
Length = 179
Score = 27.1 bits (59), Expect = 6.0
Identities = 7/65 (10%), Positives = 26/65 (40%), Gaps = 1/65 (1%)
Query: 169 RKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPK 228
+P + + + ++ ++R + A + ++ + + N +++ TI P+
Sbjct: 14 LTIPRAAINK-MIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPE 72
Query: 229 DIHWP 233
+
Sbjct: 73 HVIQA 77
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
0.319 0.130 0.372
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: 5,037,951
Number of extensions: 299383
Number of successful extensions: 587
Number of sequences better than 10.0: 1
Number of HSP's gapped: 559
Number of HSP's successfully gapped: 51
Length of query: 340
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 246
Effective length of database: 4,077,219
Effective search space: 1002995874
Effective search space used: 1002995874
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: 58 (26.6 bits)