RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3827
(581 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 = 190 bits (483), Expect = 2e-58
Identities = 136/136 (100%), Positives = 136/136 (100%)
Query: 446 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 505
MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 60
Query: 506 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTI 565
LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTI
Sbjct: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTI 120
Query: 566 MPKDIQLARRIRGERA 581
MPKDIQLARRIRGERA
Sbjct: 121 MPKDIQLARRIRGERA 136
Score = 34.6 bits (78), Expect = 0.024
Identities = 17/79 (21%), Positives = 33/79 (41%), Gaps = 2/79 (2%)
Query: 234 KKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRST 293
+ RK + + ++ + D S A+ + + +++ A + KR T
Sbjct: 60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVT 119
Query: 294 ITSREIQTAVRLLLPGELA 312
I ++IQ A R+ GE A
Sbjct: 120 IMPKDIQLARRIR--GERA 136
>2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D*
Length = 123
Score = 182 bits (464), Expect = 1e-55
Identities = 111/120 (92%), Positives = 116/120 (96%)
Query: 211 KSSGKAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSF 270
K+SGKA KKAGKAQKNI K+DKKKK +RKESYAIYIY VLKQVHPDTG+SSKAMSIMNSF
Sbjct: 4 KTSGKAAKKAGKAQKNITKTDKKKKRKRKESYAIYIYTVLKQVHPDTGISSKAMSIMNSF 63
Query: 271 VNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSK 330
VNDIFERIAAE+SRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSK
Sbjct: 64 VNDIFERIAAEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSK 123
>1tzy_B Histone H2B; histone-fold, tetramer-dimer-dimer, DNA binding
protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB:
1eqz_B 1hq3_B 2aro_B 2hio_B 3c9k_B 3azg_D 3a6n_D 3an2_D
3av1_D 3av2_D 3ayw_D 3aze_D 3azf_D 3afa_D 3azh_D 3azi_D
3azj_D 3azk_D 3azl_D 3azm_D ...
Length = 126
Score = 167 bits (424), Expect = 7e-50
Identities = 98/122 (80%), Positives = 103/122 (84%), Gaps = 2/122 (1%)
Query: 211 KSSGKAVKKAGK--AQKNIAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMN 268
S A KK K K K DKK+K RKESY+IY+YKVLKQVHPDTG+SSKAM IMN
Sbjct: 5 AKSAPAPKKGSKKAVTKTQKKGDKKRKKSRKESYSIYVYKVLKQVHPDTGISSKAMGIMN 64
Query: 269 SFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTS 328
SFVNDIFERIA E+SRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTS
Sbjct: 65 SFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTS 124
Query: 329 SK 330
SK
Sbjct: 125 SK 126
>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 = 161 bits (409), Expect = 1e-47
Identities = 66/142 (46%), Positives = 83/142 (58%), Gaps = 11/142 (7%)
Query: 446 MARTKQTARKSTGGKAPRKQ----LATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQ 501
M R+S +APR++ T + P+ G H R L+EIR+ Q
Sbjct: 1 MGP----RRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQH-SRRRQGWLKEIRKLQ 55
Query: 502 KSTELLIRKLPFQRLVREIAQDF--KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIH 559
KST LLIRKLPF RL REI F D +Q+ A++ALQEA+EA+LV LFED L +H
Sbjct: 56 KSTHLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLH 115
Query: 560 AKRVTIMPKDIQLARRIRGERA 581
A RVT+ PKD+QLARRIRG
Sbjct: 116 AGRVTLFPKDVQLARRIRGLEE 137
Score = 28.3 bits (62), Expect = 3.8
Identities = 16/122 (13%), Positives = 39/122 (31%), Gaps = 23/122 (18%)
Query: 208 AAGKSSGKAVKKAGKAQKNIAKSDKKKKHRR------------KESYAIYIYKVLKQ--- 252
A + S G +++ + +H R ++S + I K+
Sbjct: 12 APRRRSPSPTPTPGPSRRGPSLGASSHQHSRRRQGWLKEIRKLQKSTHLLIRKLPFSRLA 71
Query: 253 --------VHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 304
D ++A+ + + ++ L + R T+ +++Q A R
Sbjct: 72 REICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARR 131
Query: 305 LL 306
+
Sbjct: 132 IR 133
>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 = 159 bits (404), Expect = 6e-47
Identities = 104/114 (91%), Positives = 110/114 (96%), Gaps = 1/114 (0%)
Query: 1 MSGRGK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 59
MSGRGK GGKA+AK+K+RSSRAGLQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL
Sbjct: 1 MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLT 60
Query: 60 AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA 113
AE+LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL VTIAQGGVLPNIQA
Sbjct: 61 AEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQA 114
>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 = 160 bits (406), Expect = 6e-47
Identities = 104/114 (91%), Positives = 110/114 (96%), Gaps = 1/114 (0%)
Query: 1 MSGRGK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 59
MSGRGK GGKA+AK+KTRSSRAGLQFPVGR+HRLLRKGNY+ERVGAGAPVYLAAV+EYL
Sbjct: 20 MSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLT 79
Query: 60 AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA 113
AE+LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL VTIAQGGVLPNIQA
Sbjct: 80 AEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQA 133
>3r45_A Histone H3-like centromeric protein A; histone fold, centromere,
CENP-A, histone chaperone, hjurp; 2.60A {Homo sapiens}
Length = 156
Score = 160 bits (404), Expect = 1e-46
Identities = 65/143 (45%), Positives = 83/143 (58%), Gaps = 7/143 (4%)
Query: 445 TMARTKQTARKSTGGKAPRKQ----LATKAARKSAPATGGVKKPHRYRPGTVALREIRRY 500
+ R+S +APR++ T + P+ G H R L+EIR+
Sbjct: 12 QDPNSMGPRRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQHS-RRRQGWLKEIRKL 70
Query: 501 QKSTELLIRKLPFQRLVREIAQDF--KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAI 558
QKST LLIRKLPF RL REI F D +Q+ A++ALQEA+EA+LV LFED L +
Sbjct: 71 QKSTHLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTL 130
Query: 559 HAKRVTIMPKDIQLARRIRGERA 581
HA RVT+ PKD+QLARRIRG
Sbjct: 131 HAGRVTLFPKDVQLARRIRGLEE 153
>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C*
Length = 123
Score = 156 bits (396), Expect = 7e-46
Identities = 107/112 (95%), Positives = 110/112 (98%)
Query: 2 SGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE 61
SGRGKGGK K K+K+RS+RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE
Sbjct: 1 SGRGKGGKVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE 60
Query: 62 VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA 113
VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA
Sbjct: 61 VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA 112
>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 = 156 bits (394), Expect = 7e-46
Identities = 63/99 (63%), Positives = 79/99 (79%), Gaps = 3/99 (3%)
Query: 482 KKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTD---LRFQSSAVMAL 538
+ RY+P +AL EIR+YQ+ST+LLI ++PF RLV+E+ F T+ LR+QS A+MAL
Sbjct: 2 ARGTRYKPTDLALAEIRKYQRSTDLLISRMPFARLVKEVTDQFTTESEPLRWQSMAIMAL 61
Query: 539 QEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIR 577
QEASEAYLVGL E TNL A+HAKR+TIM KD+QLARRIR
Sbjct: 62 QEASEAYLVGLLEHTNLLALHAKRITIMRKDMQLARRIR 100
>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 = 150 bits (380), Expect = 1e-43
Identities = 72/113 (63%), Positives = 89/113 (78%), Gaps = 2/113 (1%)
Query: 1 MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
MS RG GK K+ +RS++AG+ FPVGR+ R ++KG+ R+G GAPVY+AAV+EYL A
Sbjct: 1 MSSRG--GKKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTA 58
Query: 61 EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA 113
E+LELA NAARDNKK R+ PRH+ LA+ NDEELN+LL GVTIA GGVLPNI
Sbjct: 59 EILELAVNAARDNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHP 111
>2hue_B Histone H3; mini beta sheet, elongated beta sandwhich, DNA binding
prote; 1.70A {Xenopus laevis}
Length = 77
Score = 146 bits (369), Expect = 2e-42
Identities = 74/76 (97%), Positives = 74/76 (97%)
Query: 506 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTI 565
LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLV LFEDTNLCAIHAKRVTI
Sbjct: 2 ALIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVTI 61
Query: 566 MPKDIQLARRIRGERA 581
MPKDIQLARRIRGERA
Sbjct: 62 MPKDIQLARRIRGERA 77
>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 = 143 bits (360), Expect = 1e-40
Identities = 87/113 (76%), Positives = 100/113 (88%), Gaps = 1/113 (0%)
Query: 2 SGRG-KGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 60
G+G K G A S++RS++AGL FPVGR+HRLLR+GNYA+R+G+GAPVYL AV+EYLAA
Sbjct: 2 GGKGGKAGSAAKASQSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLAA 61
Query: 61 EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA 113
E+LELAGNAARDNKKTRIIPRHLQLAIRND+ELNKLL VTIAQGGVLPNI
Sbjct: 62 EILELAGNAARDNKKTRIIPRHLQLAIRNDDELNKLLGNVTIAQGGVLPNIHQ 114
>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 = 132 bits (333), Expect = 6e-37
Identities = 71/117 (60%), Positives = 84/117 (71%), Gaps = 5/117 (4%)
Query: 1 MSGRGKG---GKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAER-VGAGAPVYLAAVME 56
M+G G GKAK K+ +RS RAGLQFPVGRIHR L+ + VGA A VY AA++E
Sbjct: 1 MAGGKAGKDSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILE 60
Query: 57 YLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA 113
YL AEVLELAGNA++D K RI PRHLQLAIR DEEL+ L+ TIA GGV+P+I
Sbjct: 61 YLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI-KATIAGGGVIPHIHK 116
>3nqj_A Histone H3-like centromeric protein A; alpha helix, histone fold,
centromere, DNA binding protein; 2.10A {Homo sapiens}
Length = 82
Score = 126 bits (317), Expect = 4e-35
Identities = 47/77 (61%), Positives = 56/77 (72%), Gaps = 2/77 (2%)
Query: 506 LLIRKLPFQRLVREIAQDFKT--DLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRV 563
LLIRKLPF RL REI F D +Q+ A++ALQEA+EA+LV LFED L +HA RV
Sbjct: 2 LLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRV 61
Query: 564 TIMPKDIQLARRIRGER 580
T+ PKD+QLARRIRG
Sbjct: 62 TLFPKDVQLARRIRGLE 78
>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 = 119 bits (299), Expect = 2e-31
Identities = 74/95 (77%), Positives = 87/95 (91%)
Query: 238 RKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSR 297
RKE+Y+ YIYKVLKQ HPDTG+S K+MSI+NSFVNDIFERIA E+S+LA YNK+STI++R
Sbjct: 1 RKETYSSYIYKVLKQTHPDTGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTISAR 60
Query: 298 EIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSKCR 332
EIQTAVRL+LPGELAKHAVSEGT+AVTKY+SS
Sbjct: 61 EIQTAVRLILPGELAKHAVSEGTRAVTKYSSSTQA 95
Score = 106 bits (264), Expect = 1e-26
Identities = 61/100 (61%), Positives = 76/100 (76%), Gaps = 2/100 (2%)
Query: 13 KSKTRSSRAGLQFPVGRIHRLLRKGNYAER-VGAGAPVYLAAVMEYLAAEVLELAGNAAR 71
++++ S+RAGLQFPVGRI R L++ VG+ A +YL AV+EYL AEVLELAGNAA+
Sbjct: 94 QAQSSSARAGLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAAK 153
Query: 72 DNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNI 111
D K RI PRHLQLAIR D+EL+ L+ TIA GGVLP+I
Sbjct: 154 DLKVKRITPRHLQLAIRGDDELDSLI-RATIASGGVLPHI 192
>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 = 117 bits (293), Expect = 4e-30
Identities = 54/88 (61%), Positives = 67/88 (76%), Gaps = 3/88 (3%)
Query: 497 IRRYQKSTELLIRKLPFQRLVREIAQDFKT---DLRFQSSAVMALQEASEAYLVGLFEDT 553
+ + +LLI K+PF RLV+E+ +F T DLR+QS A+MALQEASEAYLVGL E T
Sbjct: 1 MHHHHHHKKLLISKIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQEASEAYLVGLLEHT 60
Query: 554 NLCAIHAKRVTIMPKDIQLARRIRGERA 581
NL A+HAKR+TIM KD+QLARRIRG+
Sbjct: 61 NLLALHAKRITIMKKDMQLARRIRGQFL 88
Score = 51.9 bits (123), Expect = 1e-07
Identities = 20/141 (14%), Positives = 46/141 (32%), Gaps = 2/141 (1%)
Query: 438 SSDGELDTMARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREI 497
G ++ + RK + + + TG + + + + A
Sbjct: 89 VPRGSMERHKLADENMRKVWSNIISKYESIEEQGDLVDLKTGEIVEDNGHIKTLTANNST 148
Query: 498 RRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCA 557
+ + ++R + E D R ++ +++L + D+
Sbjct: 149 KDKRTKYTSVLRD--IIDISDEEDGDKGGVKRISGLIYEEVRAVLKSFLESVIRDSVTYT 206
Query: 558 IHAKRVTIMPKDIQLARRIRG 578
HAKR T+ D+ A + +G
Sbjct: 207 EHAKRKTVTSLDVVYALKRQG 227
Score = 44.6 bits (104), Expect = 4e-05
Identities = 19/109 (17%), Positives = 39/109 (35%), Gaps = 4/109 (3%)
Query: 200 ESLSSLTTAAGKSSGKAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKV----LKQVHP 255
ES+ +G+ V+ G + A + K K + S I +
Sbjct: 116 ESIEEQGDLVDLKTGEIVEDNGHIKTLTANNSTKDKRTKYTSVLRDIIDISDEEDGDKGG 175
Query: 256 DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 304
+S + + + E + +S + KR T+TS ++ A++
Sbjct: 176 VKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALK 224
Score = 30.0 bits (66), Expect = 2.0
Identities = 16/107 (14%), Positives = 35/107 (32%), Gaps = 2/107 (1%)
Query: 20 RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRII 79
+ V + + R + A + L E +LE A K+ I+
Sbjct: 14 KIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKRITIM 73
Query: 80 PRHLQLA--IRNDEELNKLLSGVTIAQGGVLPNIQAGAALTFERVDD 124
+ +QLA IR + + + + + +E +++
Sbjct: 74 KKDMQLARRIRGQFLVPRGSMERHKLADENMRKVWSNIISKYESIEE 120
>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 = 86.1 bits (213), Expect = 1e-20
Identities = 14/77 (18%), Positives = 33/77 (42%)
Query: 16 TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 75
++ + +FP RI ++++ +V A PV ++ +E +L+ A +
Sbjct: 3 SKKKKYNARFPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNA 62
Query: 76 TRIIPRHLQLAIRNDEE 92
+ HL+ I + +
Sbjct: 63 KTMTTSHLKQCIELEGD 79
Score = 30.3 bits (68), Expect = 0.51
Identities = 9/60 (15%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 246 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIF-ERIAAESSRLAHYNKRSTITSREIQTAVR 304
I K+++ + G + A+ ++ S ++F E + ++ ++ T+T+ ++ +
Sbjct: 17 IKKIMQTD-EEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCIE 75
>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 = 66.8 bits (162), Expect = 1e-11
Identities = 70/463 (15%), Positives = 124/463 (26%), Gaps = 142/463 (30%)
Query: 26 PVGRIHRLLRKGNYAERV------GAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRII 79
P ++ + L + A+ V G+G +A +V K +
Sbjct: 136 PYLKLRQALLELRPAKNVLIDGVLGSGKTW--------VALDVC-------LSYKVQCKM 180
Query: 80 PRH---LQLAIRNDEE-----LNKLLSGVTIAQGGVLPNIQAGAALTFERVDDVHGGDGL 131
L L N E L KLL + PN + + +
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQID-------PNWTSRS----------DHSSNI 223
Query: 132 SLGVLGVGDGVADHVLEEHLENATGLLVDEPGDTLDSTSTRQ-------------TT-DG 177
L + + + + + EN LLV L + + TT
Sbjct: 224 KLRIHSIQAELRRLLKSKPYENC--LLV------LLNVQNAKAWNAFNLSCKILLTTRFK 275
Query: 178 GLGDSLDV--VTEYFPVPLGASFS--ESLSSLTTAAGKSSGK----AVKKAGKAQKNIAK 229
+ D L T + + E S L + + IA+
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAE 335
Query: 230 SDKKK-------KHRRKESYAIYIYKVLKQVHP---------------DTGVSSKAMSIM 267
S + KH + I L + P + + +S++
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI 395
Query: 268 --NSFVNDIFERIAAE---SSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKA 322
+ +D+ + + S + K STI+ I +++ L E A H
Sbjct: 396 WFDVIKSDV-MVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR-----SI 449
Query: 323 VTKYTSSKCRAKTKQEEGAL-GFLFGLLGQEHGLDVGQNSSLGDGDAGQELVQLF----- 376
V Y K L + + +G H L ++ E + LF
Sbjct: 450 VDHYNIPKTFDSDDLIPPYLDQYFYSHIG--HHLKNIEHP---------ERMTLFRMVFL 498
Query: 377 --------VVADGQ-LQVTGDDTGLLVVTCGVAGQLENFSGQI 410
+ D +G L QL+ + I
Sbjct: 499 DFRFLEQKIRHDSTAWNASGSILNTL-------QQLKFYKPYI 534
Score = 31.7 bits (71), Expect = 0.80
Identities = 14/80 (17%), Positives = 27/80 (33%), Gaps = 6/80 (7%)
Query: 13 KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARD 72
+ K R ++ L + Y + P Y V L + L
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAIL--DFLPKIEENLIC 561
Query: 73 NKKTRIIPRHLQLAIRNDEE 92
+K T + L++A+ ++E
Sbjct: 562 SKYTDL----LRIALMAEDE 577
>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 = 60.8 bits (147), Expect = 8e-10
Identities = 52/294 (17%), Positives = 97/294 (32%), Gaps = 77/294 (26%)
Query: 40 AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSG 99
++ G G +Y + A +V A N +D I L + I N L
Sbjct: 1626 SQEQGMGMDLYKTSK---AAQDVWNRADNHFKDTYGFSI----LDIVINNPVNL------ 1672
Query: 100 VTIAQGGVLPNIQAG-------AALTFERVDDVHGGDGLSLGVLGVGDGVADHVLEEHLE 152
TI GG + G +A+ FE + D G + + +E E
Sbjct: 1673 -TIHFGG-----EKGKRIRENYSAMIFETIVD--------------GKLKTEKIFKEINE 1712
Query: 153 NATGLLVDEPGDTLDSTSTRQ----TTDGGLGDSLDVVTEYFPVPLGASFS-ESL---SS 204
++T L +T Q + + + +P A+F+ SL ++
Sbjct: 1713 HSTSYTFRSEKGLLSATQFTQPALTLMEKAA---FEDLKSKGLIPADATFAGHSLGEYAA 1769
Query: 205 LTTAAG----KSSGKAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVS 260
L + A +S + V G + D+ + +Y + ++P
Sbjct: 1770 LASLADVMSIESLVEVVFYRGMTMQVAVPRDELG----RSNYGMI------AINP----G 1815
Query: 261 SKAMSIMNSFVNDIFERIAAESSRL---AHYNKRS--TITS---REIQTAVRLL 306
A S + + ER+ + L +YN + + + R + T +L
Sbjct: 1816 RVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVL 1869
Score = 42.7 bits (100), Expect = 4e-04
Identities = 102/611 (16%), Positives = 174/611 (28%), Gaps = 249/611 (40%)
Query: 57 YLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDE-----EL-NKLLSGVT--IAQGGVL 108
+ A L ++ + +I+P + +DE EL K L V+ + V
Sbjct: 27 FFIASQL-------QE-QFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVG 78
Query: 109 PNIQA-GAALT-FERV----DDVHGGDGLSLGVLGVGDGVADHVLEEHLENATGLLVDEP 162
Q LT FE +D+H +L A LL +
Sbjct: 79 QFDQVLNLCLTEFENCYLEGNDIH-----AL--------------------AAKLLQEN- 112
Query: 163 GDTLDSTSTRQTTDGGLGDSLDVVTEYF--------PVPLGASFSESLSSLTTAAGKSSG 214
D L + +++ Y P ++ S+L A
Sbjct: 113 -------------DTTLVKTKELIKNYITARIMAKRPFDKKSN-----SALFRAV----- 149
Query: 215 KAVKKAGKA--------QKNIAKSDKKKKHRRKESY-----AIY-IYKVLKQVHPDTGVS 260
G A Q N + Y +Y Y
Sbjct: 150 ----GEGNAQLVAIFGGQGNT------------DDYFEELRDLYQTYH------------ 181
Query: 261 SKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTA---VRLLL------PGE- 310
V D+ + A S L R+T+ + ++ T + L P +
Sbjct: 182 --------VLVGDLIKFSAETLSELI----RTTLDAEKVFTQGLNILEWLENPSNTPDKD 229
Query: 311 -LAKHAVSE---GTKAVTKYTSSKCRAKTKQEEGALGFLFGLLGQEHGLDVGQNSSLGDG 366
L +S G + Y + + G G+ S G
Sbjct: 230 YLLSIPISCPLIGVIQLAHYVVT-AKL-------------------LGFTPGELRSYLKG 269
Query: 367 DAG--QELVQLFVVADGQLQVTGDD---TGLLVVT----CGVAGQL----ENFSGQILHD 413
G Q LV +A+ + + + +T GV + IL D
Sbjct: 270 ATGHSQGLVTAVAIAETD---SWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILED 326
Query: 414 GGQVDGSAG--SDALGVVALAQETVDSSDGELDT-MARTKQT------ARKS---TGGKA 461
++ + G S L + L QE V + ++ + KQ K+ +G
Sbjct: 327 --SLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG--- 381
Query: 462 PRKQLA--TKAARKSAPATGG--VKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLV 517
P + L RK+ +G + P R L+ R+ LP
Sbjct: 382 PPQSLYGLNLTLRKAKAPSGLDQSRIPFSER----KLKFSNRF----------LP----- 422
Query: 518 REIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMP-------KDI 570
+A F + L L AS+ L ++ + +AK + I P D+
Sbjct: 423 --VASPFHSHL---------LVPASDLINKDLVKNN--VSFNAKDIQI-PVYDTFDGSDL 468
Query: 571 Q-----LARRI 576
+ ++ RI
Sbjct: 469 RVLSGSISERI 479
Score = 42.0 bits (98), Expect = 6e-04
Identities = 52/308 (16%), Positives = 92/308 (29%), Gaps = 101/308 (32%)
Query: 91 EELNKLLSGVTIAQGGVLPNIQAGAALTFE------------------RVDDVHGGDGLS 132
EL L G T G++ + ++E R + + L
Sbjct: 261 GELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP 320
Query: 133 LGVL----GVGDGVADHVLEEHLENATGLLVDEPGDTLDSTSTRQTTDGGLGDSLD---- 184
+L +GV +L + + L ++ D ++ T++ + SL
Sbjct: 321 PSILEDSLENNEGVPSPML-----SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAK 375
Query: 185 --VVTEYFPVPLGASFSESLSSLTTAAGKSSGKAVKKAGKAQKNIAKSDKKKK------- 235
VV+ G +SL L K+ KA +G Q I S++K K
Sbjct: 376 NLVVS-------G--PPQSLYGLNLTLRKA--KA--PSGLDQSRIPFSERKLKFSNRFLP 422
Query: 236 -----H----------------RRKESY-----AIYIYKVLKQVHPDTG--VSSKAMSIM 267
H + S+ I +Y G + + SI
Sbjct: 423 VASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVY------DTFDGSDLRVLSGSIS 476
Query: 268 NSFVNDIF-ERI---AAESSRLAH--------YNKRSTITSREIQ-TAVRLLLPGELAKH 314
V+ I + + H + +T R T VR+++ G L +
Sbjct: 477 ERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDIN 536
Query: 315 AVSE-GTK 321
+ G K
Sbjct: 537 PDDDYGFK 544
Score = 40.0 bits (93), Expect = 0.002
Identities = 49/261 (18%), Positives = 80/261 (30%), Gaps = 90/261 (34%)
Query: 179 LGDS-LDVVTEYFPVPLGASFSESLSSLTTAAGKSSGKAVKKAGKAQKNIAKSDKKKKHR 237
G S LD+V PV L F G GK +++ A D K K
Sbjct: 1657 YGFSILDIVINN-PVNLTIHF-----------GGEKGKRIRENYSAMIFETIVDGKLKTE 1704
Query: 238 R-----KESYAIYIYKVLKQVHPD-----TGVSSKAMSIMNSFVNDIFERIAAE-----S 282
+ E Y ++ T + A+++M FE + ++
Sbjct: 1705 KIFKEINEHSTSYTFR-----SEKGLLSATQFTQPALTLM-EKA--AFEDLKSKGLIPAD 1756
Query: 283 SRLA-H----YNKRSTITSR----EIQTAVRLL-LPGELAKHAVSEGTKAVTKY-----T 327
+ A H Y + + S I++ V ++ G + AV + Y
Sbjct: 1757 ATFAGHSLGEY---AALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAIN 1813
Query: 328 SSKCRAKTKQEEGALGFLFGLLGQEHGLDVGQNSSLGDGDAGQELVQLFVV---ADGQLQ 384
+ A QE AL ++ +G+ G LV+ +V + Q Q
Sbjct: 1814 PGRVAASFSQE--ALQYVVERVGKRTG----------------WLVE--IVNYNVENQ-Q 1852
Query: 385 VTGDDTGLLVVTCGVAGQLEN 405
V AG L
Sbjct: 1853 Y--------V----AAGDLRA 1861
>1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo
sapiens} SCOP: a.22.1.3
Length = 97
Score = 53.0 bits (127), Expect = 5e-09
Identities = 15/70 (21%), Positives = 31/70 (44%)
Query: 24 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHL 83
+ P+ RI ++++ + + A APV A + E+ A DNK+ + +
Sbjct: 19 ELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDI 78
Query: 84 QLAIRNDEEL 93
+AI ++
Sbjct: 79 AMAITKFDQF 88
Score = 29.5 bits (66), Expect = 0.76
Identities = 11/59 (18%), Positives = 22/59 (37%)
Query: 246 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 304
I K++K +S++A + + + NKR T+ +I A+
Sbjct: 25 IKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAIT 83
>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 = 55.6 bits (133), Expect = 3e-08
Identities = 26/84 (30%), Positives = 49/84 (58%), Gaps = 1/84 (1%)
Query: 10 AKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNA 69
A++ + R R L PV +IH LL++ ++ VY+ AV+EY++A++L+L GN
Sbjct: 90 AQSAIEKRKRRNPLSLPVEKIHPLLKEVL-GYKIDHQVSVYIVAVLEYISADILKLVGNY 148
Query: 70 ARDNKKTRIIPRHLQLAIRNDEEL 93
R+ + I + +++A+ D+ L
Sbjct: 149 VRNIRHYEITKQDIKVAMCADKVL 172
Score = 35.9 bits (82), Expect = 0.044
Identities = 17/80 (21%), Positives = 34/80 (42%), Gaps = 10/80 (12%)
Query: 246 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 305
+ KV QVHP + A+ +V ++ ++ L RS +++ V+
Sbjct: 27 LKKVQGQVHPTLESNDDAL----QYVEELILQLLNM---LCQAQPRSAS---DVEERVQK 76
Query: 306 LLPGELAKHAVSEGTKAVTK 325
P + K A+++ A+ K
Sbjct: 77 SFPHPIDKWAIADAQSAIEK 96
>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 = 46.1 bits (108), Expect = 3e-07
Identities = 20/21 (95%), Positives = 20/21 (95%)
Query: 468 TKAARKSAPATGGVKKPHRYR 488
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 = 41.4 bits (96), Expect = 1e-05
Identities = 21/22 (95%), Positives = 21/22 (95%)
Query: 463 RKQLATKAARKSAPATGGVKKP 484
RKQLATKAAR SAPATGGVKKP
Sbjct: 1 RKQLATKAARXSAPATGGVKKP 22
>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 = 40.5 bits (94), Expect = 2e-04
Identities = 10/88 (11%), Positives = 23/88 (26%), Gaps = 1/88 (1%)
Query: 7 GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELA 66
G R A P+ R+ +++ + + E + A
Sbjct: 2 GEPRSQPPVERPPTAETFLPLSRVRTIMKSSMDTGLITNEVLFLMTKCTELFVRHLAGAA 61
Query: 67 GNAARDNKKTRII-PRHLQLAIRNDEEL 93
+ + HL + ++ L
Sbjct: 62 YTEEFGQRPGEALKYEHLSQVVNKNKNL 89
>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A
{Pyrococcus horikoshii} SCOP: a.22.1.2
Length = 70
Score = 37.7 bits (88), Expect = 6e-04
Identities = 19/64 (29%), Positives = 28/64 (43%), Gaps = 5/64 (7%)
Query: 512 PFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQ 571
P RL+R+ R A L E E Y + + + A HA R T+ +DI+
Sbjct: 11 PVDRLIRK-----AGAERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIK 65
Query: 572 LARR 575
LA +
Sbjct: 66 LAIK 69
Score = 33.5 bits (77), Expect = 0.015
Identities = 10/46 (21%), Positives = 24/46 (52%)
Query: 259 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 304
VS +A ++ ++ + IA ++ A + R T+ +I+ A++
Sbjct: 24 VSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIK 69
>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 = 37.3 bits (87), Expect = 6e-04
Identities = 17/67 (25%), Positives = 28/67 (41%), Gaps = 6/67 (8%)
Query: 512 PFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQ 571
P R+++ R A +AL + E + + A HA R TI +DI+
Sbjct: 7 PIGRIIKN-----AGAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIE 61
Query: 572 LA-RRIR 577
LA + +
Sbjct: 62 LARKMFK 68
Score = 34.2 bits (79), Expect = 0.011
Identities = 16/61 (26%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 246 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 305
I +++K + VS A + + ++ E IA+E+ +LA + R TI + +I+ A ++
Sbjct: 8 IGRIIKNAGAE-RVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARKM 66
Query: 306 L 306
Sbjct: 67 F 67
>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 = 36.9 bits (85), Expect = 0.003
Identities = 14/62 (22%), Positives = 26/62 (41%), Gaps = 2/62 (3%)
Query: 517 VREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLA-RR 575
+++I + A +++ SE Y + D + HA R T+ D++L RR
Sbjct: 13 IKQIFSHY-VKTPVTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADVELLMRR 71
Query: 576 IR 577
Sbjct: 72 QG 73
Score = 29.6 bits (66), Expect = 0.84
Identities = 8/46 (17%), Positives = 22/46 (47%)
Query: 259 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 304
V+ A I+ F++I+++ + + R T+ +++ +R
Sbjct: 25 VTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADVELLMR 70
>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 = 36.6 bits (84), Expect = 0.003
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 2/62 (3%)
Query: 514 QRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLA 573
L E+A D + +F + A+ E + +D + A HAKR TI +D++L
Sbjct: 34 GCLCEEVALDKEM--QFSKQTIAAISELTFRQCENFAKDLEMFARHAKRTTINTEDVKLL 91
Query: 574 RR 575
R
Sbjct: 92 AR 93
>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 = 36.5 bits (84), Expect = 0.005
Identities = 20/105 (19%), Positives = 40/105 (38%), Gaps = 9/105 (8%)
Query: 246 IYKVLKQVHPDTGVSSK-AMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 304
I +++K+ P++ SK A + + + + + S+ LAH TIT+++I +
Sbjct: 15 IGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLT 74
Query: 305 LL--------LPGELAKHAVSEGTKAVTKYTSSKCRAKTKQEEGA 341
L L +L + K +K + A
Sbjct: 75 ELDFESFVPSLTQDLEVYRKVVKEKKESKASKKDSNTAENANASA 119
Score = 28.0 bits (62), Expect = 4.3
Identities = 13/65 (20%), Positives = 21/65 (32%)
Query: 509 RKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPK 568
LP + R I + A A+ A+ + + + + A TI K
Sbjct: 8 LNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAK 67
Query: 569 DIQLA 573
DI
Sbjct: 68 DILQT 72
>3v9r_A MHF1, uncharacterized protein YOL086W-A; histone fold, fanconi
anemia, DNA repair, DNA BI protein; 2.40A {Saccharomyces
cerevisiae}
Length = 90
Score = 35.0 bits (80), Expect = 0.009
Identities = 12/61 (19%), Positives = 25/61 (40%), Gaps = 2/61 (3%)
Query: 515 RLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 574
++++ D+++ + +L E + L + D A HA R + D+ L
Sbjct: 20 ERLQQVLSSE--DIKYTPRFINSLLELAYLQLGEMGSDLQAFARHAGRGVVNKSDLMLYL 77
Query: 575 R 575
R
Sbjct: 78 R 78
>3b0b_B CENP-S, centromere protein S; histone fold, DNA binding, DNA,
nucleus, DNA binding protein; 2.15A {Gallus gallus}
Length = 107
Score = 35.0 bits (80), Expect = 0.010
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 2/61 (3%)
Query: 515 RLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 574
L +++A+D F V A+ E + D + A HAKR TI +D++L
Sbjct: 27 CLCQDVAEDKGV--LFSKQTVAAISEITFRQCENFARDLEMFARHAKRSTITSEDVKLLA 84
Query: 575 R 575
R
Sbjct: 85 R 85
>1taf_A TFIID TBP associated factor 42; transcription initiation, histone
fold, complex (TWO transcr factors); 2.00A {Drosophila
melanogaster} SCOP: a.22.1.3
Length = 68
Score = 33.3 bits (76), Expect = 0.020
Identities = 14/59 (23%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 515 RLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLA 573
+++ I ++ ++ V L E + Y+ + +D + A HA++ TI D++LA
Sbjct: 5 QVIMSILKELNVQ-EYEPRVVNQLLEFTFRYVTSILDDAKVYANHARKKTIDLDDVRLA 62
>1n1j_A NF-YB; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens}
SCOP: a.22.1.3
Length = 93
Score = 32.9 bits (75), Expect = 0.053
Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 246 IYKVLKQVHPDTGVSSK-AMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 304
+ +++K P TG +K A + V++ I +E+S H KR TI +I A+
Sbjct: 14 VARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMS 73
Query: 305 LL 306
L
Sbjct: 74 TL 75
Score = 31.7 bits (72), Expect = 0.11
Identities = 13/65 (20%), Positives = 23/65 (35%)
Query: 509 RKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPK 568
LP + R + + A +QE ++ + + + KR TI +
Sbjct: 7 IYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGE 66
Query: 569 DIQLA 573
DI A
Sbjct: 67 DILFA 71
>3vh5_A CENP-S; histone fold, chromosome segregation, DNA binding, nucleus,
binding protein; 2.40A {Gallus gallus} PDB: 3vh6_A
Length = 140
Score = 33.2 bits (75), Expect = 0.078
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 2/62 (3%)
Query: 514 QRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLA 573
L +++A+D + F V A+ E + D + A HAKR TI +D++L
Sbjct: 26 GALAQDVAEDK--GVLFSKQTVAAISEITFRQAENFARDLEMFARHAKRSTITSEDVKLL 83
Query: 574 RR 575
R
Sbjct: 84 AR 85
>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 = 33.6 bits (76), Expect = 0.087
Identities = 12/61 (19%), Positives = 34/61 (55%)
Query: 246 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 305
I K++K+ P+ V++ A ++ + + I++E++ + + +++ TI+ + A+
Sbjct: 21 INKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALES 80
Query: 306 L 306
L
Sbjct: 81 L 81
>2yfw_B Histone H4, H4; cell cycle, kinetochore, centromere, histone
chaperone, BUDD; 2.60A {Kluyveromyces lactis nrrl
y-1140}
Length = 103
Score = 31.6 bits (71), Expect = 0.20
Identities = 23/93 (24%), Positives = 37/93 (39%), Gaps = 6/93 (6%)
Query: 1 MSGRGKGGKAKAKSKTRSSRAGLQ-----FPVGRIHRLLRKGNYAERVGAGAPVYLAAVM 55
MSGRGKGGK K + R L+ I RL R+G +R+ + V+
Sbjct: 1 MSGRGKGGKGLGKGGAKRHRKILRDNIQGITKPAIRRLARRGG-VKRISGLIYEEVRNVL 59
Query: 56 EYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88
+ V+ A K+ + + A++
Sbjct: 60 KTFLESVIRDAVTYTEHAKRKTVTSLDVVYALK 92
Score = 30.4 bits (68), Expect = 0.45
Identities = 17/89 (19%), Positives = 36/89 (40%), Gaps = 4/89 (4%)
Query: 220 AGKAQKNIAKSDKKKKHRRKESYAIYIYK-VLKQVHPDTGV---SSKAMSIMNSFVNDIF 275
GK K + K K+ + I K ++++ GV S + + +
Sbjct: 4 RGKGGKGLGKGGAKRHRKILRDNIQGITKPAIRRLARRGGVKRISGLIYEEVRNVLKTFL 63
Query: 276 ERIAAESSRLAHYNKRSTITSREIQTAVR 304
E + ++ + KR T+TS ++ A++
Sbjct: 64 ESVIRDAVTYTEHAKRKTVTSLDVVYALK 92
Score = 28.9 bits (64), Expect = 1.3
Identities = 18/89 (20%), Positives = 31/89 (34%), Gaps = 5/89 (5%)
Query: 490 GTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGL 549
G + R+ + I K +RL R R ++ + +L +
Sbjct: 12 GKGGAKRHRKILRDNIQGITKPAIRRLARRGGVK-----RISGLIYEEVRNVLKTFLESV 66
Query: 550 FEDTNLCAIHAKRVTIMPKDIQLARRIRG 578
D HAKR T+ D+ A + +G
Sbjct: 67 IRDAVTYTEHAKRKTVTSLDVVYALKRQG 95
>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 = 30.9 bits (70), Expect = 0.22
Identities = 11/50 (22%), Positives = 19/50 (38%)
Query: 529 RFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRG 578
R + + +L + D HAKR T+ D+ A + +G
Sbjct: 27 RISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQG 76
Score = 27.1 bits (60), Expect = 4.5
Identities = 7/46 (15%), Positives = 19/46 (41%)
Query: 259 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 304
+S + E + ++ + KR T+T+ ++ A++
Sbjct: 28 ISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALK 73
>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 = 31.1 bits (70), Expect = 0.22
Identities = 17/81 (20%), Positives = 28/81 (34%), Gaps = 5/81 (6%)
Query: 498 RRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCA 557
R+ + I K +RL R R + + +L + D
Sbjct: 20 RKVLRDNIQGITKPAIRRLARRGGVK-----RISGLIYEETRGVLKVFLENVIRDAVTYT 74
Query: 558 IHAKRVTIMPKDIQLARRIRG 578
HAKR T+ D+ A + +G
Sbjct: 75 EHAKRKTVTAMDVVYALKRQG 95
Score = 30.3 bits (68), Expect = 0.52
Identities = 16/89 (17%), Positives = 34/89 (38%), Gaps = 4/89 (4%)
Query: 220 AGKAQKNIAKSDKKKKHRRKESYAIYIYK-VLKQVHPDTGV---SSKAMSIMNSFVNDIF 275
GK K + K K+ + I K ++++ GV S +
Sbjct: 4 RGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFL 63
Query: 276 ERIAAESSRLAHYNKRSTITSREIQTAVR 304
E + ++ + KR T+T+ ++ A++
Sbjct: 64 ENVIRDAVTYTEHAKRKTVTAMDVVYALK 92
Score = 29.9 bits (67), Expect = 0.70
Identities = 23/93 (24%), Positives = 36/93 (38%), Gaps = 6/93 (6%)
Query: 1 MSGRGKGGKAKAKS----KTRSSRAGLQF-PVGRIHRLLRKGNYAERVGAGAPVYLAAVM 55
MSGRGKGGK K + R +Q I RL R+G +R+ V+
Sbjct: 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGG-VKRISGLIYEETRGVL 59
Query: 56 EYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88
+ V+ A K+ + + A++
Sbjct: 60 KVFLENVIRDAVTYTEHAKRKTVTAMDVVYALK 92
>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 = 30.3 bits (67), Expect = 0.98
Identities = 9/31 (29%), Positives = 10/31 (32%), Gaps = 13/31 (41%)
Query: 450 KQTARKSTGG-K--APRKQLATKAARKSAPA 477
KQ +K K A SAPA
Sbjct: 19 KQALKKLQASLKLYAD----------DSAPA 39
>1h3o_B Transcription initiation factor TFIID 20/15 kDa subunits;
transcription/TBP-associated factors, TBP-associated
factors; 2.3A {Homo sapiens} SCOP: a.22.1.3
Length = 76
Score = 28.6 bits (64), Expect = 0.99
Identities = 10/51 (19%), Positives = 26/51 (50%)
Query: 250 LKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQ 300
+++V P+ + ++ +D E + + +LA + K ST+ +++Q
Sbjct: 15 VREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQ 65
>3o5t_A Dinitrogenase reductase activacting glicohydrolas; ADP binding,
hydrolase-transcription complex; HET: ADP; 2.09A
{Azospirillum brasilense} PDB: 3g9d_A*
Length = 297
Score = 29.6 bits (67), Expect = 2.5
Identities = 14/54 (25%), Positives = 22/54 (40%)
Query: 273 DIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKY 326
FER E + + H N S + + VR L+ G + E K + K+
Sbjct: 144 AAFERWTVEQAHITHCNAMSDAATLTLGHMVRRLVLGGDVRDVRDESNKLIAKH 197
>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 = 28.1 bits (62), Expect = 2.9
Identities = 16/81 (19%), Positives = 36/81 (44%), Gaps = 2/81 (2%)
Query: 498 RRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCA 557
+R++K I+ + + +R +A+ R ++ +++L + D+
Sbjct: 16 KRHRKILRDNIQGIT-KPAIRRLARRGGVK-RISGLIYEEVRAVLKSFLESVIRDSVTYT 73
Query: 558 IHAKRVTIMPKDIQLARRIRG 578
HAKR T+ D+ A + +G
Sbjct: 74 EHAKRKTVTSLDVVYALKRQG 94
Score = 27.7 bits (61), Expect = 4.1
Identities = 18/89 (20%), Positives = 36/89 (40%), Gaps = 4/89 (4%)
Query: 220 AGKAQKNIAKSDKKKKHRRKESYAIYIYK-VLKQVHPDTGV---SSKAMSIMNSFVNDIF 275
GK K + K K+ + I K ++++ GV S + + +
Sbjct: 3 RGKGGKGLGKGGAKRHRKILRDNIQGITKPAIRRLARRGGVKRISGLIYEEVRAVLKSFL 62
Query: 276 ERIAAESSRLAHYNKRSTITSREIQTAVR 304
E + +S + KR T+TS ++ A++
Sbjct: 63 ESVIRDSVTYTEHAKRKTVTSLDVVYALK 91
Score = 26.9 bits (59), Expect = 6.7
Identities = 22/92 (23%), Positives = 37/92 (40%), Gaps = 6/92 (6%)
Query: 2 SGRGKGGKAKAKSKTRSSRAGLQ-----FPVGRIHRLLRKGNYAERVGAGAPVYLAAVME 56
SGRGKGGK K + R L+ I RL R+G +R+ + AV++
Sbjct: 1 SGRGKGGKGLGKGGAKRHRKILRDNIQGITKPAIRRLARRGG-VKRISGLIYEEVRAVLK 59
Query: 57 YLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 88
V+ + K+ + + A++
Sbjct: 60 SFLESVIRDSVTYTEHAKRKTVTSLDVVYALK 91
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 29.3 bits (66), Expect = 3.9
Identities = 22/126 (17%), Positives = 42/126 (33%), Gaps = 19/126 (15%)
Query: 240 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREI 299
E+ + V ++V D + F + E I E+ + A T+ R++
Sbjct: 293 ENRRKLVQFVAQEVKRD--------GKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDL 344
Query: 300 QTAVRLLLPGELAKHAVSEGTKAVTK------YTSSKCRAKTKQEEGALGFLFGLLGQEH 353
VR AV +G K V + +K K + + +
Sbjct: 345 GGIVR-----AAGDIAVKKGKKYVEREDVIEAVKMAKPLEKQLADWYIERKKEYQVIKTE 399
Query: 354 GLDVGQ 359
G ++G+
Sbjct: 400 GSEIGR 405
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 0.131 0.360
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: 8,617,907
Number of extensions: 550626
Number of successful extensions: 803
Number of sequences better than 10.0: 1
Number of HSP's gapped: 780
Number of HSP's successfully gapped: 80
Length of query: 581
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 482
Effective length of database: 3,937,614
Effective search space: 1897929948
Effective search space used: 1897929948
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: 42 (22.0 bits)
S2: 60 (27.3 bits)