RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3828
(365 letters)
>2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D*
Length = 123
Score = 177 bits (450), Expect = 1e-55
Identities = 111/120 (92%), Positives = 116/120 (96%)
Query: 246 KSSGKAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSF 305
K+SGKA KKAGKAQKNI K+DKKKK +RKESYAIYIY VLKQVHPDTG+SSKAMSIMNSF
Sbjct: 4 KTSGKAAKKAGKAQKNITKTDKKKKRKRKESYAIYIYTVLKQVHPDTGISSKAMSIMNSF 63
Query: 306 VNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSK 365
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 = 162 bits (410), Expect = 1e-49
Identities = 98/122 (80%), Positives = 103/122 (84%), Gaps = 2/122 (1%)
Query: 246 KSSGKAVKKAGK--AQKNIAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMN 303
S A KK K K K DKK+K RKESY+IY+YKVLKQVHPDTG+SSKAM IMN
Sbjct: 5 AKSAPAPKKGSKKAVTKTQKKGDKKRKKSRKESYSIYVYKVLKQVHPDTGISSKAMGIMN 64
Query: 304 SFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTS 363
SFVNDIFERIA E+SRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTS
Sbjct: 65 SFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTS 124
Query: 364 SK 365
SK
Sbjct: 125 SK 126
>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 = 159 bits (403), Expect = 2e-48
Identities = 104/123 (84%), Positives = 113/123 (91%), Gaps = 1/123 (0%)
Query: 27 AVPIPQIYTMSGRGK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVY 85
+ + +MSGRGK GGKA+AK+KTRSSRAGLQFPVGR+HRLLRKGNY+ERVGAGAPVY
Sbjct: 11 SSGLVPRGSMSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVY 70
Query: 86 LAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPN 145
LAAV+EYL AE+LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL VTIAQGGVLPN
Sbjct: 71 LAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPN 130
Query: 146 IQA 148
IQA
Sbjct: 131 IQA 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 = 158 bits (400), Expect = 3e-48
Identities = 104/114 (91%), Positives = 110/114 (96%), Gaps = 1/114 (0%)
Query: 36 MSGRGK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 94
MSGRGK GGKA+AK+K+RSSRAGLQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL
Sbjct: 1 MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLT 60
Query: 95 AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA 148
AE+LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL VTIAQGGVLPNIQA
Sbjct: 61 AEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQA 114
>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C*
Length = 123
Score = 155 bits (393), Expect = 3e-47
Identities = 107/112 (95%), Positives = 110/112 (98%)
Query: 37 SGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE 96
SGRGKGGK K K+K+RS+RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE
Sbjct: 1 SGRGKGGKVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE 60
Query: 97 VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA 148
VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA
Sbjct: 61 VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA 112
>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 = 9e-45
Identities = 72/113 (63%), Positives = 89/113 (78%), Gaps = 2/113 (1%)
Query: 36 MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 95
MS RG GK K+ +RS++AG+ FPVGR+ R ++KG+ R+G GAPVY+AAV+EYL A
Sbjct: 1 MSSRG--GKKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTA 58
Query: 96 EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA 148
E+LELA NAARDNKK R+ PRH+ LA+ NDEELN+LL GVTIA GGVLPNI
Sbjct: 59 EILELAVNAARDNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHP 111
>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 (357), Expect = 9e-42
Identities = 87/113 (76%), Positives = 100/113 (88%), Gaps = 1/113 (0%)
Query: 37 SGRG-KGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 95
G+G K G A S++RS++AGL FPVGR+HRLLR+GNYA+R+G+GAPVYL AV+EYLAA
Sbjct: 2 GGKGGKAGSAAKASQSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLAA 61
Query: 96 EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA 148
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 = 130 bits (328), Expect = 1e-37
Identities = 71/117 (60%), Positives = 84/117 (71%), Gaps = 5/117 (4%)
Query: 36 MSGRGKG---GKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAER-VGAGAPVYLAAVME 91
M+G G GKAK K+ +RS RAGLQFPVGRIHR L+ + VGA A VY AA++E
Sbjct: 1 MAGGKAGKDSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILE 60
Query: 92 YLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA 148
YL AEVLELAGNA++D K RI PRHLQLAIR DEEL+ L+ TIA GGV+P+I
Sbjct: 61 YLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI-KATIAGGGVIPHIHK 116
>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 = 116 bits (291), Expect = 2e-31
Identities = 72/90 (80%), Positives = 85/90 (94%)
Query: 273 RKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSR 332
RKE+Y+ YIYKVLKQ HPDTG+S K+MSI+NSFVNDIFERIA E+S+LA YNK+STI++R
Sbjct: 1 RKETYSSYIYKVLKQTHPDTGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTISAR 60
Query: 333 EIQTAVRLLLPGELAKHAVSEGTKAVTKYT 362
EIQTAVRL+LPGELAKHAVSEGT+AVTKY+
Sbjct: 61 EIQTAVRLILPGELAKHAVSEGTRAVTKYS 90
Score = 104 bits (259), Expect = 7e-27
Identities = 61/116 (52%), Positives = 79/116 (68%), Gaps = 2/116 (1%)
Query: 32 QIYTMSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAER-VGAGAPVYLAAVM 90
+ + + ++++ S+RAGLQFPVGRI R L++ VG+ A +YL AV+
Sbjct: 78 AVSEGTRAVTKYSSSTQAQSSSARAGLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVL 137
Query: 91 EYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNI 146
EYL AEVLELAGNAA+D K RI PRHLQLAIR D+EL+ L+ TIA GGVLP+I
Sbjct: 138 EYLTAEVLELAGNAAKDLKVKRITPRHLQLAIRGDDELDSLI-RATIASGGVLPHI 192
>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 = 85.7 bits (212), Expect = 6e-21
Identities = 14/77 (18%), Positives = 33/77 (42%)
Query: 51 TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 110
++ + +FP RI ++++ +V A PV ++ +E +L+ A +
Sbjct: 3 SKKKKYNARFPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNA 62
Query: 111 TRIIPRHLQLAIRNDEE 127
+ HL+ I + +
Sbjct: 63 KTMTTSHLKQCIELEGD 79
Score = 29.9 bits (67), Expect = 0.35
Identities = 9/60 (15%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 281 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIF-ERIAAESSRLAHYNKRSTITSREIQTAVR 339
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 = 64.1 bits (155), Expect = 3e-11
Identities = 57/368 (15%), Positives = 101/368 (27%), Gaps = 109/368 (29%)
Query: 61 PVGRIHRLLRKGNYAERV------GAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRII 114
P ++ + L + A+ V G+G +A +V K +
Sbjct: 136 PYLKLRQALLELRPAKNVLIDGVLGSGKTW--------VALDVC-------LSYKVQCKM 180
Query: 115 PRH---LQLAIRNDEE-----LNKLLSGVTIAQGGVLPNIQAGAALTFERVDDVHGGDGL 166
L L N E L KLL + PN + + +
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQID-------PNWTSRS----------DHSSNI 223
Query: 167 SLGVLGVGDGVADHVLEEHLENATGLLVDEPGDTLDSTSTRQ-------------TT-DG 212
L + + + + + EN LLV L + + TT
Sbjct: 224 KLRIHSIQAELRRLLKSKPYENC--LLV------LLNVQNAKAWNAFNLSCKILLTTRFK 275
Query: 213 GLGDSLDV--VTEYFPVPLGASFS--ESLSSLTTAAGKSSGK----AVKKAGKAQKNIAK 264
+ D L T + + E S L + + IA+
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAE 335
Query: 265 SDKKK-------KHRRKESYAIYIYKVLKQVHP---------------DTGVSSKAMSIM 302
S + KH + I L + P + + +S++
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI 395
Query: 303 --NSFVNDIFERIAAE---SSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKA 357
+ +D+ + + S + K STI+ I +++ L E A H
Sbjct: 396 WFDVIKSDV-MVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR-----SI 449
Query: 358 VTKYTSSK 365
V Y K
Sbjct: 450 VDHYNIPK 457
Score = 31.7 bits (71), Expect = 0.46
Identities = 14/80 (17%), Positives = 27/80 (33%), Gaps = 6/80 (7%)
Query: 48 KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARD 107
+ K R ++ L + Y + P Y V L + L
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAIL--DFLPKIEENLIC 561
Query: 108 NKKTRIIPRHLQLAIRNDEE 127
+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 = 61.6 bits (149), Expect = 2e-10
Identities = 52/294 (17%), Positives = 97/294 (32%), Gaps = 77/294 (26%)
Query: 75 AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSG 134
++ G G +Y + A +V A N +D I L + I N L
Sbjct: 1626 SQEQGMGMDLYKTSK---AAQDVWNRADNHFKDTYGFSI----LDIVINNPVNL------ 1672
Query: 135 VTIAQGGVLPNIQAG-------AALTFERVDDVHGGDGLSLGVLGVGDGVADHVLEEHLE 187
TI GG + G +A+ FE + D G + + +E E
Sbjct: 1673 -TIHFGG-----EKGKRIRENYSAMIFETIVD--------------GKLKTEKIFKEINE 1712
Query: 188 NATGLLVDEPGDTLDSTSTRQ----TTDGGLGDSLDVVTEYFPVPLGASFS-ESL---SS 239
++T L +T Q + + + +P A+F+ SL ++
Sbjct: 1713 HSTSYTFRSEKGLLSATQFTQPALTLMEKAA---FEDLKSKGLIPADATFAGHSLGEYAA 1769
Query: 240 LTTAAG----KSSGKAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVS 295
L + A +S + V G + D+ + +Y + ++P
Sbjct: 1770 LASLADVMSIESLVEVVFYRGMTMQVAVPRDELG----RSNYGMI------AINP----G 1815
Query: 296 SKAMSIMNSFVNDIFERIAAESSRL---AHYNKRS--TITS---REIQTAVRLL 341
A S + + ER+ + L +YN + + + R + T +L
Sbjct: 1816 RVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVL 1869
Score = 42.3 bits (99), Expect = 2e-04
Identities = 52/308 (16%), Positives = 92/308 (29%), Gaps = 101/308 (32%)
Query: 126 EELNKLLSGVTIAQGGVLPNIQAGAALTFE------------------RVDDVHGGDGLS 167
EL L G T G++ + ++E R + + L
Sbjct: 261 GELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP 320
Query: 168 LGVL----GVGDGVADHVLEEHLENATGLLVDEPGDTLDSTSTRQTTDGGLGDSLD---- 219
+L +GV +L + + L ++ D ++ T++ + SL
Sbjct: 321 PSILEDSLENNEGVPSPML-----SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAK 375
Query: 220 --VVTEYFPVPLGASFSESLSSLTTAAGKSSGKAVKKAGKAQKNIAKSDKKKK------- 270
VV+ G +SL L K+ KA +G Q I S++K K
Sbjct: 376 NLVVS-------G--PPQSLYGLNLTLRKA--KA--PSGLDQSRIPFSERKLKFSNRFLP 422
Query: 271 -----H----------------RRKESY-----AIYIYKVLKQVHPDTG--VSSKAMSIM 302
H + S+ I +Y G + + SI
Sbjct: 423 VASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVY------DTFDGSDLRVLSGSIS 476
Query: 303 NSFVNDIF-ERI---AAESSRLAH--------YNKRSTITSREIQ-TAVRLLLPGELAKH 349
V+ I + + H + +T R T VR+++ G L +
Sbjct: 477 ERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDIN 536
Query: 350 AVSE-GTK 356
+ G K
Sbjct: 537 PDDDYGFK 544
Score = 34.6 bits (79), Expect = 0.058
Identities = 33/174 (18%), Positives = 56/174 (32%), Gaps = 49/174 (28%)
Query: 214 LGDS-LDVVTEYFPVPLGASFSESLSSLTTAAGKSSGKAVKKAGKAQKNIAKSDKKKKHR 272
G S LD+V PV L F G GK +++ A D K K
Sbjct: 1657 YGFSILDIVINN-PVNLTIHF-----------GGEKGKRIRENYSAMIFETIVDGKLKTE 1704
Query: 273 R-----KESYAIYIYKVLKQVHPD-----TGVSSKAMSIMNSFVNDIFERIAAE-----S 317
+ E Y ++ T + A+++M FE + ++
Sbjct: 1705 KIFKEINEHSTSYTFR-----SEKGLLSATQFTQPALTLM-EKA--AFEDLKSKGLIPAD 1756
Query: 318 SRLA-H----YNKRSTITSR----EIQTAVRLL-LPGELAKHAVSEGTKAVTKY 361
+ A H Y + + S I++ V ++ G + AV + Y
Sbjct: 1757 ATFAGHSLGEY---AALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNY 1807
>1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens}
SCOP: a.22.1.3
Length = 97
Score = 52.6 bits (126), Expect = 3e-09
Identities = 15/70 (21%), Positives = 31/70 (44%)
Query: 59 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHL 118
+ P+ RI ++++ + + A APV A + E+ A DNK+ + +
Sbjct: 19 ELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDI 78
Query: 119 QLAIRNDEEL 128
+AI ++
Sbjct: 79 AMAITKFDQF 88
Score = 29.5 bits (66), Expect = 0.47
Identities = 11/59 (18%), Positives = 22/59 (37%)
Query: 281 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339
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 = 55.2 bits (132), Expect = 2e-08
Identities = 26/84 (30%), Positives = 49/84 (58%), Gaps = 1/84 (1%)
Query: 45 AKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNA 104
A++ + R R L PV +IH LL++ ++ VY+ AV+EY++A++L+L GN
Sbjct: 90 AQSAIEKRKRRNPLSLPVEKIHPLLKEVL-GYKIDHQVSVYIVAVLEYISADILKLVGNY 148
Query: 105 ARDNKKTRIIPRHLQLAIRNDEEL 128
R+ + I + +++A+ D+ L
Sbjct: 149 VRNIRHYEITKQDIKVAMCADKVL 172
Score = 35.5 bits (81), Expect = 0.031
Identities = 17/80 (21%), Positives = 34/80 (42%), Gaps = 10/80 (12%)
Query: 281 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340
+ KV QVHP + A+ +V ++ ++ L RS +++ V+
Sbjct: 27 LKKVQGQVHPTLESNDDAL----QYVEELILQLLNM---LCQAQPRSAS---DVEERVQK 76
Query: 341 LLPGELAKHAVSEGTKAVTK 360
P + K A+++ A+ K
Sbjct: 77 SFPHPIDKWAIADAQSAIEK 96
>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 = 44.2 bits (103), Expect = 3e-05
Identities = 19/109 (17%), Positives = 39/109 (35%), Gaps = 4/109 (3%)
Query: 235 ESLSSLTTAAGKSSGKAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKV----LKQVHP 290
ES+ +G+ V+ G + A + K K + S I +
Sbjct: 116 ESIEEQGDLVDLKTGEIVEDNGHIKTLTANNSTKDKRTKYTSVLRDIIDISDEEDGDKGG 175
Query: 291 DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339
+S + + + E + +S + KR T+TS ++ A++
Sbjct: 176 VKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALK 224
Score = 29.6 bits (65), Expect = 1.4
Identities = 16/107 (14%), Positives = 35/107 (32%), Gaps = 2/107 (1%)
Query: 55 RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRII 114
+ V + + R + A + L E +LE A K+ I+
Sbjct: 14 KIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKRITIM 73
Query: 115 PRHLQLA--IRNDEELNKLLSGVTIAQGGVLPNIQAGAALTFERVDD 159
+ +QLA IR + + + + + +E +++
Sbjct: 74 KKDMQLARRIRGQFLVPRGSMERHKLADENMRKVWSNIISKYESIEE 120
>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 = 1e-04
Identities = 10/88 (11%), Positives = 23/88 (26%), Gaps = 1/88 (1%)
Query: 42 GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELA 101
G R A P+ R+ +++ + + E + A
Sbjct: 2 GEPRSQPPVERPPTAETFLPLSRVRTIMKSSMDTGLITNEVLFLMTKCTELFVRHLAGAA 61
Query: 102 GNAARDNKKTRII-PRHLQLAIRNDEEL 128
+ + HL + ++ L
Sbjct: 62 YTEEFGQRPGEALKYEHLSQVVNKNKNL 89
>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 = 0.006
Identities = 16/61 (26%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 281 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340
I +++K + VS A + + ++ E IA+E+ +LA + R TI + +I+ A ++
Sbjct: 8 IGRIIKNAGAE-RVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARKM 66
Query: 341 L 341
Sbjct: 67 F 67
>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A
{Pyrococcus horikoshii} SCOP: a.22.1.2
Length = 70
Score = 33.5 bits (77), Expect = 0.010
Identities = 10/46 (21%), Positives = 24/46 (52%)
Query: 294 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339
VS +A ++ ++ + IA ++ A + R T+ +I+ A++
Sbjct: 24 VSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIK 69
>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 = 34.6 bits (78), Expect = 0.013
Identities = 17/79 (21%), Positives = 33/79 (41%), Gaps = 2/79 (2%)
Query: 269 KKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRST 328
+ RK + + ++ + D S A+ + + +++ A + KR T
Sbjct: 60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVT 119
Query: 329 ITSREIQTAVRLLLPGELA 347
I ++IQ A R+ GE A
Sbjct: 120 IMPKDIQLARRIR--GERA 136
>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 = 34.6 bits (79), Expect = 0.014
Identities = 19/94 (20%), Positives = 39/94 (41%), Gaps = 9/94 (9%)
Query: 281 IYKVLKQVHPDTGVSSK-AMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339
I +++K+ P++ SK A + + + + + S+ LAH TIT+++I +
Sbjct: 15 IGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLT 74
Query: 340 LL--------LPGELAKHAVSEGTKAVTKYTSSK 365
L L +L + K +K +
Sbjct: 75 ELDFESFVPSLTQDLEVYRKVVKEKKESKASKKD 108
>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 = 34.0 bits (77), Expect = 0.033
Identities = 12/61 (19%), Positives = 34/61 (55%)
Query: 281 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 340
I K++K+ P+ V++ A ++ + + I++E++ + + +++ TI+ + A+
Sbjct: 21 INKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALES 80
Query: 341 L 341
L
Sbjct: 81 L 81
>1n1j_A NF-YB; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens}
SCOP: a.22.1.3
Length = 93
Score = 32.5 bits (74), Expect = 0.035
Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 281 IYKVLKQVHPDTGVSSK-AMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339
+ +++K P TG +K A + V++ I +E+S H KR TI +I A+
Sbjct: 14 VARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMS 73
Query: 340 LL 341
L
Sbjct: 74 TL 75
>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 = 0.11
Identities = 23/93 (24%), Positives = 37/93 (39%), Gaps = 6/93 (6%)
Query: 36 MSGRGKGGKAKAKSKTRSSRAGLQ-----FPVGRIHRLLRKGNYAERVGAGAPVYLAAVM 90
MSGRGKGGK K + R L+ I RL R+G +R+ + V+
Sbjct: 1 MSGRGKGGKGLGKGGAKRHRKILRDNIQGITKPAIRRLARRGG-VKRISGLIYEEVRNVL 59
Query: 91 EYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123
+ V+ A K+ + + A++
Sbjct: 60 KTFLESVIRDAVTYTEHAKRKTVTSLDVVYALK 92
Score = 30.4 bits (68), Expect = 0.26
Identities = 17/89 (19%), Positives = 36/89 (40%), Gaps = 4/89 (4%)
Query: 255 AGKAQKNIAKSDKKKKHRRKESYAIYIYK-VLKQVHPDTGV---SSKAMSIMNSFVNDIF 310
GK K + K K+ + I K ++++ GV S + + +
Sbjct: 4 RGKGGKGLGKGGAKRHRKILRDNIQGITKPAIRRLARRGGVKRISGLIYEEVRNVLKTFL 63
Query: 311 ERIAAESSRLAHYNKRSTITSREIQTAVR 339
E + ++ + KR T+TS ++ A++
Sbjct: 64 ESVIRDAVTYTEHAKRKTVTSLDVVYALK 92
>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 = 29.9 bits (67), Expect = 0.33
Identities = 16/89 (17%), Positives = 34/89 (38%), Gaps = 4/89 (4%)
Query: 255 AGKAQKNIAKSDKKKKHRRKESYAIYIYK-VLKQVHPDTGV---SSKAMSIMNSFVNDIF 310
GK K + K K+ + I K ++++ GV S +
Sbjct: 4 RGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFL 63
Query: 311 ERIAAESSRLAHYNKRSTITSREIQTAVR 339
E + ++ + KR T+T+ ++ A++
Sbjct: 64 ENVIRDAVTYTEHAKRKTVTAMDVVYALK 92
Score = 29.9 bits (67), Expect = 0.43
Identities = 23/93 (24%), Positives = 36/93 (38%), Gaps = 6/93 (6%)
Query: 36 MSGRGKGGKAKAKS----KTRSSRAGLQF-PVGRIHRLLRKGNYAERVGAGAPVYLAAVM 90
MSGRGKGGK K + R +Q I RL R+G +R+ V+
Sbjct: 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGG-VKRISGLIYEETRGVL 59
Query: 91 EYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123
+ V+ A K+ + + A++
Sbjct: 60 KVFLENVIRDAVTYTEHAKRKTVTAMDVVYALK 92
>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 = 29.0 bits (65), Expect = 0.43
Identities = 10/51 (19%), Positives = 26/51 (50%)
Query: 285 LKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQ 335
+++V P+ + ++ +D E + + +LA + K ST+ +++Q
Sbjct: 15 VREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQ 65
>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 = 30.0 bits (67), Expect = 0.43
Identities = 8/46 (17%), Positives = 22/46 (47%)
Query: 294 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339
V+ A I+ F++I+++ + + R T+ +++ +R
Sbjct: 25 VTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADVELLMR 70
>3o5t_A Dinitrogenase reductase activacting glicohydrolas; ADP binding,
hydrolase-transcription complex; HET: ADP; 2.09A
{Azospirillum brasilense} PDB: 3g9d_A*
Length = 297
Score = 30.4 bits (69), Expect = 0.88
Identities = 14/54 (25%), Positives = 22/54 (40%)
Query: 308 DIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKY 361
FER E + + H N S + + VR L+ G + E K + K+
Sbjct: 144 AAFERWTVEQAHITHCNAMSDAATLTLGHMVRRLVLGGDVRDVRDESNKLIAKH 197
>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 = 28.3 bits (62), Expect = 2.1
Identities = 16/122 (13%), Positives = 39/122 (31%), Gaps = 23/122 (18%)
Query: 243 AAGKSSGKAVKKAGKAQKNIAKSDKKKKHRR------------KESYAIYIYKVLKQ--- 287
A + S G +++ + +H R ++S + I K+
Sbjct: 12 APRRRSPSPTPTPGPSRRGPSLGASSHQHSRRRQGWLKEIRKLQKSTHLLIRKLPFSRLA 71
Query: 288 --------VHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339
D ++A+ + + ++ L + R T+ +++Q A R
Sbjct: 72 REICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARR 131
Query: 340 LL 341
+
Sbjct: 132 IR 133
>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 = 27.7 bits (61), Expect = 2.6
Identities = 18/89 (20%), Positives = 36/89 (40%), Gaps = 4/89 (4%)
Query: 255 AGKAQKNIAKSDKKKKHRRKESYAIYIYK-VLKQVHPDTGV---SSKAMSIMNSFVNDIF 310
GK K + K K+ + I K ++++ GV S + + +
Sbjct: 3 RGKGGKGLGKGGAKRHRKILRDNIQGITKPAIRRLARRGGVKRISGLIYEEVRAVLKSFL 62
Query: 311 ERIAAESSRLAHYNKRSTITSREIQTAVR 339
E + +S + KR T+TS ++ A++
Sbjct: 63 ESVIRDSVTYTEHAKRKTVTSLDVVYALK 91
Score = 26.9 bits (59), Expect = 4.1
Identities = 22/92 (23%), Positives = 37/92 (40%), Gaps = 6/92 (6%)
Query: 37 SGRGKGGKAKAKSKTRSSRAGLQ-----FPVGRIHRLLRKGNYAERVGAGAPVYLAAVME 91
SGRGKGGK K + R L+ I RL R+G +R+ + AV++
Sbjct: 1 SGRGKGGKGLGKGGAKRHRKILRDNIQGITKPAIRRLARRGG-VKRISGLIYEEVRAVLK 59
Query: 92 YLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 123
V+ + K+ + + A++
Sbjct: 60 SFLESVIRDSVTYTEHAKRKTVTSLDVVYALK 91
>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 = 27.1 bits (60), Expect = 2.9
Identities = 7/46 (15%), Positives = 19/46 (41%)
Query: 294 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339
+S + E + ++ + KR T+T+ ++ A++
Sbjct: 28 ISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALK 73
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 28.9 bits (65), Expect = 3.0
Identities = 18/86 (20%), Positives = 31/86 (36%), Gaps = 13/86 (15%)
Query: 275 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREI 334
E+ + V ++V D + F + E I E+ + A T+ R++
Sbjct: 293 ENRRKLVQFVAQEVKRD--------GKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDL 344
Query: 335 QTAVRLLLPGELAKHAVSEGTKAVTK 360
VR AV +G K V +
Sbjct: 345 GGIVR-----AAGDIAVKKGKKYVER 365
>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 = 27.3 bits (60), Expect = 4.1
Identities = 12/87 (13%), Positives = 36/87 (41%), Gaps = 6/87 (6%)
Query: 258 AQKNIAKSDKKKKHRRKESYAIYIYKVLKQV-----HPDTGVSSKAMSIMNSFVNDIFER 312
++ + ++ ++++ A++ Y V + S + ++ ++ E
Sbjct: 8 EEEAETEEQQRFSYQQRLKAAVH-YTVGCLCEEVALDKEMQFSKQTIAAISELTFRQCEN 66
Query: 313 IAAESSRLAHYNKRSTITSREIQTAVR 339
A + A + KR+TI + +++ R
Sbjct: 67 FAKDLEMFARHAKRTTINTEDVKLLAR 93
>2woe_A ADP-ribosyl-[dinitrogen reductase] glycohydrolase; dimanganese,
nitrogen fixation, ADP-ribosylglycohydrolase,
mono-ADP-ribosylhydrolase; HET: AR6 TLA; 1.90A
{Rhodospirillum rubrum} PDB: 2woc_A 2wod_A*
Length = 299
Score = 28.0 bits (63), Expect = 4.3
Identities = 10/52 (19%), Positives = 18/52 (34%)
Query: 310 FERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKY 361
E +R+ H + S + V L+ G K E + V ++
Sbjct: 151 LEPWVLAQARITHNHPLSDAACLTLGRMVHHLIGGRGMKACREEANRLVHQH 202
>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 = 27.6 bits (60), Expect = 4.6
Identities = 7/32 (21%), Positives = 15/32 (46%), Gaps = 6/32 (18%)
Query: 325 KRSTITSREIQTAVRLLLPGE---LAKHAVSE 353
K++ +++Q +++L LA A E
Sbjct: 19 KQAL---KKLQASLKLYADDSAPALAIKATME 47
>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 = 27.3 bits (61), Expect = 5.8
Identities = 9/34 (26%), Positives = 18/34 (52%)
Query: 94 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE 127
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 = 26.5 bits (58), Expect = 6.8
Identities = 15/82 (18%), Positives = 30/82 (36%), Gaps = 5/82 (6%)
Query: 263 AKSDKKKKHRRKESYAIYIYKVLKQV-----HPDTGVSSKAMSIMNSFVNDIFERIAAES 317
A ++++ + A Y S + ++ ++ E A +
Sbjct: 4 AAGGEQRELLIQRLRAAVHYTTGCLCQDVAEDKGVLFSKQTVAAISEITFRQCENFARDL 63
Query: 318 SRLAHYNKRSTITSREIQTAVR 339
A + KRSTITS +++ R
Sbjct: 64 EMFARHAKRSTITSEDVKLLAR 85
>2ihi_A Pyrophosphate synthase; PV092040, structural genomics, structural
genomics consortium, SGC, transferase; 2.00A {Plasmodium
vivax sai-1} PDB: 3mav_A 3cc9_A* 3ez3_A* 3ldw_A* 3mys_A*
3ph7_A* 3rbm_A*
Length = 395
Score = 27.6 bits (61), Expect = 6.9
Identities = 7/73 (9%), Positives = 15/73 (20%), Gaps = 7/73 (9%)
Query: 250 KAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDI 309
K + + K + K + +Y+ + S + I
Sbjct: 316 KTFELCSEPDKIKIVKNYGKNNLACVKVIDSLYE-------QYKIRKHYESYEKAQKAKI 368
Query: 310 FERIAAESSRLAH 322
I
Sbjct: 369 LSAINELHHEGIE 381
>1wa5_B Importin alpha subunit; nuclear transport/complex, nuclear
transport, exportin, RAN GTPase, protein transport; HET:
GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1
PDB: 1un0_A 2c1t_A 1bk5_A 1ee5_A 1bk6_A 1ee4_A
Length = 530
Score = 27.7 bits (61), Expect = 7.2
Identities = 11/72 (15%), Positives = 26/72 (36%), Gaps = 10/72 (13%)
Query: 247 SSGKAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKVLK----------QVHPDTGVSS 296
+ + ++ A +NI K + K R + + K Q + + +
Sbjct: 440 ADNRIIEVTLDALENILKMGEADKEARGLNINENADFIEKAGGMEKIFNCQQNENDKIYE 499
Query: 297 KAMSIMNSFVND 308
KA I+ ++ +
Sbjct: 500 KAYKIIETYFGE 511
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 6.93A {Bacillus subtilis}
Length = 758
Score = 27.5 bits (62), Expect = 9.2
Identities = 9/34 (26%), Positives = 18/34 (52%)
Query: 94 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE 127
A +V+EL+ + AR + + H+ L + + E
Sbjct: 84 AKKVIELSMDEARKLGHSYVGTEHILLGLIREGE 117
>3r45_A Histone H3-like centromeric protein A; histone fold, centromere,
CENP-A, histone chaperone, hjurp; 2.60A {Homo sapiens}
Length = 156
Score = 26.5 bits (57), Expect = 9.2
Identities = 16/122 (13%), Positives = 39/122 (31%), Gaps = 23/122 (18%)
Query: 243 AAGKSSGKAVKKAGKAQKNIAKSDKKKKHRRK------------ESYAIYIYKVLKQ--- 287
A + S G +++ + +H R+ +S + I K+
Sbjct: 28 APRRRSPSPTPTPGPSRRGPSLGASSHQHSRRRQGWLKEIRKLQKSTHLLIRKLPFSRLA 87
Query: 288 --------VHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 339
D ++A+ + + ++ L + R T+ +++Q A R
Sbjct: 88 REICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARR 147
Query: 340 LL 341
+
Sbjct: 148 IR 149
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
0.313 0.130 0.356
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: 5,341,953
Number of extensions: 338777
Number of successful extensions: 565
Number of sequences better than 10.0: 1
Number of HSP's gapped: 554
Number of HSP's successfully gapped: 60
Length of query: 365
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 270
Effective length of database: 4,049,298
Effective search space: 1093310460
Effective search space used: 1093310460
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 (21.9 bits)
S2: 58 (26.6 bits)