RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7393
(549 letters)
>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 = 170 bits (430), Expect = 1e-50
Identities = 105/125 (84%), Positives = 114/125 (91%), Gaps = 1/125 (0%)
Query: 198 AVPIPQIYTMSGRGK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVY 256
+ + +MSGRGK GGKA+AK+KTRSSRAGLQFPVGR+HRLLRKGNY+ERVGAGAPVY
Sbjct: 11 SSGLVPRGSMSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVY 70
Query: 257 LAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPN 316
LAAV+EYL AE+LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL VTIAQGGVLPN
Sbjct: 71 LAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPN 130
Query: 317 IQAGL 321
IQA L
Sbjct: 131 IQAVL 135
Score = 100 bits (250), Expect = 3e-25
Identities = 67/79 (84%), Positives = 74/79 (93%), Gaps = 1/79 (1%)
Query: 348 TMSGRGK-GGKTKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYL 406
+MSGRGK GGK + K+KTRSSRAGLQFPVGR+HRLLRKGNY+ERVGAGAPVYLAAV+EYL
Sbjct: 19 SMSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYL 78
Query: 407 AAEVLELAGNAARDNKKTH 425
AE+LELAGNAARDNKKT
Sbjct: 79 TAEILELAGNAARDNKKTR 97
>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 = 167 bits (423), Expect = 6e-50
Identities = 105/116 (90%), Positives = 111/116 (95%), Gaps = 1/116 (0%)
Query: 207 MSGRGK-GGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 265
MSGRGK GGKA+AK+K+RSSRAGLQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL
Sbjct: 1 MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLT 60
Query: 266 AEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAGL 321
AE+LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL VTIAQGGVLPNIQA L
Sbjct: 61 AEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVL 116
Score = 100 bits (249), Expect = 2e-25
Identities = 67/78 (85%), Positives = 73/78 (93%), Gaps = 1/78 (1%)
Query: 349 MSGRGK-GGKTKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLA 407
MSGRGK GGK + K+K+RSSRAGLQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL
Sbjct: 1 MSGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLT 60
Query: 408 AEVLELAGNAARDNKKTH 425
AE+LELAGNAARDNKKT
Sbjct: 61 AEILELAGNAARDNKKTR 78
>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C*
Length = 123
Score = 163 bits (412), Expect = 2e-48
Identities = 108/114 (94%), Positives = 111/114 (97%)
Query: 208 SGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE 267
SGRGKGGK K K+K+RS+RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE
Sbjct: 1 SGRGKGGKVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE 60
Query: 268 VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAGL 321
VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQA L
Sbjct: 61 VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVL 114
Score = 103 bits (256), Expect = 2e-26
Identities = 70/76 (92%), Positives = 73/76 (96%)
Query: 350 SGRGKGGKTKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE 409
SGRGKGGK K K+K+RS+RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE
Sbjct: 1 SGRGKGGKVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE 60
Query: 410 VLELAGNAARDNKKTH 425
VLELAGNAARDNKKT
Sbjct: 61 VLELAGNAARDNKKTR 76
>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 = 155 bits (391), Expect = 2e-45
Identities = 73/115 (63%), Positives = 90/115 (78%), Gaps = 2/115 (1%)
Query: 207 MSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 266
MS RG GK K+ +RS++AG+ FPVGR+ R ++KG+ R+G GAPVY+AAV+EYL A
Sbjct: 1 MSSRG--GKKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTA 58
Query: 267 EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAGL 321
E+LELA NAARDNKK R+ PRH+ LA+ NDEELN+LL GVTIA GGVLPNI L
Sbjct: 59 EILELAVNAARDNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPEL 113
Score = 90.7 bits (224), Expect = 5e-22
Identities = 46/77 (59%), Positives = 59/77 (76%), Gaps = 2/77 (2%)
Query: 349 MSGRGKGGKTKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 408
MS RG GK K+ +RS++AG+ FPVGR+ R ++KG+ R+G GAPVY+AAV+EYL A
Sbjct: 1 MSSRG--GKKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTA 58
Query: 409 EVLELAGNAARDNKKTH 425
E+LELA NAARDNKK
Sbjct: 59 EILELAVNAARDNKKGR 75
>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 = 149 bits (376), Expect = 3e-43
Identities = 88/115 (76%), Positives = 101/115 (87%), Gaps = 1/115 (0%)
Query: 208 SGRG-KGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 266
G+G K G A S++RS++AGL FPVGR+HRLLR+GNYA+R+G+GAPVYL AV+EYLAA
Sbjct: 2 GGKGGKAGSAAKASQSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLAA 61
Query: 267 EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAGL 321
E+LELAGNAARDNKKTRIIPRHLQLAIRND+ELNKLL VTIAQGGVLPNI L
Sbjct: 62 EILELAGNAARDNKKTRIIPRHLQLAIRNDDELNKLLGNVTIAQGGVLPNIHQNL 116
Score = 86.9 bits (214), Expect = 2e-20
Identities = 54/77 (70%), Positives = 66/77 (85%), Gaps = 1/77 (1%)
Query: 350 SGRG-KGGKTKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 408
G+G K G S++RS++AGL FPVGR+HRLLR+GNYA+R+G+GAPVYL AV+EYLAA
Sbjct: 2 GGKGGKAGSAAKASQSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLAA 61
Query: 409 EVLELAGNAARDNKKTH 425
E+LELAGNAARDNKKT
Sbjct: 62 EILELAGNAARDNKKTR 78
>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 = 138 bits (347), Expect = 5e-39
Identities = 72/119 (60%), Positives = 85/119 (71%), Gaps = 5/119 (4%)
Query: 207 MSGRGKG---GKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAER-VGAGAPVYLAAVME 262
M+G G GKAK K+ +RS RAGLQFPVGRIHR L+ + VGA A VY AA++E
Sbjct: 1 MAGGKAGKDSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILE 60
Query: 263 YLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAGL 321
YL AEVLELAGNA++D K RI PRHLQLAIR DEEL+ L+ TIA GGV+P+I L
Sbjct: 61 YLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI-KATIAGGGVIPHIHKSL 118
Score = 82.3 bits (202), Expect = 5e-19
Identities = 47/81 (58%), Positives = 56/81 (69%), Gaps = 4/81 (4%)
Query: 349 MSGRGKG---GKTKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAER-VGAGAPVYLAAVME 404
M+G G GK KTK+ +RS RAGLQFPVGRIHR L+ + VGA A VY AA++E
Sbjct: 1 MAGGKAGKDSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILE 60
Query: 405 YLAAEVLELAGNAARDNKKTH 425
YL AEVLELAGNA++D K
Sbjct: 61 YLTAEVLELAGNASKDLKVKR 81
>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 = 106 bits (265), Expect = 6e-27
Identities = 61/116 (52%), Positives = 79/116 (68%), Gaps = 2/116 (1%)
Query: 203 QIYTMSGRGKGGKAKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAER-VGAGAPVYLAAVM 261
+ + + ++++ S+RAGLQFPVGRI R L++ VG+ A +YL AV+
Sbjct: 78 AVSEGTRAVTKYSSSTQAQSSSARAGLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVL 137
Query: 262 EYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNI 317
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 = 90.3 bits (224), Expect = 3e-22
Identities = 14/77 (18%), Positives = 33/77 (42%)
Query: 222 TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 281
++ + +FP RI ++++ +V A PV ++ +E +L+ A +
Sbjct: 3 SKKKKYNARFPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNA 62
Query: 282 TRIIPRHLQLAIRNDEE 298
+ HL+ I + +
Sbjct: 63 KTMTTSHLKQCIELEGD 79
Score = 69.2 bits (169), Expect = 1e-14
Identities = 11/60 (18%), Positives = 26/60 (43%)
Query: 364 TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 423
++ + +FP RI ++++ +V A PV ++ +E +L+ A +
Sbjct: 3 SKKKKYNARFPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNA 62
>1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens}
SCOP: a.22.1.3
Length = 97
Score = 55.0 bits (132), Expect = 7e-10
Identities = 15/70 (21%), Positives = 31/70 (44%)
Query: 230 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHL 289
+ P+ RI ++++ + + A APV A + E+ A DNK+ + +
Sbjct: 19 ELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDI 78
Query: 290 QLAIRNDEEL 299
+AI ++
Sbjct: 79 AMAITKFDQF 88
Score = 39.9 bits (93), Expect = 2e-04
Identities = 13/52 (25%), Positives = 24/52 (46%)
Query: 372 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 423
+ P+ RI ++++ + + A APV A + E+ A DNK+
Sbjct: 19 ELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKR 70
>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 = 56.0 bits (134), Expect = 2e-08
Identities = 26/84 (30%), Positives = 49/84 (58%), Gaps = 1/84 (1%)
Query: 216 AKAKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNA 275
A++ + R R L PV +IH LL++ ++ VY+ AV+EY++A++L+L GN
Sbjct: 90 AQSAIEKRKRRNPLSLPVEKIHPLLKEVL-GYKIDHQVSVYIVAVLEYISADILKLVGNY 148
Query: 276 ARDNKKTRIIPRHLQLAIRNDEEL 299
R+ + I + +++A+ D+ L
Sbjct: 149 VRNIRHYEITKQDIKVAMCADKVL 172
Score = 47.1 bits (111), Expect = 1e-05
Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 365 RSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAAR 419
R R L PV +IH LL++ ++ VY+ AV+EY++A++L+L GN R
Sbjct: 97 RKRRNPLSLPVEKIHPLLKEVL-GYKIDHQVSVYIVAVLEYISADILKLVGNYVR 150
>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 = 43.5 bits (102), Expect = 2e-05
Identities = 8/88 (9%), Positives = 25/88 (28%), Gaps = 2/88 (2%)
Query: 214 GKAKAKSKTRSSRAG-LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELA 272
G+ +++ P+ R+ +++ + + E + A
Sbjct: 2 GEPRSQPPVERPPTAETFLPLSRVRTIMKSSMDTGLITNEVLFLMTKCTELFVRHLAGAA 61
Query: 273 GNAARDNKKTRII-PRHLQLAIRNDEEL 299
+ + HL + ++ L
Sbjct: 62 YTEEFGQRPGEALKYEHLSQVVNKNKNL 89
Score = 32.7 bits (74), Expect = 0.096
Identities = 5/69 (7%), Positives = 18/69 (26%), Gaps = 1/69 (1%)
Query: 356 GKTKTKSKTRSSRAG-LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELA 414
G+ +++ P+ R+ +++ + + E + A
Sbjct: 2 GEPRSQPPVERPPTAETFLPLSRVRTIMKSSMDTGLITNEVLFLMTKCTELFVRHLAGAA 61
Query: 415 GNAARDNKK 423
+
Sbjct: 62 YTEEFGQRP 70
>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 = 41.2 bits (96), Expect = 0.001
Identities = 60/334 (17%), Positives = 96/334 (28%), Gaps = 130/334 (38%)
Query: 33 VEMMKGSFFLGAFSTDAAGQLDVLGHDGHSLGVDGAQVRVLEQT--HQVGLASLLQGHHG 90
+ + FF+G +A + +LE + + G+ S +
Sbjct: 297 RKAITVLFFIGVRCYEAYPNTSL-------------PPSILEDSLENNEGVPSPM----- 338
Query: 91 RALEAQVGLEVLGDLTHQTLERQLADQQLGALLVATDLTESH--RAGTVTVGLLHAAGGR 148
L + LT + ++ + + T SH V + L++ G
Sbjct: 339 --------LSISN-LTQEQVQDYV------------NKTNSHLPAGKQVEISLVN---GA 374
Query: 149 RA--LAGCLRRQLLPRGLASGRLASGLLRTGHVCKRNDSSITQSRSFSIPGAVPIPQIYT 206
+ ++G P+ L L LR D QSR IP
Sbjct: 375 KNLVVSG------PPQSLYGLNLT---LRKAKAPSGLD----QSR---IP---------- 408
Query: 207 MSGRGKGGKAKAKSKTRSSRAGLQF-PVG-------------RIHRLLRKGNYAERVGA- 251
S R K K R F PV I++ L K N +
Sbjct: 409 FSER------KLKFSNR-------FLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDI 455
Query: 252 GAPVYL-----------AAVMEYLAAEVLELAGN--AARDNKKTRII---P----RHLQL 291
PVY ++ E + ++ L K T I+ P L
Sbjct: 456 QIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVL 515
Query: 292 AIRNDEELNKLLSGVTIAQGGVL---PNIQAGLK 322
RN + +GV + G L P+ G K
Sbjct: 516 THRNKD-----GTGVRVIVAGTLDINPDDDYGFK 544
Score = 38.5 bits (89), Expect = 0.007
Identities = 93/560 (16%), Positives = 151/560 (26%), Gaps = 189/560 (33%)
Query: 105 LTHQTLE-------------RQLADQQLGALLVATDLTESHRAGTVTVGLL-----HAAG 146
L+H +LE QL +Q L T+ + T L+ + +
Sbjct: 11 LSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSS 70
Query: 147 GRRALAGCLRRQLLPRGLASGRLASGLLRTGHVCKRNDSSITQSRSFSIPGAVPIPQIYT 206
Q+L L + L ND I + + +
Sbjct: 71 LVEPSKVGQFDQVLNLCL--TEFENCYLEG------ND--I-HALAAKLLQENDTTL--- 116
Query: 207 MSGRGKGGKAKAKSKTRS---SRAGLQFPVGRIHR--LLR---KGN---YAERVGAGAP- 254
K K ++ +R + P + L R +GN A G G
Sbjct: 117 ---------VKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD 167
Query: 255 -----------VYLAAVMEYL--AAEVL-ELAGNAARDNK-------------KTRIIPR 287
Y V + + +AE L EL K P
Sbjct: 168 DYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD 227
Query: 288 H---------------LQLA-----IR----NDEELNKLLSGVTIAQGGVLPNI---QAG 320
+QLA + EL L G T G++ + +
Sbjct: 228 KDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETD 287
Query: 321 LKAEF------SITISLFSF------VFDNEAVP--IQQNYTMSGRGK-------GGKTK 359
F +IT+ LF + N ++P I ++ + G T+
Sbjct: 288 SWESFFVSVRKAITV-LFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQ 346
Query: 360 TKSKTRSSRAGLQFPVGR-IHRLLRKG--NYAERVGAGAPVYLAAVMEYLAAEVLELAGN 416
+ + ++ P G+ + L G N V +G P L L + +
Sbjct: 347 EQVQDYVNKTNSHLPAGKQVEISLVNGAKNL---VVSGPPQSLYG----LNLTLRKAKAP 399
Query: 417 AARDNKKT--------------------HSWWCLTAETVQGAALTFERVDDVHGGDGLSL 456
+ D + HS + A + L V + D + +
Sbjct: 400 SGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNV-SFNAKD-IQI 457
Query: 457 GVLGVGDGVADHVLEEHLENATGLLVD----EPGD---TLDSTSTRQTTDGGLGDSLDVV 509
V DG +D L + + +VD P T +T LD
Sbjct: 458 PVYDTFDG-SD--LRVLSGSISERIVDCIIRLPVKWETTTQFKATH---------ILD-- 503
Query: 510 TEYFPVPLGTSFSESLSSLT 529
F P G S L LT
Sbjct: 504 ---FG-PGGAS---GLGVLT 516
Score = 37.0 bits (85), Expect = 0.022
Identities = 37/184 (20%), Positives = 57/184 (30%), Gaps = 54/184 (29%)
Query: 2 GSSNDEPIEDE-EEEGARINF----VALKR------AVL---RSRVEMMKGSFFLGAFST 47
G E I E E F L A+ ++ E +K G
Sbjct: 1699 GKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSK---GLIPA 1755
Query: 48 DA--AGQLDVLGHDGHSLG-----VDGAQVRVLEQT----HQVGLA---SLLQGHHGRAL 93
DA AG HSLG A V +E G+ ++ + GR+
Sbjct: 1756 DATFAG---------HSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSN 1806
Query: 94 EAQVGL---EVLGDLTHQTLER--QLADQQLGALL-VATDLTESHRAGTVTVGLLHAAGG 147
+ + V + + L+ + ++ G L+ + E V AAG
Sbjct: 1807 YGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVE----NQQYV----AAGD 1858
Query: 148 RRAL 151
RAL
Sbjct: 1859 LRAL 1862
Score = 36.6 bits (84), Expect = 0.023
Identities = 46/225 (20%), Positives = 69/225 (30%), Gaps = 88/225 (39%)
Query: 179 VCKRNDSSITQSRSFSIPGAVPI-PQIYTMSGRGKGGKA--------------------- 216
V R D+ + FSI V P T+ G+ GK
Sbjct: 1645 VWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTE 1704
Query: 217 --------KAKSKTRSSRAGL----QF--P----VGR-IHRLLR-KGNY-AERVGAG--- 252
+ S T S GL QF P + + L+ KG A+ AG
Sbjct: 1705 KIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSL 1764
Query: 253 ----APVYLAAVMEYL----AAEVLELAGNAARDNKKTRIIPRHLQ-------LAIR--- 294
A LA++ + + EV+ G + +PR +AI
Sbjct: 1765 GEYAA---LASLADVMSIESLVEVVFYRGMTMQV-----AVPRDELGRSNYGMIAINPGR 1816
Query: 295 -----NDEELNKLLSGVTIAQGGVL-------PNIQ---AG-LKA 323
+ E L ++ V G ++ N Q AG L+A
Sbjct: 1817 VAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRA 1861
Score = 36.2 bits (83), Expect = 0.034
Identities = 25/167 (14%), Positives = 48/167 (28%), Gaps = 51/167 (30%)
Query: 388 AERVGAGAPVYLAAVMEYLAAEVLELA--------G----NAARDNKKTHSWWCLTAETV 435
++ G G +Y + A +V A G + +N + E
Sbjct: 1626 SQEQGMGMDLYKTSK---AAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIH-FGGEKG 1681
Query: 436 QG-----AALTFERVDDVHGGDGLSLGVLGVGDGVADHVLEEHLENATGLLVDEPGDTLD 490
+ +A+ FE + D G + + +E E++T L
Sbjct: 1682 KRIRENYSAMIFETIVD--------------GKLKTEKIFKEINEHSTSYTFRSEKGLLS 1727
Query: 491 STSTRQ----TTDGGLGDSLDVVTEYFPVPLGTSFSESLSSLTTAGH 533
+T Q + + + +P +F AGH
Sbjct: 1728 ATQFTQPALTLMEKAA---FEDLKSKGLIPADATF---------AGH 1762
Score = 31.9 bits (72), Expect = 0.75
Identities = 35/177 (19%), Positives = 56/177 (31%), Gaps = 72/177 (40%)
Query: 16 GARINFV------ALKRAV--LR----------SRVEM--MKGSF---FL--GA-F-S-- 46
GA+ N V +L LR SR+ K F FL + F S
Sbjct: 373 GAK-NLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHL 431
Query: 47 -TDAAGQL--DVLGHD----GHSLGV------DGAQVRVLEQ-----------THQV--G 80
A+ + D++ ++ + + DG+ +RVL V
Sbjct: 432 LVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWE 491
Query: 81 LASLLQGHH----GRALEAQVGLEVLGDLTHQTLERQLADQQLGA-LLVATDLTESH 132
+ + H G G LG LTH+ + G ++VA L +
Sbjct: 492 TTTQFKATHILDFGPG-----GASGLGVLTHRNKDGT------GVRVIVAGTLDINP 537
>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 = 38.1 bits (87), Expect = 0.004
Identities = 20/145 (13%), Positives = 42/145 (28%), Gaps = 4/145 (2%)
Query: 226 RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRII 285
+ V + + R + A + L E +LE A K+ I+
Sbjct: 14 KIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKRITIM 73
Query: 286 PRHLQLA--IRNDEELNKLLSGVTIAQGGVLPNIQAGLKAEFSITISLFSFVFDNEAVPI 343
+ +QLA IR + + + + + + +++ V +
Sbjct: 74 KKDMQLARRIRGQFLVPRGSMERHKLADENMRKVWSNIISKYESIEEQGDLVDLKTGEIV 133
Query: 344 QQNYTMSGRGKGGKTKTKSKTRSSR 368
+ N + TK K
Sbjct: 134 EDN--GHIKTLTANNSTKDKRTKYT 156
>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 = 35.6 bits (81), Expect = 0.043
Identities = 57/402 (14%), Positives = 111/402 (27%), Gaps = 117/402 (29%)
Query: 88 HHGRALEAQVGLEVLG--DLTHQTLERQLADQQLGALLVATDLTESHRAGTVT------- 138
HH ++ + G D+ + + + D+ + + ++
Sbjct: 2 HHHHHMDFETGEHQYQYKDILSVFEDAFVDN------FDCKDVQDMPK-SILSKEEIDHI 54
Query: 139 VGLLHAAGGRRALAGCLRRQ------------------LLPRGLASGRLASGLLRTGHVC 180
+ A G L L + L + + + ++ ++
Sbjct: 55 IMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIE 114
Query: 181 KRNDSSITQSRSFSIPGAVPIPQ-------------------IYTMSGRGKGGKAKAKSK 221
+R D ++ F+ V Q I + G GK A
Sbjct: 115 QR-DRLYNDNQVFA-KYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK--TWVALDV 170
Query: 222 TRSSRAGLQFPVGRIHRL-LRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNK 280
S + + +I L L+ N E V+E L + ++ N +
Sbjct: 171 CLSYKVQCKMD-FKIFWLNLKNCNSPE-----------TVLEMLQKLLYQIDPNWTSRSD 218
Query: 281 KTRIIPRHLQLAIRNDEEL-------NKLLSGVTIAQGGVLPNIQAG--LKAEFSIT--- 328
+ I + L N LL VL N+Q A F+++
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPYENCLL---------VLLNVQNAKAWNA-FNLSCKI 268
Query: 329 --ISLFSFVFDNEAVPIQQNYTMSGRGKGGKTKTKSKTRSSRAGLQFPVGRIHRLLRKGN 386
+ F V D + + ++ T + K+ + L + R + N
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSM-TLTPDEVKSLLLKY-LDCRPQDLPREVLTTN 326
Query: 387 YAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTHSWW 428
P L+ + AE + RD T W
Sbjct: 327 ---------PRRLS-----IIAESI-------RDGLATWDNW 347
Score = 31.4 bits (70), Expect = 1.0
Identities = 14/80 (17%), Positives = 27/80 (33%), Gaps = 6/80 (7%)
Query: 219 KSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARD 278
+ K R ++ L + Y + P Y V L + L
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAIL--DFLPKIEENLIC 561
Query: 279 NKKTRIIPRHLQLAIRNDEE 298
+K T + L++A+ ++E
Sbjct: 562 SKYTDL----LRIALMAEDE 577
>2yfw_B Histone H4, H4; cell cycle, kinetochore, centromere, histone
chaperone, BUDD; 2.60A {Kluyveromyces lactis nrrl
y-1140}
Length = 103
Score = 32.7 bits (74), Expect = 0.071
Identities = 23/93 (24%), Positives = 37/93 (39%), Gaps = 6/93 (6%)
Query: 207 MSGRGKGGKAKAKSKTRSSRAGLQ-----FPVGRIHRLLRKGNYAERVGAGAPVYLAAVM 261
MSGRGKGGK K + R L+ I RL R+G +R+ + V+
Sbjct: 1 MSGRGKGGKGLGKGGAKRHRKILRDNIQGITKPAIRRLARRGG-VKRISGLIYEEVRNVL 59
Query: 262 EYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 294
+ V+ A K+ + + A++
Sbjct: 60 KTFLESVIRDAVTYTEHAKRKTVTSLDVVYALK 92
Score = 26.9 bits (59), Expect = 6.0
Identities = 22/81 (27%), Positives = 32/81 (39%), Gaps = 6/81 (7%)
Query: 349 MSGRGKGGKTKTKSKTRSSRAGLQ-----FPVGRIHRLLRKGNYAERVGAGAPVYLAAVM 403
MSGRGKGGK K + R L+ I RL R+G +R+ + V+
Sbjct: 1 MSGRGKGGKGLGKGGAKRHRKILRDNIQGITKPAIRRLARRGG-VKRISGLIYEEVRNVL 59
Query: 404 EYLAAEVLELAGNAARDNKKT 424
+ V+ A K+
Sbjct: 60 KTFLESVIRDAVTYTEHAKRK 80
>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 = 0.21
Identities = 23/93 (24%), Positives = 36/93 (38%), Gaps = 6/93 (6%)
Query: 207 MSGRGKGGKAKAKS----KTRSSRAGLQF-PVGRIHRLLRKGNYAERVGAGAPVYLAAVM 261
MSGRGKGGK K + R +Q I RL R+G +R+ V+
Sbjct: 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGG-VKRISGLIYEETRGVL 59
Query: 262 EYLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 294
+ V+ A K+ + + A++
Sbjct: 60 KVFLENVIRDAVTYTEHAKRKTVTAMDVVYALK 92
Score = 27.2 bits (60), Expect = 4.6
Identities = 21/71 (29%), Positives = 29/71 (40%), Gaps = 6/71 (8%)
Query: 349 MSGRGKGG----KTKTKSKTRSSRAGLQF-PVGRIHRLLRKGNYAERVGAGAPVYLAAVM 403
MSGRGKGG K K + R +Q I RL R+G +R+ V+
Sbjct: 1 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGG-VKRISGLIYEETRGVL 59
Query: 404 EYLAAEVLELA 414
+ V+ A
Sbjct: 60 KVFLENVIRDA 70
>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 = 2.3
Identities = 22/92 (23%), Positives = 37/92 (40%), Gaps = 6/92 (6%)
Query: 208 SGRGKGGKAKAKSKTRSSRAGLQ-----FPVGRIHRLLRKGNYAERVGAGAPVYLAAVME 262
SGRGKGGK K + R L+ I RL R+G +R+ + AV++
Sbjct: 1 SGRGKGGKGLGKGGAKRHRKILRDNIQGITKPAIRRLARRGG-VKRISGLIYEEVRAVLK 59
Query: 263 YLAAEVLELAGNAARDNKKTRIIPRHLQLAIR 294
V+ + K+ + + A++
Sbjct: 60 SFLESVIRDSVTYTEHAKRKTVTSLDVVYALK 91
>3hs8_A Adaptor protein complex AP-2, alpha 2 subunit; adaptor complex
AP-2, endocytosis, cell membrane, coated PIT binding,
membrane, disease mutation; 1.90A {Mus musculus}
Length = 273
Score = 29.7 bits (66), Expect = 2.5
Identities = 12/68 (17%), Positives = 25/68 (36%), Gaps = 7/68 (10%)
Query: 286 PRHLQLAIRNDEELNKLLSGVTIAQGGVL---PNIQAGLKAEFSITISLFSFVFDNEAVP 342
+ + ++ + + GVL +Q GLK+EF + + N+
Sbjct: 27 GQQMGRGSEFEDNFARFV----CKNNGVLFENQLLQIGLKSEFRQNLGRMFIFYGNKTST 82
Query: 343 IQQNYTMS 350
N+T +
Sbjct: 83 QFLNFTPT 90
>2vd5_A DMPK protein; serine/threonine-protein kinase, kinase, transferase,
ATP-BI nucleotide-binding, cardiac contractility, muscle
different; HET: BI8; 2.80A {Homo sapiens}
Length = 412
Score = 28.1 bits (63), Expect = 7.1
Identities = 8/29 (27%), Positives = 12/29 (41%), Gaps = 2/29 (6%)
Query: 404 EYLAAEVLELAGNAARDNKKTHS--WWCL 430
+YL+ E+L+ G WW L
Sbjct: 228 DYLSPEILQAVGGGPGTGSYGPECDWWAL 256
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
0.316 0.134 0.378
Gapped
Lambda K H
0.267 0.0750 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,309,344
Number of extensions: 540116
Number of successful extensions: 950
Number of sequences better than 10.0: 1
Number of HSP's gapped: 931
Number of HSP's successfully gapped: 48
Length of query: 549
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 451
Effective length of database: 3,965,535
Effective search space: 1788456285
Effective search space used: 1788456285
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: 41 (21.6 bits)
S2: 60 (26.8 bits)