RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17765
(475 letters)
>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 = 203 bits (515), Expect = 2e-63
Identities = 135/201 (67%), Positives = 161/201 (80%), Gaps = 10/201 (4%)
Query: 32 RKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSR 91
RKE+Y+ YIYKVLKQ HPDTG+S K+MSI+NSFVNDIFERIA E+S+LA YNK+STI++R
Sbjct: 1 RKETYSSYIYKVLKQTHPDTGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTISAR 60
Query: 92 EIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSKGKGGKAKTKSKTRSSRAGLQFPVGRIH 151
EIQTAVRL+LPGELAKHAVSEGT+AVTKY+SS ++ S+RAGLQFPVGRI
Sbjct: 61 EIQTAVRLILPGELAKHAVSEGTRAVTKYSSSTQA--------QSSSARAGLQFPVGRIK 112
Query: 152 RLLRKGNYAER-VGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRND 210
R L++ VG+ A +YL AV+EYL AEVLELAGNAA+D K RI PRHLQLAIR D
Sbjct: 113 RYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAAKDLKVKRITPRHLQLAIRGD 172
Query: 211 EELNKLLSGVTIAQGGVLPNI 231
+EL+ L+ TIA GGVLP+I
Sbjct: 173 DELDSLI-RATIASGGVLPHI 192
Score = 96.8 bits (239), Expect = 2e-23
Identities = 44/85 (51%), Positives = 54/85 (63%)
Query: 386 RKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITKD 445
RKE+Y+ YIYKVLKQ HPDTG+S K+MSI+NSFVNDIFERIA E+S+LA YNK+STI+
Sbjct: 1 RKETYSSYIYKVLKQTHPDTGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTISAR 60
Query: 446 LCPSVCLYSYTLYERTCVTLWACTH 470
+
Sbjct: 61 EIQTAVRLILPGELAKHAVSEGTRA 85
>2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D*
Length = 123
Score = 172 bits (436), Expect = 2e-52
Identities = 111/120 (92%), Positives = 116/120 (96%)
Query: 5 KSSGKAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSF 64
K+SGKA KKAGKAQKNI K+DKKKK +RKESYAIYIY VLKQVHPDTG+SSKAMSIMNSF
Sbjct: 4 KTSGKAAKKAGKAQKNITKTDKKKKRKRKESYAIYIYTVLKQVHPDTGISSKAMSIMNSF 63
Query: 65 VNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSK 124
VNDIFERIAAE+SRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSK
Sbjct: 64 VNDIFERIAAEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSK 123
Score = 112 bits (280), Expect = 7e-30
Identities = 77/86 (89%), Positives = 82/86 (95%)
Query: 359 KSSGKAVKKAGKAQKNITKSDKKKKPRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSF 418
K+SGKA KKAGKAQKNITK+DKKKK +RKESYAIYIY VLKQVHPDTG+SSKAMSIMNSF
Sbjct: 4 KTSGKAAKKAGKAQKNITKTDKKKKRKRKESYAIYIYTVLKQVHPDTGISSKAMSIMNSF 63
Query: 419 VNDIFERIAAESSRLAHYNKRSTITK 444
VNDIFERIAAE+SRLAHYNKRSTIT
Sbjct: 64 VNDIFERIAAEASRLAHYNKRSTITS 89
>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 = 158 bits (401), Expect = 3e-47
Identities = 99/126 (78%), Positives = 104/126 (82%), Gaps = 2/126 (1%)
Query: 1 MAAGKSSGKAVKKAGK--AQKNIAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAM 58
M S A KK K K K DKK+K RKESY+IY+YKVLKQVHPDTG+SSKAM
Sbjct: 1 MPEPAKSAPAPKKGSKKAVTKTQKKGDKKRKKSRKESYSIYVYKVLKQVHPDTGISSKAM 60
Query: 59 SIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVT 118
IMNSFVNDIFERIA E+SRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVT
Sbjct: 61 GIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVT 120
Query: 119 KYTSSK 124
KYTSSK
Sbjct: 121 KYTSSK 126
Score = 99.9 bits (248), Expect = 2e-25
Identities = 64/92 (69%), Positives = 69/92 (75%), Gaps = 2/92 (2%)
Query: 355 MAAGKSSGKAVKKAGK--AQKNITKSDKKKKPRRKESYAIYIYKVLKQVHPDTGVSSKAM 412
M S A KK K K K DKK+K RKESY+IY+YKVLKQVHPDTG+SSKAM
Sbjct: 1 MPEPAKSAPAPKKGSKKAVTKTQKKGDKKRKKSRKESYSIYVYKVLKQVHPDTGISSKAM 60
Query: 413 SIMNSFVNDIFERIAAESSRLAHYNKRSTITK 444
IMNSFVNDIFERIA E+SRLAHYNKRSTIT
Sbjct: 61 GIMNSFVNDIFERIAGEASRLAHYNKRSTITS 92
>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 = 155 bits (392), Expect = 1e-45
Identities = 103/133 (77%), Positives = 110/133 (82%), Gaps = 1/133 (0%)
Query: 103 GELAKHAVSEGTKAVTKYTSSKGK-GGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAE 161
G H S +GK GGKA+ K+KTRSSRAGLQFPVGR+HRLLRKGNY+E
Sbjct: 2 GSSHHHHHHSSGLVPRGSMSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSE 61
Query: 162 RVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVT 221
RVGAGAPVYLAAV+EYL AE+LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL VT
Sbjct: 62 RVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGRVT 121
Query: 222 IAQGGVLPNIQAV 234
IAQGGVLPNIQAV
Sbjct: 122 IAQGGVLPNIQAV 134
>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C*
Length = 123
Score = 151 bits (383), Expect = 9e-45
Identities = 106/113 (93%), Positives = 110/113 (97%)
Query: 122 SSKGKGGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE 181
S +GKGGK K K+K+RS+RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE
Sbjct: 1 SGRGKGGKVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAE 60
Query: 182 VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAV 234
VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAV
Sbjct: 61 VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAV 113
>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 = 150 bits (380), Expect = 3e-44
Identities = 101/114 (88%), Positives = 108/114 (94%), Gaps = 1/114 (0%)
Query: 122 SSKGK-GGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAA 180
S +GK GGKA+ K+K+RSSRAGLQFPVGR+HRLLRKGNYAERVGAGAPVYLAAV+EYL A
Sbjct: 2 SGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTA 61
Query: 181 EVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAV 234
E+LELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLL VTIAQGGVLPNIQAV
Sbjct: 62 EILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAV 115
>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 = 147 bits (371), Expect = 4e-43
Identities = 69/110 (62%), Positives = 87/110 (79%)
Query: 125 GKGGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLE 184
+GGK K+ +RS++AG+ FPVGR+ R ++KG+ R+G GAPVY+AAV+EYL AE+LE
Sbjct: 3 SRGGKKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILE 62
Query: 185 LAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAV 234
LA NAARDNKK R+ PRH+ LA+ NDEELN+LL GVTIA GGVLPNI
Sbjct: 63 LAVNAARDNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPE 112
>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 = 140 bits (354), Expect = 2e-40
Identities = 86/110 (78%), Positives = 98/110 (89%)
Query: 125 GKGGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLE 184
GK G A S++RS++AGL FPVGR+HRLLR+GNYA+R+G+GAPVYL AV+EYLAAE+LE
Sbjct: 6 GKAGSAAKASQSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLAAEILE 65
Query: 185 LAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAV 234
LAGNAARDNKKTRIIPRHLQLAIRND+ELNKLL VTIAQGGVLPNI
Sbjct: 66 LAGNAARDNKKTRIIPRHLQLAIRNDDELNKLLGNVTIAQGGVLPNIHQN 115
>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 = 127 bits (319), Expect = 2e-35
Identities = 69/113 (61%), Positives = 82/113 (72%), Gaps = 2/113 (1%)
Query: 123 SKGKGGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAER-VGAGAPVYLAAVMEYLAAE 181
+ GKAKTK+ +RS RAGLQFPVGRIHR L+ + VGA A VY AA++EYL AE
Sbjct: 6 AGKDSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAE 65
Query: 182 VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAV 234
VLELAGNA++D K RI PRHLQLAIR DEEL+ L+ TIA GGV+P+I
Sbjct: 66 VLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI-KATIAGGGVIPHIHKS 117
>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 = 84.9 bits (210), Expect = 2e-20
Identities = 14/77 (18%), Positives = 33/77 (42%)
Query: 136 TRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKK 195
++ + +FP RI ++++ +V A PV ++ +E +L+ A +
Sbjct: 3 SKKKKYNARFPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNA 62
Query: 196 TRIIPRHLQLAIRNDEE 212
+ HL+ I + +
Sbjct: 63 KTMTTSHLKQCIELEGD 79
Score = 29.9 bits (67), Expect = 0.57
Identities = 9/60 (15%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 40 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIF-ERIAAESSRLAHYNKRSTITSREIQTAVR 98
I K+++ + G + A+ ++ S ++F E + ++ ++ T+T+ ++ +
Sbjct: 17 IKKIMQTD-EEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCIE 75
>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 = 72.9 bits (178), Expect = 1e-13
Identities = 39/174 (22%), Positives = 77/174 (44%), Gaps = 28/174 (16%)
Query: 40 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 99
+ KV QVHP + A+ + + + + R ++ +++ V+
Sbjct: 27 LKKVQGQVHPTLESNDDALQYVEELILQLLNMLCQAQPR----------SASDVEERVQK 76
Query: 100 LLPGELAKHAVSEGTKAVTKYTSSKGKGGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNY 159
P + K A+++ A+ K R R L PV +IH LL++
Sbjct: 77 SFPHPIDKWAIADAQSAIEK-----------------RKRRNPLSLPVEKIHPLLKEVL- 118
Query: 160 AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEEL 213
++ VY+ AV+EY++A++L+L GN R+ + I + +++A+ D+ L
Sbjct: 119 GYKIDHQVSVYIVAVLEYISADILKLVGNYVRNIRHYEITKQDIKVAMCADKVL 172
Score = 29.0 bits (64), Expect = 4.5
Identities = 8/39 (20%), Positives = 15/39 (38%)
Query: 394 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSR 432
+ KV QVHP + A+ + + + + R
Sbjct: 27 LKKVQGQVHPTLESNDDALQYVEELILQLLNMLCQAQPR 65
>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 = 64.5 bits (156), Expect = 4e-11
Identities = 65/477 (13%), Positives = 125/477 (26%), Gaps = 160/477 (33%)
Query: 42 KVLKQVHPDTGV-------SSKAMSIMNSFVND--------IFERIAAESSRLAHYNKRS 86
++ +G SK ++ FV + + I E + S
Sbjct: 53 HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTE------QRQPS 106
Query: 87 TITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSKGKGGKAKTKSKTRSSRAGLQFP 146
+T I+ RL + KY S+ + P
Sbjct: 107 MMTRMYIEQRDRL-----------YNDNQVFAKYNVSRLQ-------------------P 136
Query: 147 VGRIHRLLRKGNYAERV------GAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIP 200
++ + L + A+ V G+G +A +V K +
Sbjct: 137 YLKLRQALLELRPAKNVLIDGVLGSGKTW--------VALDVC-------LSYKVQCKMD 181
Query: 201 RH---LQLAIRNDEE-----LNKLLSGVTIAQGGVLPNIQAVRVLEQTHQVGLASLLQGH 252
L L N E L KLL + + +++ + Q L LL+
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 253 -HGRALEAQRVDDVHGGDGLSLGVLGVGDGVADHVLEEHLENATGLLVDESGNTLDSTST 311
+ L L VL V + + + S L +T
Sbjct: 242 PYENCL-------------L---VL---LNVQN---AKAWN-----AFNLSCKIL--LTT 272
Query: 312 RQTTDGGLGDSLDV--VTEYFPVPLGASFS--ESLS------SLTTADL---------LS 352
R + D L T + + E S DL
Sbjct: 273 R---FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR 329
Query: 353 ITMAAGKSSGKAVKKAGKAQ-KNITKSDKKKKPR-RKESYAIYIYKVLKQ------VHP- 403
+++ A + G A N + K + S + ++ V P
Sbjct: 330 LSIIA------ESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP 383
Query: 404 DTGVSSKAMSIM--NSFVNDIFERIAAESSRLAHYNKRSTITKDLCPSVCLYSYTLY 458
+ + +S++ + +D+ + + K S + K + ++
Sbjct: 384 SAHIPTILLSLIWFDVIKSDV-MVVVNKLH------KYSLVEKQPKE----STISIP 429
Score = 42.9 bits (100), Expect = 2e-04
Identities = 34/248 (13%), Positives = 72/248 (29%), Gaps = 69/248 (27%)
Query: 19 KNIAKSDKKKKHR-RKESYAIYIYKVLKQ------VHP-DTGVSSKAMSIM--NSFVNDI 68
N + K + S + ++ V P + + +S++ + +D+
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV 404
Query: 69 FERIAAE---SSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSKG 125
+ + S + K STI+ I +++ L E A H V Y K
Sbjct: 405 -MVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR-----SIVDHYNIPKT 458
Query: 126 KGGKAKT--------------------------------------KSKTRSSRAGLQFPV 147
+ K R
Sbjct: 459 FDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASG 518
Query: 148 GRIHRLLRKGNYAERVGAGAPVY---LAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQ 204
++ L + Y + P Y + A++++L ++ N K T + L+
Sbjct: 519 SILNTLQQLKFYKPYICDNDPKYERLVNAILDFL----PKIEENLICS-KYTDL----LR 569
Query: 205 LAIRNDEE 212
+A+ ++E
Sbjct: 570 IALMAEDE 577
>1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens}
SCOP: a.22.1.3
Length = 97
Score = 52.3 bits (125), Expect = 6e-09
Identities = 15/70 (21%), Positives = 31/70 (44%)
Query: 144 QFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHL 203
+ P+ RI ++++ + + A APV A + E+ A DNK+ + +
Sbjct: 19 ELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDI 78
Query: 204 QLAIRNDEEL 213
+AI ++
Sbjct: 79 AMAITKFDQF 88
Score = 29.5 bits (66), Expect = 0.75
Identities = 11/59 (18%), Positives = 22/59 (37%)
Query: 40 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 98
I K++K +S++A + + + NKR T+ +I A+
Sbjct: 25 IKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAIT 83
>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 = 48.9 bits (116), Expect = 4e-06
Identities = 80/549 (14%), Positives = 144/549 (26%), Gaps = 217/549 (39%)
Query: 34 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREI 93
E ++ V V P + ++N + + FE Y + +I
Sbjct: 59 ELVGKFLGYVSSLVEPSK--VGQFDQVLNLCLTE-FEN---------CY-----LEGNDI 101
Query: 94 QT-AVRLLLPGELAKHAVSEGTKAVTKYTSSKGKGGKAKTKSKT----RSSRAG-----L 143
A +LL + E K Y +++ + K R+ G
Sbjct: 102 HALAAKLLQENDTTLVKTKELIKN---YITARIMAKRPFDKKSNSALFRAVGEGNAQLVA 158
Query: 144 QFPVGRIHRLLRKGN-----------YAERVGAGAPVYLAAVMEYL--AAEVL-ELAGNA 189
F G +GN Y Y V + + +AE L EL
Sbjct: 159 IFG-G-------QGNTDDYFEELRDLYQ--------TYHVLVGDLIKFSAETLSELIRTT 202
Query: 190 ARDNK-------------KTRIIPRH---------------LQLA-----IR----NDEE 212
K P +QLA + E
Sbjct: 203 LDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGE 262
Query: 213 LNKLLSGVTIAQGGVLP-------------NIQAVRVLEQTHQVGLASLLQGHHGR-ALE 258
L L G T G++ + + + +G+ + +L
Sbjct: 263 LRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRC--YEAYPNTSLP 320
Query: 259 AQRVDD-VHGGDGLS---LGVLGVG-DGVADHV--LEEHLENATGL---LVDESGNTLDS 308
++D + +G+ L + + + V D+V HL + LV N +
Sbjct: 321 PSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLV----NGAKN 376
Query: 309 TSTRQTTDGGLGDSLDVVTEYFPVPLGASFSESLSSLTTADLLSITMAAGKSSGKAVKKA 368
VV+ G +SL L L KA +
Sbjct: 377 L---------------VVS-------G--PPQSLYGLNLT-LRKA---------KA--PS 400
Query: 369 GKAQKNITKSDKKKKPRRKESYAIYIYKVLKQVHPDTGVS----SKAMSIMNSFVNDIFE 424
G Q I S ++K + + L P V+ S ++ + I +
Sbjct: 401 GLDQSRIPFS--ERKLKFSNRF-------L----P---VASPFHS---HLLVPASDLINK 441
Query: 425 RIAAE-----SSRLA----H----YNKR---STITKDLCPSVCLYSYTLYERTCVTLW-- 466
+ + + + R +I++ + + R V W
Sbjct: 442 DLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCII--------RLPV-KWET 492
Query: 467 ----ACTHL 471
TH+
Sbjct: 493 TTQFKATHI 501
Score = 42.0 bits (98), Expect = 5e-04
Identities = 46/299 (15%), Positives = 86/299 (28%), Gaps = 98/299 (32%)
Query: 160 AERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSG 219
++ G G +Y + A +V A N +D I L + I N L
Sbjct: 1626 SQEQGMGMDLYKTSK---AAQDVWNRADNHFKDTYGFSI----LDIVINNPVNL------ 1672
Query: 220 VTIAQGGVLPNIQAVRVLEQTHQVGLASLLQGHHGRALEAQRVDDVHGGDGLSLGVLGVG 279
TI GG + +R + A+ + + D G
Sbjct: 1673 -TIHFGG--EKGKRIR----------------ENYSAMIFETIVD--------------G 1699
Query: 280 DGVADHVLEEHLENATGLLVDESGNTLDSTSTRQ----TTDGGLGDSLDVVTEYFPVP-- 333
+ + +E E++T L +T Q + + + +P
Sbjct: 1700 KLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAA---FEDLKSKGLIPAD 1756
Query: 334 -------LG-----ASFSESLSSLTTADLLSITMAAGKSSGKAVKKAGKAQKNITKSDKK 381
LG AS ++ +S L+ + V G + D+
Sbjct: 1757 ATFAGHSLGEYAALASLADVMS---IESLVEV-----------VFYRGMTMQVAVPRDEL 1802
Query: 382 KKPRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRL---AHYN 437
+ +Y + ++P A S + + ER+ + L +YN
Sbjct: 1803 G----RSNYGMI------AINP----GRVAASFSQEALQYVVERVGKRTGWLVEIVNYN 1847
Score = 40.8 bits (95), Expect = 0.001
Identities = 39/195 (20%), Positives = 66/195 (33%), Gaps = 50/195 (25%)
Query: 35 SYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAA-----ESSRLAHYNKRSTIT 89
A + + LK SK + ++ A E + LA + +
Sbjct: 1740 EKAAF--EDLK---------SKGLIPADATF--------AGHSLGEYAALASL---ADVM 1777
Query: 90 SREIQTAVRLL-LPGELAKHAVSEGTKAVTKYTSSKGKGGKAKTKSKTRSS--RAGLQFP 146
S I++ V ++ G + AV + Y G A + +S + LQ+
Sbjct: 1778 S--IESLVEVVFYRGMTMQVAVPRDELGRSNY------GMIAINPGRVAASFSQEALQYV 1829
Query: 147 VGRIHRLLRKGNYAERVGAGAPV-YLAAVMEYLAA---EVLELAGNAARDNKKTRIIPRH 202
V R+ + R G E V Y +Y+AA L+ N K +I
Sbjct: 1830 VERVGK--RTGWLVE------IVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIE 1881
Query: 203 LQLAIRNDEELNKLL 217
LQ ++ +E L
Sbjct: 1882 LQKSLSLEEVEGHLF 1896
Score = 39.6 bits (92), Expect = 0.002
Identities = 65/378 (17%), Positives = 102/378 (26%), Gaps = 152/378 (40%)
Query: 58 MSIMNSF--VNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTK 115
M + + D++ R A++ Y I V P L H E K
Sbjct: 1633 MDLYKTSKAAQDVWNR--ADNHFKDTYGFS-------ILDIVINN-PVNLTIHFGGEKGK 1682
Query: 116 AVTK-YTS---SKGKGGKAKT----KSKTRSSRAGLQF--PVGRIHRLLRKGNYAERVGA 165
+ + Y++ GK KT K S F G LL + +
Sbjct: 1683 RIRENYSAMIFETIVDGKLKTEKIFKEINEHST-SYTFRSEKG----LLSATQFTQ---- 1733
Query: 166 GAPVYLA-AVMEYLAAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSG----- 219
P A +ME A E L+ G +IP A G
Sbjct: 1734 --P---ALTLMEKAAFEDLKSKG----------LIPADATFA------------GHSLGE 1766
Query: 220 ----VTIAQGGVLPNIQAVRVLEQTHQVGLA---SLLQGHHGR------ALEAQRVDDVH 266
++A V+ V V+ G+ ++ + GR A+ RV
Sbjct: 1767 YAALASLA--DVMSIESLVEVV---FYRGMTMQVAVPRDELGRSNYGMIAINPGRV---- 1817
Query: 267 GGDGLSLGVLGVGDGVADHVLEEHLENATGLLVDESGNTLDSTSTRQTTDGGLGDSLDVV 326
+V+E + TG LV E N + +Q V
Sbjct: 1818 --------AASFSQEALQYVVER-VGKRTGWLV-EIVN--YNVENQQ-----------YV 1854
Query: 327 TEYFPVPLGASFSESLSSLTTADLLSITMAAGKSSGKAVKKAGKAQKNITKSDKKKKPRR 386
AAG +A+ N+ K +K
Sbjct: 1855 -----------------------------AAGDL--RALDTVT----NVLNFIKLQK--- 1876
Query: 387 KESYAIYIYKVLKQVHPD 404
I I ++ K + +
Sbjct: 1877 -----IDIIELQKSLSLE 1889
Score = 33.9 bits (77), Expect = 0.13
Identities = 42/275 (15%), Positives = 65/275 (23%), Gaps = 118/275 (42%)
Query: 238 EQTHQVGLASLLQGHHGRALEAQRVDDVHGGDGLSLGVLGVGDGVADHVLE---EHLENA 294
E T L G+ +E +V G D VL EN
Sbjct: 53 EPTTPAELVGKFLGYVSSLVEPSKV------------------GQFDQVLNLCLTEFENC 94
Query: 295 TGLLVDESGNTLDS--TSTRQTTDGGLGDSLDVVTEYFP--VPLGASFSESLSSLTTADL 350
L GN + + Q D L + +++ Y + F + +S L
Sbjct: 95 --YL---EGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSA----L 145
Query: 351 LSITMAAGKSSGKAVKKAGKA--------QKNITKSDKKKKPRRKESY-----AIY-IYK 396
+AV G A Q N + Y +Y Y
Sbjct: 146 F-----------RAVG-EGNAQLVAIFGGQGNT------------DDYFEELRDLYQTYH 181
Query: 397 VLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLA--HYNKRSTITK--DL------ 446
V D+ + A S L + T+ ++
Sbjct: 182 --------------------VLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLEN 221
Query: 447 ----------------CPSVCLYSYTLYERTCVTL 465
CP + + Y T L
Sbjct: 222 PSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLL 256
>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 = 8/88 (9%), Positives = 25/88 (28%), Gaps = 2/88 (2%)
Query: 128 GKAKTKSKTRSSRAG-LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELA 186
G+ +++ P+ R+ +++ + + E + A
Sbjct: 2 GEPRSQPPVERPPTAETFLPLSRVRTIMKSSMDTGLITNEVLFLMTKCTELFVRHLAGAA 61
Query: 187 GNAARDNKKTRII-PRHLQLAIRNDEEL 213
+ + HL + ++ L
Sbjct: 62 YTEEFGQRPGEALKYEHLSQVVNKNKNL 89
>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 = 40.8 bits (94), Expect = 5e-04
Identities = 17/98 (17%), Positives = 36/98 (36%), Gaps = 4/98 (4%)
Query: 5 KSSGKAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKV----LKQVHPDTGVSSKAMSI 60
+G+ V+ G + A + K K + S I + +S
Sbjct: 127 LKTGEIVEDNGHIKTLTANNSTKDKRTKYTSVLRDIIDISDEEDGDKGGVKRISGLIYEE 186
Query: 61 MNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 98
+ + + E + +S + KR T+TS ++ A++
Sbjct: 187 VRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALK 224
Score = 36.1 bits (82), Expect = 0.015
Identities = 12/100 (12%), Positives = 25/100 (25%)
Query: 344 SLTTADLLSITMAAGKSSGKAVKKAGKAQKNITKSDKKKKPRRKESYAIYIYKVLKQVHP 403
+ + G+ N TK + K +
Sbjct: 116 ESIEEQGDLVDLKTGEIVEDNGHIKTLTANNSTKDKRTKYTSVLRDIIDISDEEDGDKGG 175
Query: 404 DTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTIT 443
+S + + + E + +S + KR T+T
Sbjct: 176 VKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKRKTVT 215
Score = 27.7 bits (60), Expect = 7.2
Identities = 14/73 (19%), Positives = 25/73 (34%)
Query: 140 RAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRII 199
+ V + + R + A + L E +LE A K+ I+
Sbjct: 14 KIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKRITIM 73
Query: 200 PRHLQLAIRNDEE 212
+ +QLA R +
Sbjct: 74 KKDMQLARRIRGQ 86
>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 = 37.7 bits (87), Expect = 0.002
Identities = 21/109 (19%), Positives = 44/109 (40%), Gaps = 9/109 (8%)
Query: 40 IYKVLKQVHPDTGVSSK-AMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 98
I +++K+ P++ SK A + + + + + S+ LAH TIT+++I +
Sbjct: 15 IGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLT 74
Query: 99 LL--------LPGELAKHAVSEGTKAVTKYTSSKGKGGKAKTKSKTRSS 139
L L +L + K +K + + S T ++
Sbjct: 75 ELDFESFVPSLTQDLEVYRKVVKEKKESKASKKDSNTAENANASATATA 123
Score = 29.2 bits (65), Expect = 1.5
Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 394 IYKVLKQVHPDTGVSSK-AMSIMNSFVNDIFERIAAESSRLAHYNKRSTITKD 445
I +++K+ P++ SK A + + + + + S+ LAH TIT
Sbjct: 15 IGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAK 67
>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 = 33.8 bits (78), Expect = 0.009
Identities = 16/61 (26%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 40 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 99
I +++K + VS A + + ++ E IA+E+ +LA + R TI + +I+ A ++
Sbjct: 8 IGRIIKNAGAE-RVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARKM 66
Query: 100 L 100
Sbjct: 67 F 67
Score = 28.8 bits (65), Expect = 0.63
Identities = 14/52 (26%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 394 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITKD 445
I +++K + VS A + + ++ E IA+E+ +LA + R TI +
Sbjct: 8 IGRIIKNAGAE-RVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAE 58
>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 = 0.014
Identities = 10/46 (21%), Positives = 24/46 (52%)
Query: 53 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 98
VS +A ++ ++ + IA ++ A + R T+ +I+ A++
Sbjct: 24 VSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIK 69
Score = 29.3 bits (66), Expect = 0.51
Identities = 8/39 (20%), Positives = 19/39 (48%)
Query: 407 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITKD 445
VS +A ++ ++ + IA ++ A + R T+ +
Sbjct: 24 VSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVE 62
>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 = 35.6 bits (81), Expect = 0.017
Identities = 17/104 (16%), Positives = 42/104 (40%), Gaps = 2/104 (1%)
Query: 40 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 99
I K++K+ P+ V++ A ++ + + I++E++ + + +++ TI+ + A+
Sbjct: 21 INKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALES 80
Query: 100 LLPGELAKH--AVSEGTKAVTKYTSSKGKGGKAKTKSKTRSSRA 141
L G V + K V + + R
Sbjct: 81 LGFGSYISEVKEVLQECKTVALKRRKASSRLENLGIPEEELLRQ 124
Score = 32.1 bits (72), Expect = 0.23
Identities = 10/52 (19%), Positives = 31/52 (59%)
Query: 394 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITKD 445
I K++K+ P+ V++ A ++ + + I++E++ + + +++ TI+ +
Sbjct: 21 INKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPE 72
>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 = 34.3 bits (77), Expect = 0.032
Identities = 17/79 (21%), Positives = 33/79 (41%), Gaps = 2/79 (2%)
Query: 28 KKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRST 87
+ RK + + ++ + D S A+ + + +++ A + KR T
Sbjct: 60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVT 119
Query: 88 ITSREIQTAVRLLLPGELA 106
I ++IQ A R+ GE A
Sbjct: 120 IMPKDIQLARRIR--GERA 136
>1n1j_A NF-YB; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens}
SCOP: a.22.1.3
Length = 93
Score = 32.1 bits (73), Expect = 0.069
Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 40 IYKVLKQVHPDTGVSSK-AMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 98
+ +++K P TG +K A + V++ I +E+S H KR TI +I A+
Sbjct: 14 VARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMS 73
Query: 99 LL 100
L
Sbjct: 74 TL 75
Score = 27.9 bits (62), Expect = 2.2
Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 394 IYKVLKQVHPDTGVSSK-AMSIMNSFVNDIFERIAAESSRLAHYNKRSTITKD 445
+ +++K P TG +K A + V++ I +E+S H KR TI +
Sbjct: 14 VARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGE 66
>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 = 32.9 bits (76), Expect = 0.25
Identities = 33/169 (19%), Positives = 54/169 (31%), Gaps = 37/169 (21%)
Query: 179 AAEVLELAGNAARDNKKTRIIPRHLQLAIRND--------------------EELNKLLS 218
A +VL LA A I H+ L + + +E+ L+
Sbjct: 10 AQKVLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQALGLGSEKIQKEVESLIG 69
Query: 219 GVTIAQGGVLPNIQAVRVLEQTHQVGLASLLQGHHGRALEAQRVDDVHGGDGLSLGVLGV 278
+ +A +V+E + R L V H + LG++
Sbjct: 70 RGQEMSQTIHYTPRAKKVIELSMDE----------ARKLGHSYVGTEH----ILLGLIRE 115
Query: 279 GDGVADHVLEEH---LENATGLLVDESGNTLDSTSTRQTTDGGLGDSLD 324
G+GVA VL L A ++ G+ +S T +LD
Sbjct: 116 GEGVAARVLNNLGVSLNKARQQVLQLLGSNETGSSAAGTNSNANTPTLD 164
>2yfw_B Histone H4, H4; cell cycle, kinetochore, centromere, histone
chaperone, BUDD; 2.60A {Kluyveromyces lactis nrrl
y-1140}
Length = 103
Score = 30.4 bits (68), Expect = 0.33
Identities = 17/89 (19%), Positives = 36/89 (40%), Gaps = 4/89 (4%)
Query: 14 AGKAQKNIAKSDKKKKHRRKESYAIYIYK-VLKQVHPDTGV---SSKAMSIMNSFVNDIF 69
GK K + K K+ + I K ++++ GV S + + +
Sbjct: 4 RGKGGKGLGKGGAKRHRKILRDNIQGITKPAIRRLARRGGVKRISGLIYEEVRNVLKTFL 63
Query: 70 ERIAAESSRLAHYNKRSTITSREIQTAVR 98
E + ++ + KR T+TS ++ A++
Sbjct: 64 ESVIRDAVTYTEHAKRKTVTSLDVVYALK 92
Score = 26.9 bits (59), Expect = 6.2
Identities = 15/80 (18%), Positives = 30/80 (37%), Gaps = 4/80 (5%)
Query: 368 AGKAQKNITKSDKKKKPRRKESYAIYIYK-VLKQVHPDTGV---SSKAMSIMNSFVNDIF 423
GK K + K K+ + I K ++++ GV S + + +
Sbjct: 4 RGKGGKGLGKGGAKRHRKILRDNIQGITKPAIRRLARRGGVKRISGLIYEEVRNVLKTFL 63
Query: 424 ERIAAESSRLAHYNKRSTIT 443
E + ++ + KR T+T
Sbjct: 64 ESVIRDAVTYTEHAKRKTVT 83
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 3.65A {Bacillus subtilis}
Length = 468
Score = 32.2 bits (74), Expect = 0.36
Identities = 36/169 (21%), Positives = 56/169 (33%), Gaps = 37/169 (21%)
Query: 179 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE--LNKLLS--GVTIAQ---------- 224
A +VL LA A I H+ L + + E K L G+ +
Sbjct: 10 AQKVLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQALGLGSEKIQKEVESLIG 69
Query: 225 --GGVLPNI----QAVRVLEQTHQVGLASLLQGHHGRALEAQRVDDVHGGDGLSLGVLGV 278
+ I +A +V+E + R L V H + LG++
Sbjct: 70 RGQEMSQTIHYTPRAKKVIELSMDE----------ARKLGHSYVGTEH----ILLGLIRE 115
Query: 279 GDGVADHVLEEH---LENATGLLVDESGNTLDSTSTRQTTDGGLGDSLD 324
G+GVA VL L A ++ G+ +S T +LD
Sbjct: 116 GEGVAARVLNNLGVSLNKARQQVLQLLGSNETGSSAAGTNSNANTPTLD 164
>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 = 0.45
Identities = 16/89 (17%), Positives = 34/89 (38%), Gaps = 4/89 (4%)
Query: 14 AGKAQKNIAKSDKKKKHRRKESYAIYIYK-VLKQVHPDTGV---SSKAMSIMNSFVNDIF 69
GK K + K K+ + I K ++++ GV S +
Sbjct: 4 RGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFL 63
Query: 70 ERIAAESSRLAHYNKRSTITSREIQTAVR 98
E + ++ + KR T+T+ ++ A++
Sbjct: 64 ENVIRDAVTYTEHAKRKTVTAMDVVYALK 92
Score = 26.5 bits (58), Expect = 9.4
Identities = 15/80 (18%), Positives = 28/80 (35%), Gaps = 4/80 (5%)
Query: 368 AGKAQKNITKSDKKKKPRRKESYAIYIYK-VLKQVHPDTGV---SSKAMSIMNSFVNDIF 423
GK K + K K+ + I K ++++ GV S +
Sbjct: 4 RGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFL 63
Query: 424 ERIAAESSRLAHYNKRSTIT 443
E + ++ + KR T+T
Sbjct: 64 ENVIRDAVTYTEHAKRKTVT 83
>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 = 0.59
Identities = 8/46 (17%), Positives = 22/46 (47%)
Query: 53 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 98
V+ A I+ F++I+++ + + R T+ +++ +R
Sbjct: 25 VTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADVELLMR 70
Score = 26.5 bits (58), Expect = 9.9
Identities = 7/37 (18%), Positives = 17/37 (45%)
Query: 407 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTIT 443
V+ A I+ F++I+++ + + R T+
Sbjct: 25 VTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVE 61
>3hmz_A Flavin reductase domain protein, FMN-binding; FMN-binding domain of
flavin reductases-like enzyme, structu genomics; HET:
MSE FMN; 1.50A {Shewanella baltica}
Length = 199
Score = 30.9 bits (70), Expect = 0.60
Identities = 9/61 (14%), Positives = 18/61 (29%), Gaps = 1/61 (1%)
Query: 344 SLTTADLLSITMAAG-KSSGKAVKKAGKAQKNITKSDKKKKPRRKESYAIYIYKVLKQVH 402
+ T L +T G +S K + + P A K++ + +
Sbjct: 83 QVPTVAQLQLTHRVGSQSLADDANKLLNCGVELFEMAGHDLPFVAGCSAWLACKLIPEPN 142
Query: 403 P 403
Sbjct: 143 N 143
>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 = 0.67
Identities = 10/51 (19%), Positives = 26/51 (50%)
Query: 44 LKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQ 94
+++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 = 30.8 bits (70), Expect = 0.89
Identities = 14/54 (25%), Positives = 22/54 (40%)
Query: 67 DIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKY 120
FER E + + H N S + + VR L+ G + E K + K+
Sbjct: 144 AAFERWTVEQAHITHCNAMSDAATLTLGHMVRRLVLGGDVRDVRDESNKLIAKH 197
>3e4v_A NADH:FMN oxidoreductase like protein; YP_544701.1, structural
genomics, joint center for structural genom JCSG; HET:
MSE FMN; 1.40A {Methylobacillus flagellatus KT}
Length = 186
Score = 30.0 bits (68), Expect = 1.3
Identities = 12/59 (20%), Positives = 22/59 (37%)
Query: 344 SLTTADLLSITMAAGKSSGKAVKKAGKAQKNITKSDKKKKPRRKESYAIYIYKVLKQVH 402
++ T DL + G SG A+ K G + P ++ +A +V+
Sbjct: 73 AVPTVDLAETVVDIGNCSGDALDKFGHFGLTPVPAQTVDAPLVRQCWANLECRVVDDGW 131
>3fh2_A Probable ATP-dependent protease (heat shock prote; struct genomics,
PSI2, MCSG, protein structure initiative; 1.60A
{Corynebacterium glutamicum}
Length = 146
Score = 28.8 bits (65), Expect = 1.8
Identities = 27/135 (20%), Positives = 48/135 (35%), Gaps = 39/135 (28%)
Query: 179 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE------LNKLLSGVTIAQ-------- 224
A V+ LA AR I H+ L + ++ E L + G+++
Sbjct: 11 ARRVIVLAQEEARMLNHNYIGTEHILLGLIHEGEGVAAKALESM--GISLDAVRQEVEEI 68
Query: 225 -----GGVLPNI----QAVRVLEQTHQVGLASLLQGHHGRALEAQRVDDVHGGDGLSLGV 275
+I +A +VLE + + G + + + L LG+
Sbjct: 69 IGQGSQPTTGHIPFTPRAKKVLELSLR----------EGLQMGHKYIGTEF----LLLGL 114
Query: 276 LGVGDGVADHVLEEH 290
+ G+GVA VL +
Sbjct: 115 IREGEGVAAQVLVKL 129
>3fes_A ATP-dependent CLP endopeptidase; alpha-helical bundles, structural
genomics, PSI-2, protein S initiative; HET: PG4 EPE;
1.82A {Clostridium difficile}
Length = 145
Score = 28.7 bits (65), Expect = 2.4
Identities = 23/134 (17%), Positives = 50/134 (37%), Gaps = 38/134 (28%)
Query: 179 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE------LNKLLSGVTIAQ-------- 224
A + ++LA +A+ + H+ L + +EE L+K+ G T A
Sbjct: 12 AKKAIDLAFESAKSLGHNIVGSEHILLGLLREEEGIAAKVLSKV--GFTEAYLEGKIVDM 69
Query: 225 ----GGVLPNI----QAVRVLEQTHQVGLASLLQGHHGRALEAQRVDDVHGGDGLSLGVL 276
+ +I ++ ++LE + L+ + H + L ++
Sbjct: 70 EGKGEEISEDIVLSPRSKQILELSGM----------FANKLKTNYIGTEH----ILLAII 115
Query: 277 GVGDGVADHVLEEH 290
G+G+A+ +L
Sbjct: 116 QEGEGIANKILNYA 129
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 29.7 bits (67), Expect = 2.5
Identities = 28/158 (17%), Positives = 50/158 (31%), Gaps = 22/158 (13%)
Query: 34 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREI 93
E+ + V ++V D + F + E I E+ + A T+ R++
Sbjct: 293 ENRRKLVQFVAQEVKRD--------GKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDL 344
Query: 94 QTAVRLLLPGELAKHAVSEGTKAVTKYTSSKGKGGKAKTKSKTRSSRAGLQFPVGRIHRL 153
VR AV +G K V + +A +K + + + R
Sbjct: 345 GGIVR-----AAGDIAVKKGKKYVEREDVI-----EAVKMAKPLEKQL-ADWYIERKKEY 393
Query: 154 LRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAAR 191
+G V AV+ + VL + A
Sbjct: 394 QVIKTEGSEIGR---VNGLAVIGEQSGIVLPIEAVVAP 428
>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding
mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli}
SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*
Length = 758
Score = 29.5 bits (67), Expect = 3.0
Identities = 22/128 (17%), Positives = 46/128 (35%), Gaps = 22/128 (17%)
Query: 179 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLS--GVTIAQ------------ 224
L +A AR+++ + HL LA+ ++ + L V +
Sbjct: 6 LELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREALEACSVDLVALRQELEAFIEQT 65
Query: 225 GGVLPNIQAVRVLEQTHQVGLASLLQ--GHHGRALEAQRVDDVHGGDGLSLGVLGVGDGV 282
VLP + R + T + +LQ H ++ V + + + + +
Sbjct: 66 TPVLPASEEERDTQPT--LSFQRVLQRAVFHVQSSGRNEVTGAN----VLVAIFSEQESQ 119
Query: 283 ADHVLEEH 290
A ++L +H
Sbjct: 120 AAYLLRKH 127
>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 = 28.4 bits (64), Expect = 3.2
Identities = 28/135 (20%), Positives = 47/135 (34%), Gaps = 40/135 (29%)
Query: 179 AAEVLELAGNAARDNKKTRIIPRHLQLAIRNDEE------LNKLLSGVTIAQ-------- 224
A +VL LA A I H+ L + + E L L G+ +
Sbjct: 10 AQKVLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQAL--GLGSEKIQKEVESL 67
Query: 225 ----GGVLPNI----QAVRVLEQTHQVGLASLLQGHHGRALEAQRVDDVHGGDG-LSLGV 275
+ I +A +V+E + EA+++ + G + LG+
Sbjct: 68 IGRAQEMSQTIHYTPRAKKVIELSMD---------------EARKLGHSYVGTEHILLGL 112
Query: 276 LGVGDGVADHVLEEH 290
+ G+GVA VL
Sbjct: 113 IREGEGVAARVLNNL 127
>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 = 3.3
Identities = 18/89 (20%), Positives = 36/89 (40%), Gaps = 4/89 (4%)
Query: 14 AGKAQKNIAKSDKKKKHRRKESYAIYIYK-VLKQVHPDTGV---SSKAMSIMNSFVNDIF 69
GK K + K K+ + I K ++++ GV S + + +
Sbjct: 3 RGKGGKGLGKGGAKRHRKILRDNIQGITKPAIRRLARRGGVKRISGLIYEEVRAVLKSFL 62
Query: 70 ERIAAESSRLAHYNKRSTITSREIQTAVR 98
E + +S + KR T+TS ++ A++
Sbjct: 63 ESVIRDSVTYTEHAKRKTVTSLDVVYALK 91
>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 = 27.9 bits (61), Expect = 3.6
Identities = 16/122 (13%), Positives = 39/122 (31%), Gaps = 23/122 (18%)
Query: 2 AAGKSSGKAVKKAGKAQKNIAKSDKKKKHRR------------KESYAIYIYKVLKQ--- 46
A + S G +++ + +H R ++S + I K+
Sbjct: 12 APRRRSPSPTPTPGPSRRGPSLGASSHQHSRRRQGWLKEIRKLQKSTHLLIRKLPFSRLA 71
Query: 47 --------VHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 98
D ++A+ + + ++ L + R T+ +++Q A R
Sbjct: 72 REICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARR 131
Query: 99 LL 100
+
Sbjct: 132 IR 133
>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 = 4.2
Identities = 7/46 (15%), Positives = 19/46 (41%)
Query: 53 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 98
+S + E + ++ + KR T+T+ ++ A++
Sbjct: 28 ISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALK 73
>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 = 28.4 bits (64), Expect = 4.4
Identities = 10/52 (19%), Positives = 18/52 (34%)
Query: 69 FERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKY 120
E +R+ H + S + V L+ G K E + V ++
Sbjct: 151 LEPWVLAQARITHNHPLSDAACLTLGRMVHHLIGGRGMKACREEANRLVHQH 202
>3hfw_A Protein ADP-ribosylarginine hydrolase; all alpha-helical,
magnesium; HET: ADP; 1.92A {Homo sapiens}
Length = 357
Score = 28.5 bits (63), Expect = 5.1
Identities = 13/125 (10%), Positives = 32/125 (25%), Gaps = 4/125 (3%)
Query: 67 DIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSKGK 126
D +++ ES R+ H++ + + + + + + +
Sbjct: 149 DTLIQVSIESGRMTHHHPTGYLGALASALFTAYAVNSRPPLQWGKGLMELLPEAKKYIVQ 208
Query: 127 GGKAKTKSKTRSSRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELA 186
G ++ S ++ R + G A P L +
Sbjct: 209 SGYFVEENLQHWSYFQTKWENYLKLRGILDGESAPTF----PESFGVKERDQFYTSLSYS 264
Query: 187 GNAAR 191
G
Sbjct: 265 GWGGS 269
>1t90_A MMSDH, probable methylmalonate-semialdehyde dehydrogenase;
oxidoreductase, NAD; HET: NAD; 2.50A {Bacillus subtilis}
Length = 486
Score = 28.3 bits (64), Expect = 5.5
Identities = 18/65 (27%), Positives = 27/65 (41%), Gaps = 10/65 (15%)
Query: 194 KKTRIIPRHLQLAIRNDEELNKLLS---GVTI--AQGGVLPNIQAVRVLEQTHQVGLASL 248
++ RI+ QL ++ EEL L++ G A G V I+ V G SL
Sbjct: 66 RRARILFNFQQLLSQHKEELAHLITIENGKNTKEALGEVGRGIENV-----EFAAGAPSL 120
Query: 249 LQGHH 253
+ G
Sbjct: 121 MMGDS 125
>2d5m_A Flavoredoxin; flavoprotein, FMN binding, electron transport; HET:
FMN MES; 1.05A {Desulfovibrio vulgaris str}
Length = 190
Score = 28.0 bits (63), Expect = 5.9
Identities = 8/48 (16%), Positives = 13/48 (27%)
Query: 344 SLTTADLLSITMAAGKSSGKAVKKAGKAQKNITKSDKKKKPRRKESYA 391
S+ + + AG SG+ K + P E
Sbjct: 69 SIPSRAYVRHADYAGIYSGENEDKFASLGLTPVPGEHVDAPYVGEFPM 116
>4e4g_A Methylmalonate-semialdehyde dehydrogenase; structural genomics,
protein structure INI nysgrc, PSI-biology; 2.90A
{Sinorhizobium meliloti}
Length = 521
Score = 28.0 bits (63), Expect = 8.3
Identities = 15/65 (23%), Positives = 30/65 (46%), Gaps = 10/65 (15%)
Query: 194 KKTRIIPRHLQLAIRNDEELNKLLS---GVTI--AQGGVLPNIQAVRVLEQTHQVGLASL 248
++ R+ + +QL N EL ++LS G TI A+G ++ ++ +G+ L
Sbjct: 87 RRARVFMKFVQLLNDNMNELAEMLSREHGKTIDDAKGDIVRGLEVC-----EFVIGIPHL 141
Query: 249 LQGHH 253
+
Sbjct: 142 QKSEF 146
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 0.129 0.354
Gapped
Lambda K H
0.267 0.0761 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,884,961
Number of extensions: 426427
Number of successful extensions: 703
Number of sequences better than 10.0: 1
Number of HSP's gapped: 677
Number of HSP's successfully gapped: 84
Length of query: 475
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 378
Effective length of database: 3,993,456
Effective search space: 1509526368
Effective search space used: 1509526368
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 59 (26.4 bits)