RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13072
(257 letters)
>2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D*
Length = 123
Score = 138 bits (348), Expect = 1e-41
Identities = 111/120 (92%), Positives = 116/120 (96%)
Query: 138 KSSGKAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSF 197
K+SGKA KKAGKAQKNI K+DKKKK +RKESYAIYIY VLKQVHPDTG+SSKAMSIMNSF
Sbjct: 4 KTSGKAAKKAGKAQKNITKTDKKKKRKRKESYAIYIYTVLKQVHPDTGISSKAMSIMNSF 63
Query: 198 VNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSK 257
VNDIFERIAAE+SRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSK
Sbjct: 64 VNDIFERIAAEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSK 123
Score = 133 bits (335), Expect = 8e-40
Identities = 112/122 (91%), Positives = 117/122 (95%), Gaps = 2/122 (1%)
Query: 5 KSSGKAVKKAGKAQKNIAKSDKKKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMN 64
K+SGKA KKAGKAQKNI K+DKKKK+K RKESYAIYIY VLKQVHPDTG+SSKAMSIMN
Sbjct: 4 KTSGKAAKKAGKAQKNITKTDKKKKRK--RKESYAIYIYTVLKQVHPDTGISSKAMSIMN 61
Query: 65 SFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTS 124
SFVNDIFERIAAE+SRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTS
Sbjct: 62 SFVNDIFERIAAEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTS 121
Query: 125 SK 126
SK
Sbjct: 122 SK 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 = 129 bits (324), Expect = 4e-38
Identities = 96/126 (76%), Positives = 102/126 (80%)
Query: 1 MAAGKSSGKAVKKAGKAQKNIAKSDKKKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAM 60
M S A KK K + KK+K RKESY+IY+YKVLKQVHPDTG+SSKAM
Sbjct: 1 MPEPAKSAPAPKKGSKKAVTKTQKKGDKKRKKSRKESYSIYVYKVLKQVHPDTGISSKAM 60
Query: 61 SIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVT 120
IMNSFVNDIFERIA E+SRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVT
Sbjct: 61 GIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVT 120
Query: 121 KYTSSK 126
KYTSSK
Sbjct: 121 KYTSSK 126
Score = 124 bits (312), Expect = 3e-36
Identities = 99/126 (78%), Positives = 104/126 (82%), Gaps = 2/126 (1%)
Query: 134 MAAGKSSGKAVKKAGK--AQKNIAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAM 191
M S A KK K K K DKK+K RKESY+IY+YKVLKQVHPDTG+SSKAM
Sbjct: 1 MPEPAKSAPAPKKGSKKAVTKTQKKGDKKRKKSRKESYSIYVYKVLKQVHPDTGISSKAM 60
Query: 192 SIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVT 251
IMNSFVNDIFERIA E+SRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVT
Sbjct: 61 GIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVT 120
Query: 252 KYTSSK 257
KYTSSK
Sbjct: 121 KYTSSK 126
>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 = 112 bits (279), Expect = 1e-30
Identities = 85/198 (42%), Positives = 110/198 (55%), Gaps = 28/198 (14%)
Query: 34 RKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSR 93
RKE+Y+ YIYKVLKQ HPDTG+S K+MSI+NSFVNDIFERIA E+S+LA YNK+STI++R
Sbjct: 1 RKETYSSYIYKVLKQTHPDTGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTISAR 60
Query: 94 EIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSKSNPLQFIMAAGKSSGKAVKKAGKAQKN 153
EIQTAVRL+LPGELAKHAVSEGT+AVTKY +
Sbjct: 61 EIQTAVRLILPGELAKHAVSEGTRAVTKY----------------------------SSS 92
Query: 154 IAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLA 213
+ + + + T V SKA + + + + + + A
Sbjct: 93 TQAQSSSARAGLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAA 152
Query: 214 HYNKRSTITSREIQTAVR 231
K IT R +Q A+R
Sbjct: 153 KDLKVKRITPRHLQLAIR 170
Score = 108 bits (269), Expect = 3e-29
Identities = 72/90 (80%), Positives = 85/90 (94%)
Query: 165 RKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSR 224
RKE+Y+ YIYKVLKQ HPDTG+S K+MSI+NSFVNDIFERIA E+S+LA YNK+STI++R
Sbjct: 1 RKETYSSYIYKVLKQTHPDTGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTISAR 60
Query: 225 EIQTAVRLLLPGELAKHAVSEGTKAVTKYT 254
EIQTAVRL+LPGELAKHAVSEGT+AVTKY+
Sbjct: 61 EIQTAVRLILPGELAKHAVSEGTRAVTKYS 90
>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 = 55.0 bits (131), Expect = 2e-09
Identities = 30/193 (15%), Positives = 66/193 (34%), Gaps = 11/193 (5%)
Query: 50 HPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL-----LLP 104
D S A+ + + ++ LA + KR TI +++Q A R+ +
Sbjct: 32 DQDLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKRITIMKKDMQLARRIRGQFLVPR 91
Query: 105 GELAKHAVSEG------TKAVTKYTSSKSNPLQFIMAAGKSSGKAVKKAGKAQKNIAKSD 158
G + +H +++ + ++KY S + + G+ N K
Sbjct: 92 GSMERHKLADENMRKVWSNIISKYESIEEQGDLVDLKTGEIVEDNGHIKTLTANNSTKDK 151
Query: 159 KKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKR 218
+ K + +S + + + E + +S + KR
Sbjct: 152 RTKYTSVLRDIIDISDEEDGDKGGVKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKR 211
Query: 219 STITSREIQTAVR 231
T+TS ++ A++
Sbjct: 212 KTVTSLDVVYALK 224
Score = 38.5 bits (88), Expect = 0.001
Identities = 16/98 (16%), Positives = 35/98 (35%), Gaps = 2/98 (2%)
Query: 5 KSSGKAVKKAGKAQKNIAKSDKKKKKKHRRKESYAIY--IYKVLKQVHPDTGVSSKAMSI 62
+G+ V+ G + A + K K+ I + +S
Sbjct: 127 LKTGEIVEDNGHIKTLTANNSTKDKRTKYTSVLRDIIDISDEEDGDKGGVKRISGLIYEE 186
Query: 63 MNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 100
+ + + E + +S + KR T+TS ++ A++
Sbjct: 187 VRAVLKSFLESVIRDSVTYTEHAKRKTVTSLDVVYALK 224
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 48.3 bits (114), Expect = 1e-06
Identities = 36/234 (15%), Positives = 74/234 (31%), Gaps = 63/234 (26%)
Query: 44 KVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLLL 103
K+L ++++ + + I+ + + T+T E LLL
Sbjct: 267 KIL--------LTTRFKQVTDFLSAATTTHISLD-------HHSMTLTPDE---VKSLLL 308
Query: 104 ------PGELAKHAVSEGTKAVTKYTSSKSNPLQFIMAAGKSSGKAVKKAGKAQ-KNIAK 156
P +L + + +NP + + A + G A N
Sbjct: 309 KYLDCRPQDLPREVL-------------TTNPRRLSIIA------ESIRDGLATWDNWKH 349
Query: 157 SDKKKKHR-RKESYAIYIYKVLKQ------VHP-DTGVSSKAMSIM--NSFVNDIFERIA 206
+ K + S + ++ V P + + +S++ + +D+ +
Sbjct: 350 VNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV-MVVV 408
Query: 207 AE---SSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSK 257
+ S + K STI+ I +++ L E A H V Y K
Sbjct: 409 NKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR-----SIVDHYNIPK 457
Score = 39.5 bits (91), Expect = 9e-04
Identities = 32/245 (13%), Positives = 69/245 (28%), Gaps = 63/245 (25%)
Query: 23 KSDKKKKKKHRRKESYAIYIYKVLKQ------VHP-DTGVSSKAMSIM--NSFVNDIFER 73
K K + S + ++ V P + + +S++ + +D+
Sbjct: 348 KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV-MV 406
Query: 74 IAAE---SSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSKSNP- 129
+ + S + K STI+ I +++ L E A H V Y K+
Sbjct: 407 VVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR-----SIVDHYNIPKTFDS 461
Query: 130 --------------------------------------LQFIMAAGKSSGKAVKKAGKAQ 151
+F+ + A +G
Sbjct: 462 DDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSIL 521
Query: 152 KNIAKSDKKKKH-----RRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIA 206
+ + K + + E I L ++ + + SK ++ + E I
Sbjct: 522 NTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL-ICSKYTDLLRIALMAEDEAIF 580
Query: 207 AESSR 211
E+ +
Sbjct: 581 EEAHK 585
>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 = 44.3 bits (104), Expect = 3e-05
Identities = 30/186 (16%), Positives = 56/186 (30%), Gaps = 75/186 (40%)
Query: 37 SYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAA-----ESSRLAHYNKRSTIT 91
A + + LK SK + ++ A E + LA + +
Sbjct: 1740 EKAAF--EDLK---------SKGLIPADATF--------AGHSLGEYAALASL---ADVM 1777
Query: 92 SREIQTAVRLL-LPGELAKHAVSEGTKAVTKYTSSKSNP-----------LQFIMA-AGK 138
S I++ V ++ G + AV + Y NP LQ+++ GK
Sbjct: 1778 S--IESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGK 1835
Query: 139 SSG---------------------KAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKVL 177
+G +A+ N+ K +K I I ++
Sbjct: 1836 RTGWLVEIVNYNVENQQYVAAGDLRALDTVT----NVLNFIKLQK--------IDIIELQ 1883
Query: 178 KQVHPD 183
K + +
Sbjct: 1884 KSLSLE 1889
Score = 37.7 bits (87), Expect = 0.003
Identities = 26/153 (16%), Positives = 51/153 (33%), Gaps = 36/153 (23%)
Query: 126 KSNPLQFIMAAGKSSGKAVKKAGKAQKNIAKSDKKKKHRR-----KESYAIYIYKVLKQV 180
+NP+ + G GK +++ A D K K + E Y ++
Sbjct: 1666 INNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFR----- 1720
Query: 181 HPD-----TGVSSKAMSIMNSFVNDIFERIAAE-----SSRLA-H----YNKRSTITSR- 224
T + A+++M FE + ++ + A H Y + + S
Sbjct: 1721 SEKGLLSATQFTQPALTLM-EKA--AFEDLKSKGLIPADATFAGHSLGEY---AALASLA 1774
Query: 225 ---EIQTAVRLL-LPGELAKHAVSEGTKAVTKY 253
I++ V ++ G + AV + Y
Sbjct: 1775 DVMSIESLVEVVFYRGMTMQVAVPRDELGRSNY 1807
Score = 31.6 bits (71), Expect = 0.30
Identities = 37/236 (15%), Positives = 66/236 (27%), Gaps = 84/236 (35%)
Query: 36 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREI 95
E ++ V V P + ++N + + FE Y + +I
Sbjct: 59 ELVGKFLGYVSSLVEPSK--VGQFDQVLNLCLTE-FEN---------CY-----LEGNDI 101
Query: 96 QT-AVRLLLPGELAKHAVSEGTKAVTKYTSSKSNPLQFIMAAGKSS-GKAVKKAGKA--- 150
A +LL + E K Y +++ + S+ +AV G A
Sbjct: 102 HALAAKLLQENDTTLVKTKELIKN---YITARIMAKRPFDKKSNSALFRAVG-EGNAQLV 157
Query: 151 -----QKNIAKSDKKKKHRRKESY-----AIY-IYKVLKQVHPDTGVSSKAMSIMNSFVN 199
Q N + Y +Y Y V
Sbjct: 158 AIFGGQGNT------------DDYFEELRDLYQTYH--------------------VLVG 185
Query: 200 DIFERIAAESSRLAHYNKRSTITSREIQTA---VRLLL------PGE--LAKHAVS 244
D+ + A S L R+T+ + ++ T + L P + L +S
Sbjct: 186 DLIKFSAETLSELI----RTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPIS 237
>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 = 0.023
Identities = 19/129 (14%), Positives = 55/129 (42%), Gaps = 9/129 (6%)
Query: 42 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 101
I K++K+ P+ V++ A ++ + + I++E++ + + +++ TI+ + A+
Sbjct: 21 INKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALES 80
Query: 102 LLPGELAKH--AVSEGTKAVTKYTSSKSNPLQFIMAAGKSSGKAVKKAGKAQKNIAKSDK 159
L G V + K V S+ ++ G ++ + Q+ + +
Sbjct: 81 LGFGSYISEVKEVLQECKTVALKRRKASS-------RLENLGIPEEELLRQQQELFAKAR 133
Query: 160 KKKHRRKES 168
+++ +
Sbjct: 134 QQQAELAQQ 142
Score = 32.1 bits (72), Expect = 0.10
Identities = 12/61 (19%), Positives = 34/61 (55%)
Query: 173 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 232
I K++K+ P+ V++ A ++ + + I++E++ + + +++ TI+ + A+
Sbjct: 21 INKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISPEHVIQALES 80
Query: 233 L 233
L
Sbjct: 81 L 81
>3o5t_A Dinitrogenase reductase activacting glicohydrolas; ADP binding,
hydrolase-transcription complex; HET: ADP; 2.09A
{Azospirillum brasilense} PDB: 3g9d_A*
Length = 297
Score = 34.3 bits (79), Expect = 0.028
Identities = 17/68 (25%), Positives = 27/68 (39%)
Query: 69 DIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSKSN 128
FER E + + H N S + + VR L+ G + E K + K+ K
Sbjct: 144 AAFERWTVEQAHITHCNAMSDAATLTLGHMVRRLVLGGDVRDVRDESNKLIAKHRQFKFQ 203
Query: 129 PLQFIMAA 136
P + + A
Sbjct: 204 PYRGLATA 211
Score = 32.3 bits (74), Expect = 0.11
Identities = 14/54 (25%), Positives = 22/54 (40%)
Query: 200 DIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKY 253
FER E + + H N S + + VR L+ G + E K + K+
Sbjct: 144 AAFERWTVEQAHITHCNAMSDAATLTLGHMVRRLVLGGDVRDVRDESNKLIAKH 197
>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 = 30.7 bits (70), Expect = 0.062
Identities = 14/48 (29%), Positives = 27/48 (56%)
Query: 55 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 102
VS A + + ++ E IA+E+ +LA + R TI + +I+ A ++
Sbjct: 20 VSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARKMF 67
Score = 30.7 bits (70), Expect = 0.062
Identities = 14/48 (29%), Positives = 27/48 (56%)
Query: 186 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRLL 233
VS A + + ++ E IA+E+ +LA + R TI + +I+ A ++
Sbjct: 20 VSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDIELARKMF 67
>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 = 33.2 bits (75), Expect = 0.074
Identities = 15/91 (16%), Positives = 33/91 (36%), Gaps = 10/91 (10%)
Query: 42 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 101
+ KV QVHP + A+ + + + + R ++ +++ V+
Sbjct: 27 LKKVQGQVHPTLESNDDALQYVEELILQLLNMLCQAQPR----------SASDVEERVQK 76
Query: 102 LLPGELAKHAVSEGTKAVTKYTSSKSNPLQF 132
P + K A+++ A+ K L
Sbjct: 77 SFPHPIDKWAIADAQSAIEKRKRRNPLSLPV 107
Score = 32.8 bits (74), Expect = 0.10
Identities = 14/80 (17%), Positives = 32/80 (40%), Gaps = 10/80 (12%)
Query: 173 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVRL 232
+ KV QVHP + A+ + + + + R ++ +++ V+
Sbjct: 27 LKKVQGQVHPTLESNDDALQYVEELILQLLNMLCQAQPR----------SASDVEERVQK 76
Query: 233 LLPGELAKHAVSEGTKAVTK 252
P + K A+++ A+ K
Sbjct: 77 SFPHPIDKWAIADAQSAIEK 96
>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A
{Pyrococcus horikoshii} SCOP: a.22.1.2
Length = 70
Score = 30.8 bits (70), Expect = 0.075
Identities = 10/46 (21%), Positives = 24/46 (52%)
Query: 55 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 100
VS +A ++ ++ + IA ++ A + R T+ +I+ A++
Sbjct: 24 VSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIK 69
Score = 30.8 bits (70), Expect = 0.075
Identities = 10/46 (21%), Positives = 24/46 (52%)
Query: 186 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231
VS +A ++ ++ + IA ++ A + R T+ +I+ A++
Sbjct: 24 VSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDIKLAIK 69
>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 = 31.5 bits (71), Expect = 0.10
Identities = 21/97 (21%), Positives = 41/97 (42%), Gaps = 9/97 (9%)
Query: 42 IYKVLKQVHPDTGVSSK-AMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 100
I +++K+ P++ SK A + + + + + S+ LAH TIT+++I +
Sbjct: 15 IGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLT 74
Query: 101 LL--------LPGELAKHAVSEGTKAVTKYTSSKSNP 129
L L +L + K +K + SN
Sbjct: 75 ELDFESFVPSLTQDLEVYRKVVKEKKESKASKKDSNT 111
Score = 30.0 bits (67), Expect = 0.32
Identities = 19/94 (20%), Positives = 39/94 (41%), Gaps = 9/94 (9%)
Query: 173 IYKVLKQVHPDTGVSSK-AMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231
I +++K+ P++ SK A + + + + + S+ LAH TIT+++I +
Sbjct: 15 IGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTITAKDILQTLT 74
Query: 232 LL--------LPGELAKHAVSEGTKAVTKYTSSK 257
L L +L + K +K +
Sbjct: 75 ELDFESFVPSLTQDLEVYRKVVKEKKESKASKKD 108
>1n1j_A NF-YB; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens}
SCOP: a.22.1.3
Length = 93
Score = 29.8 bits (67), Expect = 0.21
Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 42 IYKVLKQVHPDTGVSSK-AMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 100
+ +++K P TG +K A + V++ I +E+S H KR TI +I A+
Sbjct: 14 VARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMS 73
Query: 101 LL 102
L
Sbjct: 74 TL 75
Score = 29.8 bits (67), Expect = 0.21
Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 173 IYKVLKQVHPDTGVSSK-AMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231
+ +++K P TG +K A + V++ I +E+S H KR TI +I A+
Sbjct: 14 VARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAMS 73
Query: 232 LL 233
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 = 29.6 bits (66), Expect = 0.30
Identities = 18/90 (20%), Positives = 37/90 (41%), Gaps = 4/90 (4%)
Query: 14 AGKAQKNIAKSDKKKKKKHRRKESYAIYIYKVLKQVHPDTGV---SSKAMSIMNSFVNDI 70
GK K + K K+ +K R I ++++ GV S + + +
Sbjct: 4 RGKGGKGLGKGGAKRHRKILRDNIQGIT-KPAIRRLARRGGVKRISGLIYEEVRNVLKTF 62
Query: 71 FERIAAESSRLAHYNKRSTITSREIQTAVR 100
E + ++ + KR T+TS ++ A++
Sbjct: 63 LESVIRDAVTYTEHAKRKTVTSLDVVYALK 92
Score = 28.1 bits (62), Expect = 1.2
Identities = 17/89 (19%), Positives = 36/89 (40%), Gaps = 4/89 (4%)
Query: 147 AGKAQKNIAKSDKKKKHRRKESYAIYIYK-VLKQVHPDTGV---SSKAMSIMNSFVNDIF 202
GK K + K K+ + I K ++++ GV S + + +
Sbjct: 4 RGKGGKGLGKGGAKRHRKILRDNIQGITKPAIRRLARRGGVKRISGLIYEEVRNVLKTFL 63
Query: 203 ERIAAESSRLAHYNKRSTITSREIQTAVR 231
E + ++ + KR T+TS ++ A++
Sbjct: 64 ESVIRDAVTYTEHAKRKTVTSLDVVYALK 92
>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 = 30.7 bits (70), Expect = 0.34
Identities = 14/71 (19%), Positives = 23/71 (32%), Gaps = 5/71 (7%)
Query: 71 FERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSSKSNPL 130
E +R+ H + S + V L+ G K E + V ++
Sbjct: 151 LEPWVLAQARITHNHPLSDAACLTLGRMVHHLIGGRGMKACREEANRLVHQHRD-----F 205
Query: 131 QFIMAAGKSSG 141
F G+SS
Sbjct: 206 HFEPYKGQSSA 216
Score = 30.0 bits (68), Expect = 0.64
Identities = 10/52 (19%), Positives = 18/52 (34%)
Query: 202 FERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKY 253
E +R+ H + S + V L+ G K E + V ++
Sbjct: 151 LEPWVLAQARITHNHPLSDAACLTLGRMVHHLIGGRGMKACREEANRLVHQH 202
>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 = 30.0 bits (66), Expect = 0.36
Identities = 17/79 (21%), Positives = 33/79 (41%), Gaps = 2/79 (2%)
Query: 30 KKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRST 89
+ RK + + ++ + D S A+ + + +++ A + KR T
Sbjct: 60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVT 119
Query: 90 ITSREIQTAVRLLLPGELA 108
I ++IQ A R+ GE A
Sbjct: 120 IMPKDIQLARRIR--GERA 136
Score = 30.0 bits (66), Expect = 0.36
Identities = 17/79 (21%), Positives = 33/79 (41%), Gaps = 2/79 (2%)
Query: 161 KKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRST 220
+ RK + + ++ + D S A+ + + +++ A + KR T
Sbjct: 60 ELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVT 119
Query: 221 ITSREIQTAVRLLLPGELA 239
I ++IQ A R+ GE A
Sbjct: 120 IMPKDIQLARRIR--GERA 136
>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 = 0.36
Identities = 10/51 (19%), Positives = 26/51 (50%)
Query: 46 LKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQ 96
+++V P+ + ++ +D E + + +LA + K ST+ +++Q
Sbjct: 15 VREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQ 65
Score = 29.0 bits (65), Expect = 0.36
Identities = 10/51 (19%), Positives = 26/51 (50%)
Query: 177 LKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQ 227
+++V P+ + ++ +D E + + +LA + K ST+ +++Q
Sbjct: 15 VREVDPNEQLDEDVEEMLLQIADDFIESVVTAACQLARHRKSSTLEVKDVQ 65
>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 = 28.8 bits (64), Expect = 0.57
Identities = 17/90 (18%), Positives = 35/90 (38%), Gaps = 4/90 (4%)
Query: 14 AGKAQKNIAKSDKKKKKKHRRKESYAIYIYKVLKQVHPDTGV---SSKAMSIMNSFVNDI 70
GK K + K K+ +K R I ++++ GV S +
Sbjct: 4 RGKGGKGLGKGGAKRHRKVLRDNIQGIT-KPAIRRLARRGGVKRISGLIYEETRGVLKVF 62
Query: 71 FERIAAESSRLAHYNKRSTITSREIQTAVR 100
E + ++ + KR T+T+ ++ A++
Sbjct: 63 LENVIRDAVTYTEHAKRKTVTAMDVVYALK 92
Score = 27.6 bits (61), Expect = 1.5
Identities = 16/89 (17%), Positives = 34/89 (38%), Gaps = 4/89 (4%)
Query: 147 AGKAQKNIAKSDKKKKHRRKESYAIYIYK-VLKQVHPDTGV---SSKAMSIMNSFVNDIF 202
GK K + K K+ + I K ++++ GV S +
Sbjct: 4 RGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFL 63
Query: 203 ERIAAESSRLAHYNKRSTITSREIQTAVR 231
E + ++ + KR T+T+ ++ A++
Sbjct: 64 ENVIRDAVTYTEHAKRKTVTAMDVVYALK 92
>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 = 28.4 bits (63), Expect = 1.1
Identities = 8/46 (17%), Positives = 22/46 (47%)
Query: 55 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 100
V+ A I+ F++I+++ + + R T+ +++ +R
Sbjct: 25 VTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADVELLMR 70
Score = 28.4 bits (63), Expect = 1.1
Identities = 8/46 (17%), Positives = 22/46 (47%)
Query: 186 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231
V+ A I+ F++I+++ + + R T+ +++ +R
Sbjct: 25 VTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADVELLMR 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 = 27.3 bits (60), Expect = 1.8
Identities = 19/90 (21%), Positives = 37/90 (41%), Gaps = 4/90 (4%)
Query: 14 AGKAQKNIAKSDKKKKKKHRRKESYAIYIYKVLKQVHPDTGV---SSKAMSIMNSFVNDI 70
GK K + K K+ +K R I ++++ GV S + + +
Sbjct: 3 RGKGGKGLGKGGAKRHRKILRDNIQGIT-KPAIRRLARRGGVKRISGLIYEEVRAVLKSF 61
Query: 71 FERIAAESSRLAHYNKRSTITSREIQTAVR 100
E + +S + KR T+TS ++ A++
Sbjct: 62 LESVIRDSVTYTEHAKRKTVTSLDVVYALK 91
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 28.5 bits (64), Expect = 2.1
Identities = 18/86 (20%), Positives = 31/86 (36%), Gaps = 13/86 (15%)
Query: 36 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREI 95
E+ + V ++V D + F + E I E+ + A T+ R++
Sbjct: 293 ENRRKLVQFVAQEVKRD--------GKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDL 344
Query: 96 QTAVRLLLPGELAKHAVSEGTKAVTK 121
VR AV +G K V +
Sbjct: 345 GGIVR-----AAGDIAVKKGKKYVER 365
Score = 28.5 bits (64), Expect = 2.1
Identities = 18/86 (20%), Positives = 31/86 (36%), Gaps = 13/86 (15%)
Query: 167 ESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREI 226
E+ + V ++V D + F + E I E+ + A T+ R++
Sbjct: 293 ENRRKLVQFVAQEVKRD--------GKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDL 344
Query: 227 QTAVRLLLPGELAKHAVSEGTKAVTK 252
VR AV +G K V +
Sbjct: 345 GGIVR-----AAGDIAVKKGKKYVER 365
>1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens}
SCOP: a.22.1.3
Length = 97
Score = 27.2 bits (60), Expect = 2.3
Identities = 11/59 (18%), Positives = 22/59 (37%)
Query: 42 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 100
I K++K +S++A + + + NKR T+ +I A+
Sbjct: 25 IKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAIT 83
Score = 27.2 bits (60), Expect = 2.3
Identities = 11/59 (18%), Positives = 22/59 (37%)
Query: 173 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231
I K++K +S++A + + + NKR T+ +I A+
Sbjct: 25 IKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRNDIAMAIT 83
>2foz_A ADP-ribosylhydrolase like 2; all alpha-helical, metal binding;
1.60A {Homo sapiens} PDB: 2fp0_A 2g4k_A 2qty_A
Length = 347
Score = 27.8 bits (62), Expect = 3.7
Identities = 10/53 (18%), Positives = 19/53 (35%)
Query: 69 DIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTK 121
++ A S++L H + + AV L L GE + + +
Sbjct: 152 QDVQKFARLSAQLTHASSLGYNGAILQALAVHLALQGESSSEHFLKQLLGHME 204
Score = 27.8 bits (62), Expect = 3.7
Identities = 10/53 (18%), Positives = 19/53 (35%)
Query: 200 DIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTK 252
++ A S++L H + + AV L L GE + + +
Sbjct: 152 QDVQKFARLSAQLTHASSLGYNGAILQALAVHLALQGESSSEHFLKQLLGHME 204
>3hfw_A Protein ADP-ribosylarginine hydrolase; all alpha-helical,
magnesium; HET: ADP; 1.92A {Homo sapiens}
Length = 357
Score = 27.7 bits (61), Expect = 3.7
Identities = 5/54 (9%), Positives = 17/54 (31%)
Query: 69 DIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKY 122
D +++ ES R+ H++ + + + + + +
Sbjct: 149 DTLIQVSIESGRMTHHHPTGYLGALASALFTAYAVNSRPPLQWGKGLMELLPEA 202
Score = 27.7 bits (61), Expect = 3.7
Identities = 5/54 (9%), Positives = 17/54 (31%)
Query: 200 DIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKY 253
D +++ ES R+ H++ + + + + + +
Sbjct: 149 DTLIQVSIESGRMTHHHPTGYLGALASALFTAYAVNSRPPLQWGKGLMELLPEA 202
>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 = 26.0 bits (57), Expect = 5.1
Identities = 9/60 (15%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 42 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIF-ERIAAESSRLAHYNKRSTITSREIQTAVR 100
I K+++ + G + A+ ++ S ++F E + ++ ++ T+T+ ++ +
Sbjct: 17 IKKIMQTD-EEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCIE 75
Score = 26.0 bits (57), Expect = 5.1
Identities = 9/60 (15%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 173 IYKVLKQVHPDTGVSSKAMSIMNSFVNDIF-ERIAAESSRLAHYNKRSTITSREIQTAVR 231
I K+++ + G + A+ ++ S ++F E + ++ ++ T+T+ ++ +
Sbjct: 17 IKKIMQTD-EEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLKQCIE 75
>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 = 27.3 bits (60), Expect = 5.5
Identities = 11/72 (15%), Positives = 26/72 (36%), Gaps = 10/72 (13%)
Query: 139 SSGKAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKVLK----------QVHPDTGVSS 188
+ + ++ A +NI K + K R + + K Q + + +
Sbjct: 440 ADNRIIEVTLDALENILKMGEADKEARGLNINENADFIEKAGGMEKIFNCQQNENDKIYE 499
Query: 189 KAMSIMNSFVND 200
KA I+ ++ +
Sbjct: 500 KAYKIIETYFGE 511
>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 = 26.2 bits (57), Expect = 5.6
Identities = 12/86 (13%), Positives = 36/86 (41%), Gaps = 2/86 (2%)
Query: 17 AQKNIAKSDKKKKKKHRRKESYAIYIYKVLKQV--HPDTGVSSKAMSIMNSFVNDIFERI 74
++ + ++ + R K + + + ++V + S + ++ ++ E
Sbjct: 8 EEEAETEEQQRFSYQQRLKAAVHYTVGCLCEEVALDKEMQFSKQTIAAISELTFRQCENF 67
Query: 75 AAESSRLAHYNKRSTITSREIQTAVR 100
A + A + KR+TI + +++ R
Sbjct: 68 AKDLEMFARHAKRTTINTEDVKLLAR 93
>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 = 25.5 bits (56), Expect = 5.6
Identities = 7/46 (15%), Positives = 19/46 (41%)
Query: 55 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 100
+S + E + ++ + KR T+T+ ++ A++
Sbjct: 28 ISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALK 73
Score = 25.5 bits (56), Expect = 5.6
Identities = 7/46 (15%), Positives = 19/46 (41%)
Query: 186 VSSKAMSIMNSFVNDIFERIAAESSRLAHYNKRSTITSREIQTAVR 231
+S + E + ++ + KR T+T+ ++ A++
Sbjct: 28 ISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALK 73
>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 = 26.5 bits (57), Expect = 7.7
Identities = 7/32 (21%), Positives = 15/32 (46%), Gaps = 6/32 (18%)
Query: 86 KRSTITSREIQTAVRLLLPGE---LAKHAVSE 114
K++ +++Q +++L LA A E
Sbjct: 19 KQAL---KKLQASLKLYADDSAPALAIKATME 47
Score = 26.5 bits (57), Expect = 7.7
Identities = 7/32 (21%), Positives = 15/32 (46%), Gaps = 6/32 (18%)
Query: 217 KRSTITSREIQTAVRLLLPGE---LAKHAVSE 245
K++ +++Q +++L LA A E
Sbjct: 19 KQAL---KKLQASLKLYADDSAPALAIKATME 47
>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 = 26.8 bits (59), Expect = 8.2
Identities = 7/73 (9%), Positives = 15/73 (20%), Gaps = 7/73 (9%)
Query: 142 KAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKVLKQVHPDTGVSSKAMSIMNSFVNDI 201
K + + K + K + +Y+ + S + I
Sbjct: 316 KTFELCSEPDKIKIVKNYGKNNLACVKVIDSLYE-------QYKIRKHYESYEKAQKAKI 368
Query: 202 FERIAAESSRLAH 214
I
Sbjct: 369 LSAINELHHEGIE 381
>3h6l_A Histone-lysine N-methyltransferase SETD2; SET domain-containing
protein 2, S-adenos methionine, structural genomics,
structural genomics consor SGC; HET: SAM; 1.99A {Homo
sapiens}
Length = 278
Score = 26.3 bits (58), Expect = 9.1
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 15 GKAQKNIAKSDKKKKKKHRRK 35
G+ + +I + K KK+ RK
Sbjct: 258 GENRVSIRAAGGKMKKERSRK 278
>2jdq_A Importin alpha-1 subunit; transport, PB2 subunit, nuclear protein,
protein transport, armadillo repeats; 2.2A {Homo
sapiens} PDB: 3tj3_A
Length = 450
Score = 26.8 bits (59), Expect = 9.5
Identities = 11/69 (15%), Positives = 24/69 (34%), Gaps = 10/69 (14%)
Query: 139 SSGKAVKKAGKAQKNIAKSDKKKKHRRKESYAIYIYKVLK----------QVHPDTGVSS 188
K V+ A +NI + +++ R Y + + Q H + +
Sbjct: 373 MDSKIVQVALNGLENILRLGEQEAKRNGTGINPYCALIEEAYGLDKIEFLQSHENQEIYQ 432
Query: 189 KAMSIMNSF 197
KA ++ +
Sbjct: 433 KAFDLIEHY 441
>1t5j_A Hypothetical protein MJ1187; putative hydrolase, structural
genomics, PSI, protein structure initiative; 2.70A
{Methanocaldococcus jannaschii} SCOP: a.209.1.1
Length = 313
Score = 26.5 bits (59), Expect = 9.6
Identities = 8/54 (14%), Positives = 17/54 (31%)
Query: 69 DIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKY 122
+ ++S++ H NK + + I V L + E +
Sbjct: 142 KKLKEEVIKASKITHNNKTAIAGALAIAFFVSSALKDRKDFSLLDECYNYIKDI 195
Score = 26.5 bits (59), Expect = 9.6
Identities = 8/54 (14%), Positives = 17/54 (31%)
Query: 200 DIFERIAAESSRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKY 253
+ ++S++ H NK + + I V L + E +
Sbjct: 142 KKLKEEVIKASKITHNNKTAIAGALAIAFFVSSALKDRKDFSLLDECYNYIKDI 195
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
0.310 0.122 0.317
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: 3,497,690
Number of extensions: 198795
Number of successful extensions: 497
Number of sequences better than 10.0: 1
Number of HSP's gapped: 481
Number of HSP's successfully gapped: 93
Length of query: 257
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 165
Effective length of database: 4,133,061
Effective search space: 681955065
Effective search space used: 681955065
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 (21.8 bits)
S2: 56 (25.8 bits)