RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9662
(110 letters)
>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 = 113 bits (282), Expect = 8e-34
Identities = 98/101 (97%), Positives = 99/101 (98%)
Query: 10 FPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHL 69
FPVGRIHRHLK+RTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHL
Sbjct: 28 FPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHL 87
Query: 70 QLAIRGDEELDSLIKATIAGGGVIPHIHKSLIGKKGTQKPV 110
QLAIRGDEELDSLIKATIAGGGVIPHIHKSLIGKKG QK V
Sbjct: 88 QLAIRGDEELDSLIKATIAGGGVIPHIHKSLIGKKGQQKTV 128
>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 = 112 bits (280), Expect = 3e-33
Identities = 61/100 (61%), Positives = 72/100 (72%), Gaps = 2/100 (2%)
Query: 10 FPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHL 69
FPVGR+HR L+ S RVGA A VY AA+LEYLTAE+LELAGNA++D K RI PRHL
Sbjct: 45 FPVGRVHRLLRKGNYSE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHL 103
Query: 70 QLAIRGDEELDSLIK-ATIAGGGVIPHIHKSLIGKKGTQK 108
QLAIR DEEL+ L+ TIA GGV+P+I L+ KK
Sbjct: 104 QLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTESH 143
>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 = 110 bits (275), Expect = 8e-33
Identities = 60/100 (60%), Positives = 72/100 (72%), Gaps = 2/100 (2%)
Query: 10 FPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHL 69
FPVGR+HR L+ + RVGA A VY AA+LEYLTAE+LELAGNA++D K RI PRHL
Sbjct: 26 FPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHL 84
Query: 70 QLAIRGDEELDSLIK-ATIAGGGVIPHIHKSLIGKKGTQK 108
QLAIR DEEL+ L+ TIA GGV+P+I L+ KK
Sbjct: 85 QLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPKKTDSH 124
>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C*
Length = 123
Score = 103 bits (258), Expect = 3e-30
Identities = 61/100 (61%), Positives = 73/100 (73%), Gaps = 2/100 (2%)
Query: 10 FPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHL 69
FPVGRIHR L+ + RVGA A VY AA++EYL AEVLELAGNA++D K RI PRHL
Sbjct: 24 FPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRHL 82
Query: 70 QLAIRGDEELDSLIKA-TIAGGGVIPHIHKSLIGKKGTQK 108
QLAIR DEEL+ L+ TIA GGV+P+I L+ KK +K
Sbjct: 83 QLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKK 122
>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 = 102 bits (255), Expect = 6e-30
Identities = 54/96 (56%), Positives = 71/96 (73%), Gaps = 2/96 (2%)
Query: 10 FPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHL 69
FPVGR+ R++K + R+G A VY AA+LEYLTAE+LELA NA++D K R+TPRH+
Sbjct: 23 FPVGRMLRYIKKGHPKY-RIGVGAPVYMAAVLEYLTAEILELAVNAARDNKKGRVTPRHI 81
Query: 70 QLAIRGDEELDSLIKA-TIAGGGVIPHIHKSLIGKK 104
LA+ DEEL+ L+K TIA GGV+P+IH L+ KK
Sbjct: 82 LLAVANDEELNQLLKGVTIASGGVLPNIHPELLAKK 117
>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 = 99.6 bits (247), Expect = 1e-28
Identities = 56/100 (56%), Positives = 73/100 (73%), Gaps = 2/100 (2%)
Query: 10 FPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHL 69
FPVGR+HR L+ R+G+ A VY A+LEYL AE+LELAGNA++D K RI PRHL
Sbjct: 26 FPVGRVHRLLRR-GNYAQRIGSGAPVYLTAVLEYLAAEILELAGNAARDNKKTRIIPRHL 84
Query: 70 QLAIRGDEELDSLI-KATIAGGGVIPHIHKSLIGKKGTQK 108
QLAIR D+EL+ L+ TIA GGV+P+IH++L+ KK +
Sbjct: 85 QLAIRNDDELNKLLGNVTIAQGGVLPNIHQNLLPKKSAKA 124
>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 = 94.1 bits (232), Expect = 1e-25
Identities = 68/91 (74%), Positives = 76/91 (83%)
Query: 6 QQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRIT 65
FPVGRI R+LK T RVG+ AA+Y A+LEYLTAEVLELAGNA+KDLKVKRIT
Sbjct: 102 AGLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAAKDLKVKRIT 161
Query: 66 PRHLQLAIRGDEELDSLIKATIAGGGVIPHI 96
PRHLQLAIRGD+ELDSLI+ATIA GGV+PHI
Sbjct: 162 PRHLQLAIRGDDELDSLIRATIASGGVLPHI 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 = 62.6 bits (152), Expect = 2e-14
Identities = 17/74 (22%), Positives = 31/74 (41%), Gaps = 1/74 (1%)
Query: 5 EQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRI 64
+ FP RI + ++ G+V A V + LE +L+ A ++ K +
Sbjct: 7 KYNARFPPARIKKIMQ-TDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTM 65
Query: 65 TPRHLQLAIRGDEE 78
T HL+ I + +
Sbjct: 66 TTSHLKQCIELEGD 79
>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 = 52.5 bits (125), Expect = 2e-09
Identities = 22/74 (29%), Positives = 44/74 (59%), Gaps = 2/74 (2%)
Query: 9 NFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRH 68
+ PV +IH LK ++ +VY A+LEY++A++L+L GN ++++ IT +
Sbjct: 104 SLPVEKIHPLLKE--VLGYKIDHQVSVYIVAVLEYISADILKLVGNYVRNIRHYEITKQD 161
Query: 69 LQLAIRGDEELDSL 82
+++A+ D+ L +
Sbjct: 162 IKVAMCADKVLMDM 175
>1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo
sapiens} SCOP: a.22.1.3
Length = 97
Score = 46.5 bits (110), Expect = 3e-08
Identities = 17/79 (21%), Positives = 32/79 (40%), Gaps = 1/79 (1%)
Query: 5 EQQPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRI 64
+ P+ RI + +K + A A V A + E+ A ++D K + +
Sbjct: 15 FRVQELPLARIKKIMKL-DEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTL 73
Query: 65 TPRHLQLAIRGDEELDSLI 83
+ +AI ++ D LI
Sbjct: 74 QRNDIAMAITKFDQFDFLI 92
>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 = 37.7 bits (87), Expect = 3e-04
Identities = 13/108 (12%), Positives = 33/108 (30%), Gaps = 28/108 (25%)
Query: 22 RTTSHGRVGATAAVYSAAIL-------EYLTA--EVLELA---GNASKDL-KVKRITPRH 68
R+ G G + + +A + + + + + + G + + P
Sbjct: 264 RSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSI 323
Query: 69 LQ-------------LAIRG--DEELDSLIKATIAGGGVIPHIHKSLI 101
L+ L+I E++ + T + + SL+
Sbjct: 324 LEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLV 371
Score = 30.4 bits (68), Expect = 0.087
Identities = 7/33 (21%), Positives = 15/33 (45%)
Query: 45 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDE 77
L+ N +K+++I LQ ++ +E
Sbjct: 1858 DLRALDTVTNVLNFIKLQKIDIIELQKSLSLEE 1890
>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 = 28.0 bits (61), Expect = 0.56
Identities = 8/29 (27%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 60 KVKRITPRHLQLAIRGDEELDSL-IKATI 87
+K++ L + D+ +L IKAT+
Sbjct: 21 ALKKLQAS---LKLYADDSAPALAIKATM 46
>2y1q_A CLPC N-domain, negative regulator of genetic competence CLPC/MEC;
transcription, proteolysis; 1.50A {Bacillus subtilis}
PDB: 2y1r_A* 2k77_A
Length = 150
Score = 27.6 bits (62), Expect = 0.64
Identities = 7/34 (20%), Positives = 17/34 (50%)
Query: 45 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDEE 78
+V+EL+ + ++ L + H+ L + + E
Sbjct: 84 AKKVIELSMDEARKLGHSYVGTEHILLGLIREGE 117
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 6.93A {Bacillus subtilis}
Length = 758
Score = 27.5 bits (62), Expect = 0.97
Identities = 7/34 (20%), Positives = 17/34 (50%)
Query: 45 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDEE 78
+V+EL+ + ++ L + H+ L + + E
Sbjct: 84 AKKVIELSMDEARKLGHSYVGTEHILLGLIREGE 117
>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 = 27.6 bits (62), Expect = 0.97
Identities = 7/34 (20%), Positives = 17/34 (50%)
Query: 45 TAEVLELAGNASKDLKVKRITPRHLQLAIRGDEE 78
+V+EL+ + ++ L + H+ L + + E
Sbjct: 84 AKKVIELSMDEARKLGHSYVGTEHILLGLIREGE 117
>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 = 26.9 bits (59), Expect = 1.0
Identities = 17/78 (21%), Positives = 28/78 (35%), Gaps = 8/78 (10%)
Query: 1 MAEWEQQPNFPVGRIHRHLKNRTTSHGRVG--ATAAVYSAAI--LEYLTAEVLELAGNAS 56
M E + N P I R +K V A AA+ AA ++T+ + +
Sbjct: 1 MVERIEDLNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSS----STALA 56
Query: 57 KDLKVKRITPRHLQLAIR 74
K IT + + +
Sbjct: 57 HKQNHKTITAKDILQTLT 74
>3fh2_A Probable ATP-dependent protease (heat shock prote; struct genomics,
PSI2, MCSG, protein structure initiative; 1.60A
{Corynebacterium glutamicum}
Length = 146
Score = 26.9 bits (60), Expect = 1.1
Identities = 9/31 (29%), Positives = 13/31 (41%)
Query: 48 VLELAGNASKDLKVKRITPRHLQLAIRGDEE 78
VLEL+ + K I L L + + E
Sbjct: 89 VLELSLREGLQMGHKYIGTEFLLLGLIREGE 119
>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 = 26.6 bits (57), Expect = 1.4
Identities = 16/72 (22%), Positives = 27/72 (37%), Gaps = 2/72 (2%)
Query: 7 QPNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITP 66
P R+ R + + R ++A + E + E + K I P
Sbjct: 63 IRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMP 122
Query: 67 RHLQLA--IRGD 76
+ +QLA IRG+
Sbjct: 123 KDIQLARRIRGE 134
>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A
{Pyrococcus horikoshii} SCOP: a.22.1.2
Length = 70
Score = 25.8 bits (57), Expect = 1.4
Identities = 17/67 (25%), Positives = 28/67 (41%), Gaps = 5/67 (7%)
Query: 8 PNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPR 67
P PV R+ ++ RV AA A LE E+ + A ++ K +
Sbjct: 8 PIAPVDRL---IRKAGAE--RVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVE 62
Query: 68 HLQLAIR 74
++LAI+
Sbjct: 63 DIKLAIK 69
>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 = 27.1 bits (59), Expect = 1.6
Identities = 11/89 (12%), Positives = 27/89 (30%), Gaps = 27/89 (30%)
Query: 8 PNFPVGRIHRHLKNRT-----------TSHGRVGATAAVYSAAILEYLTAEVLELAGNAS 56
+ V R+ +LK R G +G+ + +V
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW--------VALDVC------- 171
Query: 57 KDLKVKRITPRHLQ-LAIRGDEELDSLIK 84
KV+ + L ++ +++++
Sbjct: 172 LSYKVQCKMDFKIFWLNLKNCNSPETVLE 200
>3mv2_A Coatomer subunit alpha; vesicular membrane coat COAT protein
complex I, protein TRAN; 2.90A {Saccharomyces
cerevisiae} PDB: 3mv3_A
Length = 325
Score = 25.4 bits (55), Expect = 4.2
Identities = 9/45 (20%), Positives = 17/45 (37%), Gaps = 12/45 (26%)
Query: 42 EYLTAEVLELAGNASKDLKVKR------------ITPRHLQLAIR 74
EY+ +EL + K+ R ++P H A++
Sbjct: 167 EYILGLSIELERRSLKEGNTVRMLELAAYFTKAKLSPIHRTNALQ 211
>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 = 25.3 bits (56), Expect = 4.2
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 48 VLELAGNASKDLKVKRITPRHLQLAIRGDEE 78
+LEL+G + LK I H+ LAI + E
Sbjct: 89 ILELSGMFANKLKTNYIGTEHILLAIIQEGE 119
>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 = 24.2 bits (53), Expect = 4.9
Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 5/67 (7%)
Query: 8 PNFPVGRIHRHLKNRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPR 67
P P+GRI +KN RV A + A +LE + E+ A +K K I
Sbjct: 4 PIAPIGRI---IKNAGAE--RVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAE 58
Query: 68 HLQLAIR 74
++LA +
Sbjct: 59 DIELARK 65
>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 = 24.9 bits (55), Expect = 8.0
Identities = 7/32 (21%), Positives = 15/32 (46%)
Query: 47 EVLELAGNASKDLKVKRITPRHLQLAIRGDEE 78
VL+ A + +T ++ +AI ++E
Sbjct: 86 RVLQRAVFHVQSSGRNEVTGANVLVAIFSEQE 117
>2ddm_A Pyridoxine kinase; pyridoxal kinase, ribokinase, pyridoxal
5'-phosphate, vitamin B6, phosphorylation, transferase;
2.10A {Escherichia coli} PDB: 2ddo_A* 2ddw_A*
Length = 283
Score = 24.6 bits (54), Expect = 9.9
Identities = 6/23 (26%), Positives = 10/23 (43%), Gaps = 3/23 (13%)
Query: 26 HGRVGATAAVYSAAILEYLTAEV 48
+G VG + AV ++ V
Sbjct: 27 YGSVGNSIAV---PAIKQNGLNV 46
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 0.133 0.383
Gapped
Lambda K H
0.267 0.0700 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,725,983
Number of extensions: 96701
Number of successful extensions: 312
Number of sequences better than 10.0: 1
Number of HSP's gapped: 298
Number of HSP's successfully gapped: 39
Length of query: 110
Length of database: 6,701,793
Length adjustment: 74
Effective length of query: 36
Effective length of database: 4,635,639
Effective search space: 166883004
Effective search space used: 166883004
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: 51 (23.5 bits)