RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7427
(151 letters)
>2hue_B Histone H3; mini beta sheet, elongated beta sandwhich, DNA binding
prote; 1.70A {Xenopus laevis}
Length = 77
Score = 74.5 bits (183), Expect = 9e-19
Identities = 46/47 (97%), Positives = 46/47 (97%)
Query: 66 LVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 112
LVREIAQDFKTDLRFQSSAVMALQEASEAYLV LFEDTNLCAIHAKR
Sbjct: 12 LVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKR 58
>3nqj_A Histone H3-like centromeric protein A; alpha helix, histone fold,
centromere, DNA binding protein; 2.10A {Homo sapiens}
Length = 82
Score = 59.3 bits (143), Expect = 8e-13
Identities = 25/49 (51%), Positives = 32/49 (65%), Gaps = 2/49 (4%)
Query: 66 LVREIAQDFKT--DLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 112
L REI F D +Q+ A++ALQEA+EA+LV LFED L +HA R
Sbjct: 12 LAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGR 60
>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 = 53.1 bits (126), Expect = 7e-10
Identities = 54/98 (55%), Positives = 58/98 (59%)
Query: 15 TRSTRDDYRSHSHRDIVKKNRETQVYKAGTGPERDASHRWVQTHRVTQVLSLVREIAQDF 74
+T+ +S VKK + R R LVREIAQDF
Sbjct: 20 QLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDF 79
Query: 75 KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 112
KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR
Sbjct: 80 KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 117
>2yfv_A Histone H3-like centromeric protein CSE4; cell cycle, kinetochore,
centromere, histone chaperone, BUDD; 2.32A
{Kluyveromyces lactis nrrl y-1140} PDB: 2yfw_A
Length = 100
Score = 49.8 bits (118), Expect = 6e-09
Identities = 33/51 (64%), Positives = 39/51 (76%), Gaps = 3/51 (5%)
Query: 65 SLVREIAQDFKTD---LRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 112
LV+E+ F T+ LR+QS A+MALQEASEAYLVGL E TNL A+HAKR
Sbjct: 35 RLVKEVTDQFTTESEPLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKR 85
>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 = 43.7 bits (102), Expect = 2e-06
Identities = 24/48 (50%), Positives = 31/48 (64%), Gaps = 2/48 (4%)
Query: 67 VREIAQDF--KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 112
REI F D +Q+ A++ALQEA+EA+LV LFED L +HA R
Sbjct: 71 AREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGR 118
>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 = 43.8 bits (102), Expect = 4e-06
Identities = 33/49 (67%), Positives = 39/49 (79%), Gaps = 3/49 (6%)
Query: 67 VREIAQDFKT---DLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 112
V+E+ +F T DLR+QS A+MALQEASEAYLVGL E TNL A+HAKR
Sbjct: 21 VKEVTDEFTTKDQDLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKR 69
>3r45_A Histone H3-like centromeric protein A; histone fold, centromere,
CENP-A, histone chaperone, hjurp; 2.60A {Homo sapiens}
Length = 156
Score = 40.0 bits (92), Expect = 7e-05
Identities = 24/48 (50%), Positives = 31/48 (64%), Gaps = 2/48 (4%)
Query: 67 VREIAQDF--KTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 112
REI F D +Q+ A++ALQEA+EA+LV LFED L +HA R
Sbjct: 87 AREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGR 134
>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 = 28.0 bits (62), Expect = 0.64
Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 1/48 (2%)
Query: 65 SLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 112
SL+++I + A +++ SE Y + D + HA R
Sbjct: 11 SLIKQIFSHY-VKTPVTRDAYKIVEKCSERYFKQISSDLEAYSQHAGR 57
>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 = 29.1 bits (64), Expect = 0.73
Identities = 9/69 (13%), Positives = 17/69 (24%), Gaps = 11/69 (15%)
Query: 21 DYRSHSHRD---IVKKN--RETQVYKAGTGPERDASHRWVQTHRVT----QVLSLVREIA 71
+ R + D K N R K + V V + ++
Sbjct: 114 EQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWV--ALDVC 171
Query: 72 QDFKTDLRF 80
+K +
Sbjct: 172 LSYKVQCKM 180
>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 = 26.5 bits (59), Expect = 1.00
Identities = 9/34 (26%), Positives = 13/34 (38%)
Query: 79 RFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 112
R A +AL + E + + A HA R
Sbjct: 19 RVSDDARIALAKVLEEMGEEIASEAVKLAKHAGR 52
>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A
{Pyrococcus horikoshii} SCOP: a.22.1.2
Length = 70
Score = 26.2 bits (58), Expect = 1.4
Identities = 10/34 (29%), Positives = 13/34 (38%)
Query: 79 RFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 112
R A L E E Y + + + A HA R
Sbjct: 23 RVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGR 56
>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 = 27.3 bits (60), Expect = 2.8
Identities = 16/113 (14%), Positives = 26/113 (23%), Gaps = 35/113 (30%)
Query: 62 QVLSLVREIAQDFKTDLRFQSSAVMALQEASEAY--------LVGLFEDTNLCAIHAKRG 113
QV V + ++L ++ L GL + L A G
Sbjct: 348 QVQDYVNKTNSHLPAG----KQVEISLVNGAKNLVVSGPPQSLYGL--NLTLRKAKAPSG 401
Query: 114 YDASASVGSTKKPA----------------MTPQMQMII-----WGIEIKPSQ 145
D S S +K + P +I +
Sbjct: 402 LDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKD 454
>3qpm_A Peroxiredoxin; oxidoreductase, thioredoxin fold, peroxidase; 1.90A
{Larimichthys crocea}
Length = 240
Score = 25.7 bits (57), Expect = 5.4
Identities = 13/81 (16%), Positives = 24/81 (29%), Gaps = 16/81 (19%)
Query: 25 HSHRDIVKKNRETQVYKAGTGPERDASHRWVQTHRVTQVLSLVREIAQDFKTDLRFQSSA 84
H KN + Y G +A V H + + + + A ++
Sbjct: 8 HMEEAAHVKNSQCHNYAGGHVYPGEAFRVPVSDHSLHLSKAKISKPAPQWEG-------- 59
Query: 85 VMALQEASEAYLVGLFEDTNL 105
A + G F++ L
Sbjct: 60 --------TAVINGEFKELKL 72
>3b0b_B CENP-S, centromere protein S; histone fold, DNA binding, DNA,
nucleus, DNA binding protein; 2.15A {Gallus gallus}
Length = 107
Score = 25.0 bits (54), Expect = 7.5
Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 2/50 (4%)
Query: 63 VLSLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKR 112
L +++A+D F V A+ E + D + A HAKR
Sbjct: 25 TGCLCQDVAEDKGV--LFSKQTVAAISEITFRQCENFARDLEMFARHAKR 72
>3hq1_A 2-isopropylmalate synthase; LEUA, mycobacterium tuberculosis
inhibition, bromopyruvate, amino-acid biosynthesis; HET:
FLC; 1.70A {Mycobacterium tuberculosis} PDB: 1sr9_A
3hpz_A 3hps_A* 3fig_A 3u6w_A 3hpx_A
Length = 644
Score = 25.5 bits (56), Expect = 8.8
Identities = 7/31 (22%), Positives = 10/31 (32%)
Query: 24 SHSHRDIVKKNRETQVYKAGTGPERDASHRW 54
S SH+D + K + A W
Sbjct: 376 SGSHQDAINKGLDAMKLDADAADCDVDDMLW 406
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
0.317 0.126 0.369
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: 2,119,728
Number of extensions: 105539
Number of successful extensions: 188
Number of sequences better than 10.0: 1
Number of HSP's gapped: 187
Number of HSP's successfully gapped: 20
Length of query: 151
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 66
Effective length of database: 4,328,508
Effective search space: 285681528
Effective search space used: 285681528
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 (21.7 bits)
S2: 53 (24.6 bits)