RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16276
(215 letters)
>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 = 107 bits (266), Expect = 7e-30
Identities = 91/98 (92%), Positives = 94/98 (95%)
Query: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
MARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 60
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LLIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 98
>3r45_A Histone H3-like centromeric protein A; histone fold, centromere,
CENP-A, histone chaperone, hjurp; 2.60A {Homo sapiens}
Length = 156
Score = 90.8 bits (224), Expect = 2e-23
Identities = 39/100 (39%), Positives = 50/100 (50%), Gaps = 7/100 (7%)
Query: 1 MARTKQTARKSTGGKAPRKQ----LATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQ 56
+ R+S +APR++ T + PS G H R L+EIR+ Q
Sbjct: 13 DPNSMGPRRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQHS-RRRQGWLKEIRKLQ 71
Query: 57 KSTELLIRKLPFQRLVREIAQDF--KTDLRFQSAAIGALQ 94
KST LLIRKLPF RL REI F D +Q+ A+ ALQ
Sbjct: 72 KSTHLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQ 111
>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 = 90.3 bits (223), Expect = 2e-23
Identities = 39/94 (41%), Positives = 49/94 (52%), Gaps = 7/94 (7%)
Query: 8 ARKSTGGKAPRKQ----LATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTELLI 63
R+S +APR++ T + PS G H R L+EIR+ QKST LLI
Sbjct: 4 RRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQH-SRRRQGWLKEIRKLQKSTHLLI 62
Query: 64 RKLPFQRLVREIAQDF--KTDLRFQSAAIGALQY 95
RKLPF RL REI F D +Q+ A+ ALQ
Sbjct: 63 RKLPFSRLAREICVKFTRGVDFNWQAQALLALQE 96
>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 = 82.9 bits (204), Expect = 5e-21
Identities = 33/65 (50%), Positives = 45/65 (69%), Gaps = 3/65 (4%)
Query: 37 KKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTD---LRFQSAAIGAL 93
+ RY+P +AL EIR+YQ+ST+LLI ++PF RLV+E+ F T+ LR+QS AI AL
Sbjct: 2 ARGTRYKPTDLALAEIRKYQRSTDLLISRMPFARLVKEVTDQFTTESEPLRWQSMAIMAL 61
Query: 94 QYWIE 98
Q E
Sbjct: 62 QEASE 66
>2hue_B Histone H3; mini beta sheet, elongated beta sandwhich, DNA
binding prote; 1.70A {Xenopus laevis}
Length = 77
Score = 64.5 bits (157), Expect = 3e-14
Identities = 31/38 (81%), Positives = 33/38 (86%)
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 2 ALIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 39
>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 = 59.3 bits (142), Expect = 6e-11
Identities = 22/46 (47%), Positives = 30/46 (65%), Gaps = 3/46 (6%)
Query: 52 IRRYQKSTELLIRKLPFQRLVREIAQDFKT---DLRFQSAAIGALQ 94
+ + +LLI K+PF RLV+E+ +F T DLR+QS AI ALQ
Sbjct: 1 MHHHHHHKKLLISKIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQ 46
>3nqj_A Histone H3-like centromeric protein A; alpha helix, histone fold,
centromere, DNA binding protein; 2.10A {Homo sapiens}
Length = 82
Score = 54.2 bits (130), Expect = 2e-10
Identities = 21/41 (51%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 61 LLIRKLPFQRLVREIAQDFKT--DLRFQSAAIGALQYWIEN 99
LLIRKLPF RL REI F D +Q+ A+ ALQ E
Sbjct: 2 LLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEA 42
>2x4w_B Histone H3.2; transcription, metal-binding, zinc-finger,
chromatin regulator, transcription regulation; HET:
M3L; 1.50A {Homo sapiens} PDB: 2x4x_B* 2x4y_B*
Length = 26
Score = 43.8 bits (102), Expect = 5e-07
Identities = 19/21 (90%), Positives = 20/21 (95%)
Query: 23 TKAARKSAPSTGGVKKPHRYR 43
TKAARKSAP+TGGV KPHRYR
Sbjct: 1 TKAARKSAPATGGVXKPHRYR 21
>3avr_B Histone H3; cupin superfamily, TRI/dimethyllysine demethylase,
oxidoredu structural protein complex; HET: M3L OGA EDO;
1.80A {Homo sapiens}
Length = 26
Score = 40.3 bits (93), Expect = 9e-06
Identities = 20/22 (90%), Positives = 21/22 (95%)
Query: 18 RKQLATKAARKSAPSTGGVKKP 39
RKQLATKAAR SAP+TGGVKKP
Sbjct: 1 RKQLATKAARXSAPATGGVKKP 22
>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 = 43.3 bits (101), Expect = 4e-05
Identities = 23/179 (12%), Positives = 47/179 (26%), Gaps = 57/179 (31%)
Query: 36 VKKPHRYRPGTV-----ALREIRRYQ-----------KSTELLIRKLPFQRLVREIAQDF 79
K + R AL E+R + K+ + ++ +
Sbjct: 126 FAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW-----------VALDVCLSY 174
Query: 80 KTDLRFQSAAIGALQYWIENSGQFDLNPSSSLKIKKHRKPTWLDYLKTPTCALSMPNVSP 139
K + +W+ N + +P + L++ L L PN +
Sbjct: 175 KVQCKMDFKI-----FWL-NLKNCN-SPETVLEM--------LQKL----LYQIDPNWTS 215
Query: 140 LCPKTFSWPDVSEESVLKFPTWLDYLKTPTCALSMPNVSPLCPKTFSWLDKEPIK-FNV 197
+ + + L C L + NV + + FN+
Sbjct: 216 RSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNV---------Q-NAKAWNAFNL 264
Score = 31.4 bits (70), Expect = 0.27
Identities = 32/190 (16%), Positives = 52/190 (27%), Gaps = 57/190 (30%)
Query: 51 EIRRYQKSTELLI----RKLPFQRLVR-------EIAQDFKTDLRFQSAAIG---ALQYW 96
E R+ L + +P L L S
Sbjct: 370 EYRKMFD--RLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS 427
Query: 97 IENSGQFDLNPSSSLKIKKHRKPTWLDYLKTPTCALSMPNVSPLCPKTFSWPDVSEESVL 156
I S +L + HR +D+ PKTF D+
Sbjct: 428 I-PSIYLELKVKLENEYALHRS--IVDHYNI--------------PKTFDSDDLI----- 465
Query: 157 KFPTWLD-Y--------LKTPTCALSMPNVSPLCPKT---FSWLDKEPIKFNVDLDGAPE 204
P +LD Y LK + P L F +L+++ I+ + A
Sbjct: 466 --PPYLDQYFYSHIGHHLK----NIEHPERMTLFRMVFLDFRFLEQK-IRHDSTAWNASG 518
Query: 205 ELIQLVQSIK 214
++ +Q +K
Sbjct: 519 SILNTLQQLK 528
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 41.6 bits (97), Expect = 1e-04
Identities = 48/305 (15%), Positives = 77/305 (25%), Gaps = 121/305 (39%)
Query: 1 MARTKQTARKSTGGKAPRKQ---LATKAARKSAPST---GGVKKPHRYRPGTVALREIR- 53
+ + TAR +K L +A GG Y E+R
Sbjct: 122 LIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDY------FEELRD 175
Query: 54 ---RYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIENSGQFDLNPSSS 110
Y LI+ + L I + + + + L+ W+EN PS+
Sbjct: 176 LYQTYHVLVGDLIKFS-AETLSELIRTTLDAE-KVFTQGLNILE-WLEN-------PSN- 224
Query: 111 LKIKKHRKPTWLDYLKTPTCALSMP--------------NVSPLCPKTF----------- 145
P DYL + +S P + P
Sbjct: 225 -------TPD-KDYLLS--IPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHS 274
Query: 146 -------------SWPDVSEESVLKFPTWLDYL------KTPTCALS------------- 173
SW SV K T L ++ P +L
Sbjct: 275 QGLVTAVAIAETDSWESF-FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEG 333
Query: 174 ----MPNVSPLCPKTFSWLDKEPIKFNVDLD-------------------GAPEELIQLV 210
M ++S L + + K N L G P+ L L
Sbjct: 334 VPSPMLSISNLTQEQ---VQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLN 390
Query: 211 QSIKE 215
++++
Sbjct: 391 LTLRK 395
Score = 33.5 bits (76), Expect = 0.050
Identities = 24/149 (16%), Positives = 44/149 (29%), Gaps = 39/149 (26%)
Query: 25 AARKSAPSTGGVKKPHR-----YRPGTVALREIRRYQKSTELLIR-------KL------ 66
AA+ + + K +A R + S L R +L
Sbjct: 105 AAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNS--ALFRAVGEGNAQLVAIFGG 162
Query: 67 ------PFQRLVREIAQDFKTDLR-FQSAAIGALQYWIENSGQFDLNPSSSLKIKKHRKP 119
F+ L R++ Q + + + L I + + + L I +
Sbjct: 163 QGNTDDYFEEL-RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILE---- 217
Query: 120 TWLDYLKTPTCALSMPNVSPLCPKTFSWP 148
WL+ P+ + P+ L S P
Sbjct: 218 -WLE---NPS---NTPDKDYLLSIPISCP 239
>3e3p_A Protein kinase, putative glycogen synthase kinase; leishmaniasis,
transferase; 2.00A {Leishmania major}
Length = 360
Score = 26.5 bits (59), Expect = 6.7
Identities = 11/50 (22%), Positives = 16/50 (32%), Gaps = 9/50 (18%)
Query: 161 WLDYLKTPTCALSMPNVSPLCPKTFSWLDKEPIKFNVDLDGAPEELIQLV 210
+ D L P L PN L F +L E ++ E +
Sbjct: 317 YFDELHDPATKL--PNNKDLPEDLFRFLPNE-------IEVMSEAQKAKL 357
>1e7u_A Phosphatidylinositol 3-kinase catalytic subunit; phosphoinositide
3-kinase gamma, secondary messenger generation, PI3K, PI
3K, wortmannin; HET: KWT; 2.0A {Sus scrofa} SCOP:
a.118.1.6 b.7.1.1 d.15.1.5 d.144.1.4 PDB: 1e8x_A*
1e8w_A* 1e7v_A* 1e90_A* 3l54_A* 3s2a_A* 3qaq_A* 3qjz_A*
3qk0_A* 3qar_A* 3apc_A* 3apd_A* 3apf_A* 3dbs_A* 3l13_A*
3r7q_A* 3cst_A* 3csf_A* 3l16_A* 3l17_A* ...
Length = 961
Score = 26.4 bits (57), Expect = 9.1
Identities = 9/75 (12%), Positives = 17/75 (22%), Gaps = 5/75 (6%)
Query: 136 NVSPLCPKTFSWPDVSEESVLKFPTWLDYLKTPTCALSMPNVSPLCPKTFSWLDKEPIKF 195
+ + D + W+ P L ++ C
Sbjct: 38 RLVTPRMAEVAGRD---PKLYAMHPWVTSKPLPEYLLK--KITNNCVFIVIHRSTTSQTI 92
Query: 196 NVDLDGAPEELIQLV 210
V D P ++Q
Sbjct: 93 KVSADDTPGTILQSF 107
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 0.132 0.402
Gapped
Lambda K H
0.267 0.0433 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,216,595
Number of extensions: 178368
Number of successful extensions: 296
Number of sequences better than 10.0: 1
Number of HSP's gapped: 288
Number of HSP's successfully gapped: 17
Length of query: 215
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 125
Effective length of database: 4,188,903
Effective search space: 523612875
Effective search space used: 523612875
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: 55 (25.7 bits)