RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8405
(225 letters)
>3i3c_A Chromobox protein homolog 5; CBX5, chromo shadow domain, structural
genomics, structural consortium, SGC, centromere,
nucleus, phosphoprotein; 2.48A {Homo sapiens}
Length = 75
Score = 71.4 bits (175), Expect = 8e-17
Identities = 28/74 (37%), Positives = 42/74 (56%)
Query: 137 SVNDIVVKEKLLNDMNLGIDRNLPVEEIIGATIEVGFPAYLVTWEGSDEADLLPAEICKR 196
S + + ND+ G +R L E+IIGAT G +L+ W+ +DEADL+ A+
Sbjct: 1 SSGRENLYFQGSNDIARGFERGLEPEKIIGATDSCGDLMFLMKWKDTDEADLVLAKEANV 60
Query: 197 KYPQPLIRFFEQHL 210
K PQ +I F+E+ L
Sbjct: 61 KCPQIVIAFYEERL 74
>3kup_A Chromobox protein homolog 3; chromo shadow domain, structural
genomics consortium, SGC, acetylation, chromatin
regulator, nucleus, phosphoprotein; 1.77A {Homo sapiens}
PDB: 1dz1_A
Length = 65
Score = 70.9 bits (174), Expect = 1e-16
Identities = 26/57 (45%), Positives = 34/57 (59%)
Query: 154 GIDRNLPVEEIIGATIEVGFPAYLVTWEGSDEADLLPAEICKRKYPQPLIRFFEQHL 210
G R L E IIGAT G +L+ W+ SDEADL+ A+ K PQ +I F+E+ L
Sbjct: 8 GFARGLDPERIIGATDSSGELMFLMKWKDSDEADLVLAKEANMKCPQIVIAFYEERL 64
>3q6s_A Chromobox protein homolog 1; incenp, heterochromatin, centromere,
cell cycle; 1.93A {Homo sapiens}
Length = 78
Score = 71.0 bits (174), Expect = 1e-16
Identities = 28/64 (43%), Positives = 38/64 (59%)
Query: 154 GIDRNLPVEEIIGATIEVGFPAYLVTWEGSDEADLLPAEICKRKYPQPLIRFFEQHLVFP 213
G R L E IIGAT G +L+ W+ SDEADL+PA+ K PQ +I F+E+ L +
Sbjct: 5 GFARGLEPERIIGATDSSGELMFLMKWKNSDEADLVPAKEANVKCPQVVISFYEERLTWH 64
Query: 214 SENN 217
S +
Sbjct: 65 SYPS 68
>2fmm_A Chromobox protein homolog 1; ENT domain, chromo shadow domain, EMSY
protein, heterochroma protein 1, transcription; 1.80A
{Homo sapiens} SCOP: b.34.13.2 PDB: 1s4z_A
Length = 74
Score = 70.2 bits (172), Expect = 2e-16
Identities = 28/64 (43%), Positives = 38/64 (59%)
Query: 154 GIDRNLPVEEIIGATIEVGFPAYLVTWEGSDEADLLPAEICKRKYPQPLIRFFEQHLVFP 213
G R L E IIGAT G +L+ W+ SDEADL+PA+ K PQ +I F+E+ L +
Sbjct: 11 GFARGLEPERIIGATDSSGELMFLMKWKNSDEADLVPAKEANVKCPQVVISFYEERLTWH 70
Query: 214 SENN 217
S +
Sbjct: 71 SYPS 74
>3p7j_A Heterochromatin protein 1; chromo shadow domain, gene silenc
epigenetics, transcription; 2.30A {Drosophila
melanogaster}
Length = 87
Score = 69.9 bits (171), Expect = 4e-16
Identities = 23/67 (34%), Positives = 42/67 (62%)
Query: 154 GIDRNLPVEEIIGATIEVGFPAYLVTWEGSDEADLLPAEICKRKYPQPLIRFFEQHLVFP 213
G DR L E+I+GA+ G +L+ ++G D+A+++P+ + K P+ +I F+E+ L +
Sbjct: 21 GFDRGLEAEKILGASDNNGRLTFLIQFKGVDQAEMVPSSVANEKIPRMVIHFYEERLSWY 80
Query: 214 SENNASK 220
S+N K
Sbjct: 81 SDNEDKK 87
>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 = 45.8 bits (108), Expect = 5e-06
Identities = 39/185 (21%), Positives = 63/185 (34%), Gaps = 58/185 (31%)
Query: 25 FSVV-AEQKDLSQQSNENNQGLKSGDHENIHNVNTSKI----GIKTEENP-TLDGGNIKI 78
S+ Q+ + N+ N L +G I VN +K G P +L G N+ +
Sbjct: 339 LSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG-----PPQSLYGLNLTL 393
Query: 79 PKKRGRKRKYPLANLIQPTSNHTPDGTVVKKKRGRKRKYP------LPTVEPEEVAYKGS 132
RK K P + L Q + P +RK LP P +
Sbjct: 394 -----RKAKAP-SGLDQ---SRIP---------FSERK-LKFSNRFLPVASP----F--- 427
Query: 133 QHNNSVNDIVVKEKLLNDMNLGIDRNLPVEEIIGATIEVGFPAYLVTWEGSD---EADLL 189
H LL + I+++L + ++ P Y T++GSD + +
Sbjct: 428 -H----------SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYD-TFDGSDLRVLSGSI 475
Query: 190 PAEIC 194
I
Sbjct: 476 SERIV 480
>1e0b_A SWI6 protein; chromatin-binding, chromodomain, shadow,
heterochromatin; HET: 1PG; 1.9A {Schizosaccharomyces
pombe} SCOP: b.34.13.2
Length = 68
Score = 34.1 bits (78), Expect = 0.003
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 190 PAEICKRKYPQPLIRFFEQHLVF 212
P+ I +K PQ +++F+E HL F
Sbjct: 42 PSTITNKKCPQKMLQFYESHLTF 64
>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 = 36.4 bits (83), Expect = 0.006
Identities = 34/239 (14%), Positives = 55/239 (23%), Gaps = 84/239 (35%)
Query: 13 PFPKK-RGRKRKHFSVVAEQKDLSQQSNENN---QGLK-SG----------DHE------ 51
F K R + + + ++ L + N G+ SG ++
Sbjct: 125 VFAKYNVSRLQPYLKL---RQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD 181
Query: 52 -NIHNVNTSKIGIKTEENPTLDGGNIKIPKKRGRKRKYPLANL---IQPTSNHTPDGTVV 107
I +N + L+ L L I P D +
Sbjct: 182 FKIFWLN---LKNCNSPETVLE----------------MLQKLLYQIDPNWTSRSDHS-- 220
Query: 108 KKKRGRKRKYPLPTVEPEEVA---YKGSQHNNS--VNDIVVKEKLLNDMNLG-----IDR 157
L + K + N V V K N NL R
Sbjct: 221 -------SNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR 273
Query: 158 NLPVEEIIGATIEV---------GFP-----AYLVTWEGSDEADLLPAEICKRKYPQPL 202
V + + A + L+ + DL P E+ P
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL-PREVLTT---NPR 328
>2dnv_A Chromobox protein homolog 8; chromo domain, histone H3 tail,
choromatin organization modifier, structural genomics,
NPPSFA; NMR {Mus musculus} SCOP: b.34.13.2
Length = 64
Score = 27.0 bits (60), Expect = 1.0
Identities = 14/54 (25%), Positives = 20/54 (37%), Gaps = 9/54 (16%)
Query: 161 VEEIIGATIEVGFPAYLVTWEG--SDEADLLPAE--ICKRKYPQPLIRFFEQHL 210
E ++ I G YLV W+G + P E + R L+ FE
Sbjct: 13 AEALLKRRIRKGRMEYLVKWKGWSQKYSTWEPEENILDAR-----LLAAFESGP 61
>3mts_A Histone-lysine N-methyltransferase SUV39H1; histone
methyltransferase, histone-lysine N-methyltransferas
SUV39H1, histone H3, TRI-methylation; 2.20A {Homo
sapiens}
Length = 64
Score = 27.0 bits (60), Expect = 1.3
Identities = 12/65 (18%), Positives = 21/65 (32%), Gaps = 5/65 (7%)
Query: 161 VEEIIGATIEVGFPAYLVTWEG--SDEADLLPAEICKRKYPQPLIRFFEQHLVFPSENNA 218
VE + YLV W G E+ P + K +++ F + L
Sbjct: 3 VEYLCDYKKIREQEYYLVKWRGYPDSESTWEPRQNLKCVR---ILKQFHKDLERELLRRH 59
Query: 219 SKQSS 223
+ +
Sbjct: 60 HRSKT 64
>3h91_A Chromobox protein homolog 2; human chromobox homolog 2, CBX2,
structural genomics, structural genomics consortium,
SGC, chromatin regulator, D binding, nucleus; HET: M3L;
1.50A {Homo sapiens} PDB: 2k28_A 3i8z_A
Length = 54
Score = 26.5 bits (59), Expect = 1.3
Identities = 14/52 (26%), Positives = 20/52 (38%), Gaps = 9/52 (17%)
Query: 161 VEEIIGATIEVGFPAYLVTWEG--SDEADLLPAE--ICKRKYPQPLIRFFEQ 208
E I+ + G YLV W G S P E + R L+ F++
Sbjct: 6 AECILSKRLRKGKLEYLVKWRGWSSKHNSWEPEENILDPR-----LLLAFQK 52
>1pfb_A Polycomb protein; chromatin, histone methylation, polycomb,
chromodomain, peptide binding protein; HET: M3L; 1.40A
{Drosophila melanogaster} SCOP: b.34.13.2
Length = 55
Score = 26.1 bits (58), Expect = 1.8
Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 9/53 (16%)
Query: 161 VEEIIGATIEVGFPAYLVTWEGSDEAD--LLPAE--ICKRKYPQPLIRFFEQH 209
E+II ++ G Y V W+G ++ P + +R LI +EQ
Sbjct: 6 AEKIIQKRVKKGVVEYRVKWKGWNQRYNTWEPEVNILDRR-----LIDIYEQT 53
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 28.2 bits (62), Expect = 1.9
Identities = 14/64 (21%), Positives = 19/64 (29%), Gaps = 15/64 (23%)
Query: 172 GFPAYLVTWEGSDEADLLPAEICKRKYPQPLIRF---FE---------QHLVF---PSEN 216
G + S E + + PLIR E + LV P EN
Sbjct: 114 GSVGMAIQVNYSSEVKENSVDSDDKAKVPPLIRIVSGLELSDTKQKGKKFLVIAYEPFEN 173
Query: 217 NASK 220
A +
Sbjct: 174 IAIE 177
>3lwe_A M-phase phosphoprotein 8; MPP8, structural genomics, structural
genomics consortium, S repeat, nucleus, cell cycle;
2.05A {Homo sapiens} PDB: 3r93_A* 3svm_A* 3qo2_A*
Length = 62
Score = 26.1 bits (58), Expect = 2.2
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 161 VEEIIGATIEVGFPAYLVTWEGSDEAD 187
VE+I+ E G Y V W+G D
Sbjct: 7 VEKILDMKTEGGKVLYKVRWKGYTSDD 33
>3f2u_A Chromobox protein homolog 1; human chromobox homolog 1, CBX1,
structural genomics, struct genomics consortium, SGC,
centromere, nucleus; 1.80A {Homo sapiens} PDB: 3tzd_A*
2l11_A* 3dm1_A*
Length = 55
Score = 25.7 bits (57), Expect = 2.4
Identities = 8/27 (29%), Positives = 15/27 (55%)
Query: 161 VEEIIGATIEVGFPAYLVTWEGSDEAD 187
VE+++ + G YL+ W+G + D
Sbjct: 5 VEKVLDRRVVKGKVEYLLKWKGFSDED 31
>3i91_A Chromobox protein homolog 8; chromobox homolog 8, CBX8, structural
genomics structural genomics consortium, SGC, chromatin
regulator, N phosphoprotein, repressor; HET: M3L; 1.55A
{Homo sapiens} PDB: 3gv6_A* 3i90_A*
Length = 54
Score = 25.4 bits (56), Expect = 3.3
Identities = 14/52 (26%), Positives = 21/52 (40%), Gaps = 9/52 (17%)
Query: 161 VEEIIGATIEVGFPAYLVTWEGSDEAD--LLPAE--ICKRKYPQPLIRFFEQ 208
E ++ I G YLV W+G + P E + R L+ FE+
Sbjct: 6 AEALLKRRIRKGRMEYLVKWKGWSQKYSTWEPEENILDAR-----LLAAFEE 52
>2kvm_A Chromobox protein homolog 7; histone modification, lysine
methylation, chromobox, polycom chromatin-binding; HET:
MLY; NMR {Mus musculus}
Length = 74
Score = 25.9 bits (57), Expect = 3.7
Identities = 9/27 (33%), Positives = 11/27 (40%)
Query: 161 VEEIIGATIEVGFPAYLVTWEGSDEAD 187
VE I + G YLV W+G
Sbjct: 16 VESIRKKRVRKGKVEYLVKWKGWPPKY 42
>2d9u_A Chromobox protein homolog 2 (isoform 2); chromobox homolog 2,
chromo domain, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 74
Score = 25.9 bits (57), Expect = 3.8
Identities = 8/27 (29%), Positives = 10/27 (37%)
Query: 161 VEEIIGATIEVGFPAYLVTWEGSDEAD 187
E I+ + G YLV W G
Sbjct: 13 AECILSKRLRKGKLEYLVKWRGWSSKH 39
>1q3l_A Heterochromatin protein 1; chromodomain, HP1, chromatin,
methyllysine, monomethyllysine, structural protein; HET:
MLZ; 1.64A {Drosophila melanogaster} SCOP: b.34.13.2
PDB: 1kne_A* 1kna_A*
Length = 69
Score = 25.4 bits (56), Expect = 4.3
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 161 VEEIIGATIEVGFPAYLVTWEGSDEAD 187
VE+II + G Y + W+G E +
Sbjct: 19 VEKIIDRRVRKGMVEYYLKWKGYPETE 45
>1ap0_A Modifier protein 1; chromatin-binding, protein interaction motif,
alpha+beta; NMR {Mus musculus} SCOP: b.34.13.2 PDB:
1guw_A*
Length = 73
Score = 25.5 bits (56), Expect = 5.3
Identities = 8/27 (29%), Positives = 15/27 (55%)
Query: 161 VEEIIGATIEVGFPAYLVTWEGSDEAD 187
VE+++ + G YL+ W+G + D
Sbjct: 16 VEKVLDRRVVKGKVEYLLKWKGFSDED 42
>2x3h_A K5 lyase, K5A lyase; bacteriophage, glycosaminoglycan; 1.60A
{Enterobacteria phage k1-5}
Length = 542
Score = 27.1 bits (59), Expect = 6.2
Identities = 12/61 (19%), Positives = 24/61 (39%)
Query: 57 NTSKIGIKTEENPTLDGGNIKIPKKRGRKRKYPLANLIQPTSNHTPDGTVVKKKRGRKRK 116
N + + ++ G ++ + K +LI ++ PDG ++K RG
Sbjct: 149 NKATDTTQGQQVSLAGGSDVTVSDVNFSNVKGTGFSLIAYPNDAPPDGLMIKGIRGSYSG 208
Query: 117 Y 117
Y
Sbjct: 209 Y 209
>3fdt_A Chromobox protein homolog 5; chromobox homolog5, CBX5, structural
GENO structural genomics consortium, SGC, centromere,
nucleus, phosphoprotein; HET: M3L; 2.00A {Homo sapiens}
Length = 59
Score = 24.9 bits (55), Expect = 6.4
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 161 VEEIIGATIEVGFPAYLVTWEGSDEAD 187
VE+++ + G YL+ W+G E
Sbjct: 6 VEKVLDRRVVKGQVEYLLKWKGFSEEH 32
>2k1b_A Chromobox protein homolog 7; alpha/beta protein, chromatin
regulator, nucleus, repressor, transcription,
transcription regulation; NMR {Homo sapiens} PDB:
2l12_A* 2l1b_A*
Length = 73
Score = 24.7 bits (54), Expect = 8.0
Identities = 9/27 (33%), Positives = 11/27 (40%)
Query: 161 VEEIIGATIEVGFPAYLVTWEGSDEAD 187
VE I + G YLV W+G
Sbjct: 24 VESIRKKRVRKGKVEYLVKWKGWPPKY 50
>2c29_D Dihydroflavonol 4-reductase; flavonoids, short dehydrogenase
reductase, NADPH, dihydroquercetin, rossmann fold,
oxidoreductase; HET: NAP DQH; 1.81A {Vitis vinifera}
PDB: 2iod_A* 2nnl_D* 3bxx_A* 3c1t_A*
Length = 337
Score = 26.4 bits (59), Expect = 8.7
Identities = 10/55 (18%), Positives = 21/55 (38%), Gaps = 10/55 (18%)
Query: 116 KYPLPTVEPEEVAYKGSQHNNSVNDIVVKEKLLNDMNLGIDRNLPVEEIIGATIE 170
+Y +PT S +S +KL +LG + +E++ ++
Sbjct: 273 EYNIPTEFKGVDENLKSVCFSS-------KKL---TDLGFEFKYSLEDMFTGAVD 317
>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 = 25.7 bits (55), Expect = 9.3
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 2/28 (7%)
Query: 143 VKEKLLNDMNLGIDRNLPVEEIIGATIE 170
+K KL + L D + P I AT+E
Sbjct: 22 LK-KLQASLKLYADDSAPALAI-KATME 47
>1pdq_A Polycomb protein; methyllysine, chromodomain, polycomb, lysine
methylation, trimethyllysine, cation-PI, chromo,
structural protein; HET: M3L; 1.76A {Drosophila
melanogaster} SCOP: b.34.13.2
Length = 72
Score = 24.7 bits (54), Expect = 9.9
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 161 VEEIIGATIEVGFPAYLVTWEGSDEAD 187
E+II ++ G Y V W+G ++
Sbjct: 23 AEKIIQKRVKKGVVEYRVKWKGWNQRY 49
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
0.312 0.133 0.379
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,360,103
Number of extensions: 198174
Number of successful extensions: 269
Number of sequences better than 10.0: 1
Number of HSP's gapped: 269
Number of HSP's successfully gapped: 32
Length of query: 225
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 135
Effective length of database: 4,188,903
Effective search space: 565501905
Effective search space used: 565501905
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: 55 (25.5 bits)