RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy71
(218 letters)
>2d2s_A Exocyst complex component EXO84; tethering complex, EXO84P,
endocytosis/exocytosis complex; 2.85A {Saccharomyces
cerevisiae} SCOP: a.118.17.2
Length = 235
Score = 77.0 bits (189), Expect = 2e-17
Identities = 18/109 (16%), Positives = 43/109 (39%), Gaps = 3/109 (2%)
Query: 51 EVRRDGPALSYVTSASTVFFTNLSLMITELQKVAFPSTGECAAAFVVWATREFNLFVSHV 110
++ +Y+T + + F + + + Q + + ++ V W + E + +
Sbjct: 128 QIGSVDNPTNYLTQLAVIRFQTIKKTVEDFQDIFKELGAKISSILVDWCSDEVDNHFKLI 187
Query: 111 IRELFVTQSSLSTLSPCIAAVSAKCDQLTSLGLDLRYLLDGALRSPLTK 159
++L + I + + D L ++GLD Y LD ++ K
Sbjct: 188 DKQLL---NDEMLSPGSIKSSRKQIDGLKAVGLDFVYKLDEFIKKNSDK 233
>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 = 56.8 bits (136), Expect = 1e-10
Identities = 29/44 (65%), Positives = 34/44 (77%), Gaps = 1/44 (2%)
Query: 1 VLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIK-ATIAGG 43
+LELAGNA++D K RI PRHLQLAIR DEEL+ L+ TIA G
Sbjct: 82 ILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQG 125
>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 = 57.1 bits (136), Expect = 2e-10
Identities = 39/43 (90%), Positives = 42/43 (97%)
Query: 1 VLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIKATIAGG 43
VLELAGNA+KDLKVKRITPRHLQLAIRGD+ELDSLI+ATIA G
Sbjct: 144 VLELAGNAAKDLKVKRITPRHLQLAIRGDDELDSLIRATIASG 186
>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 = 52.9 bits (126), Expect = 2e-09
Identities = 29/44 (65%), Positives = 34/44 (77%), Gaps = 1/44 (2%)
Query: 1 VLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIK-ATIAGG 43
+LELAGNA++D K RI PRHLQLAIR DEEL+ L+ TIA G
Sbjct: 63 ILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQG 106
>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 = 51.5 bits (122), Expect = 6e-09
Identities = 43/43 (100%), Positives = 43/43 (100%)
Query: 1 VLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIKATIAGG 43
VLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIKATIAGG
Sbjct: 66 VLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIKATIAGG 108
>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 = 49.9 bits (118), Expect = 2e-08
Identities = 25/44 (56%), Positives = 33/44 (75%), Gaps = 1/44 (2%)
Query: 1 VLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIKA-TIAGG 43
+LELA NA++D K R+TPRH+ LA+ DEEL+ L+K TIA G
Sbjct: 60 ILELAVNAARDNKKGRVTPRHILLAVANDEELNQLLKGVTIASG 103
>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 = 49.2 bits (116), Expect = 5e-08
Identities = 28/45 (62%), Positives = 34/45 (75%), Gaps = 1/45 (2%)
Query: 1 VLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI-KATIAGGA 44
+LELAGNA++D K RI PRHLQLAIR D+EL+ L+ TIA G
Sbjct: 63 ILELAGNAARDNKKTRIIPRHLQLAIRNDDELNKLLGNVTIAQGG 107
>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C*
Length = 123
Score = 47.6 bits (112), Expect = 2e-07
Identities = 30/45 (66%), Positives = 34/45 (75%), Gaps = 1/45 (2%)
Query: 1 VLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIKA-TIAGGA 44
VLELAGNA++D K RI PRHLQLAIR DEEL+ L+ TIA G
Sbjct: 61 VLELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGG 105
>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 = 37.3 bits (86), Expect = 0.003
Identities = 31/175 (17%), Positives = 58/175 (33%), Gaps = 66/175 (37%)
Query: 4 LAGN-----ASKDLKVKRITPRHLQLAIR------------GDEELDS-LIKATIAGGAR 45
L GN A+K L+ T + I+ D++ +S L +A G A+
Sbjct: 96 LEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQ 155
Query: 46 ----FGLYPEVRRDGPALSYVTSASTVFFTNLSLMITELQKVAFPSTGECAAAFVVWATR 101
FG G Y EL+ + + T
Sbjct: 156 LVAIFG------GQGNTDDYFE---------------ELRDL--------------YQT- 179
Query: 102 EFNLFVSHVIRELFVTQSSLSTLSPCIAAVSAKCDQLTSLGLDLRYLLDGALRSP 156
+++ V +I + S TLS + + +++ + GL++ L+ +P
Sbjct: 180 -YHVLVGDLI------KFSAETLSE-LIRTTLDAEKVFTQGLNILEWLENPSNTP 226
Score = 34.6 bits (79), Expect = 0.024
Identities = 32/194 (16%), Positives = 65/194 (33%), Gaps = 41/194 (21%)
Query: 6 GNASKDLKVKRITPRHLQLAIR-------GDEELD-SLIKAT----IAGGAR--FGLYPE 51
G S L + +T +Q + ++++ SL+ ++G + +GL
Sbjct: 333 GVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLT 392
Query: 52 VRRDGPALSYVTSASTVF------FTNLSLMITE------LQKVAFPSTGECAAAFVVWA 99
+R+ A S + + F F+N L + L + + V +
Sbjct: 393 LRK-AKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFN 451
Query: 100 TREFNLFVSHV-----IRELFVTQSSLSTLSPCIAAVSAKCDQLTSLGLDLRYLLD---G 151
++ + V +R L + S + CI + T+ ++LD G
Sbjct: 452 AKDIQIPVYDTFDGSDLRVL--SGSISERIVDCI--IRLPVKWETTTQFKATHILDFGPG 507
Query: 152 ALR--SPLTKTLKE 163
LT K+
Sbjct: 508 GASGLGVLTHRNKD 521
Score = 30.4 bits (68), Expect = 0.46
Identities = 7/29 (24%), Positives = 15/29 (51%)
Query: 2 LELAGNASKDLKVKRITPRHLQLAIRGDE 30
L+ N +K+++I LQ ++ +E
Sbjct: 1862 LDTVTNVLNFIKLQKIDIIELQKSLSLEE 1890
>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 = 34.5 bits (79), Expect = 0.005
Identities = 7/31 (22%), Positives = 15/31 (48%)
Query: 1 VLELAGNASKDLKVKRITPRHLQLAIRGDEE 31
+L+ A ++ K +T HL+ I + +
Sbjct: 49 LLKKACQVTQSRNAKTMTTSHLKQCIELEGD 79
>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 = 33.3 bits (75), Expect = 0.063
Identities = 38/225 (16%), Positives = 71/225 (31%), Gaps = 47/225 (20%)
Query: 4 LAGNASKDLKVKRITPRHLQ-LAIRGDEELDSLIKATIAGGARFGLYPEVRRDGPALSYV 62
+A + KV+ + L ++ +++++ L ++ + + S
Sbjct: 166 VALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK------LLYQIDPNWTSRSDH 219
Query: 63 TSASTVFFTNLSLMITELQ---KVAFPSTGECAAAFV---VWATREFNLFVSHVIRELFV 116
+S N+ L I +Q + S V V + +N F + L
Sbjct: 220 SS-------NIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC-KILLT 271
Query: 117 TQSS-----LSTLSPCIAAVSAKCDQLT---SLGLDLRYL--LDGALR------SPLTKT 160
T+ LS + ++ LT L L+YL L +P +
Sbjct: 272 TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS 331
Query: 161 L--KETRDKLSDTIKLRCAEDRWKPYNLNNRQQ-RDKFLTEFTDA 202
+ + RD L T D WK N + + L A
Sbjct: 332 IIAESIRDGL-ATW------DNWKHVNCDKLTTIIESSLNVLEPA 369
Score = 29.4 bits (65), Expect = 1.2
Identities = 35/226 (15%), Positives = 64/226 (28%), Gaps = 57/226 (25%)
Query: 10 KDLKVKRITPRH-LQLAIRGDEELDSLIKATIAGGARFG---LYPEVRRDGPALSYVTSA 65
V R+ P L+ A+ EL I G G + +V
Sbjct: 127 AKYNVSRLQPYLKLRQALL---ELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQC--KMD 181
Query: 66 STVFFTNLS------LMITELQKVAFPSTGE-CAAAFVVWATREFNLFVSHVIRELFVTQ 118
+F+ NL ++ LQK+ + + + + + +R L ++
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 119 S---SLSTL-----SPCIAAVSAKCDQLTSLGLDLRYLLDGALRSPLTKTLKETRDK-LS 169
L L + A + C K L TR K ++
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLSC-----------------------KILLTTRFKQVT 278
Query: 170 DTIKLRCAEDRWKPYNLNNRQQRDKFLTEFTDAGLTSMSSYLTGKF 215
D + +L++ LT D + + YL +
Sbjct: 279 DFLS----AATTTHISLDHHS---MTLTP--DEVKSLLLKYLDCRP 315
Score = 29.1 bits (64), Expect = 1.5
Identities = 13/69 (18%), Positives = 29/69 (42%), Gaps = 8/69 (11%)
Query: 134 KCDQLTSLGLDLRYLLDGALRSPLTKTLKETRDKLSDTIK-LRCAEDRWKPYNLNNRQQR 192
+ + LD R+ L+ +R T + +T++ L+ +KPY +N +
Sbjct: 489 RMTLFRMVFLDFRF-LEQKIRH--DSTAWNASGSILNTLQQLK----FYKPYICDNDPKY 541
Query: 193 DKFLTEFTD 201
++ + D
Sbjct: 542 ERLVNAILD 550
>3gas_A Heme oxygenase; FMN-binding split barrel, oxidoreductase; HET: HEM;
1.80A {Helicobacter pylori}
Length = 259
Score = 31.2 bits (70), Expect = 0.18
Identities = 12/80 (15%), Positives = 25/80 (31%), Gaps = 1/80 (1%)
Query: 129 AAVSAKCDQLTSLGLDLRYLLDGALRSPLTKTLKETRDKLSDTIKLRCAEDRWKPYNLNN 188
A + + S G+ + Y + LR +K+ +D + C
Sbjct: 29 HAENVAFKSVDSQGIVIGYNNNQTLRIEFNHEVKDPKD-YKNATIELCQSVEKTHDLKGV 87
Query: 189 RQQRDKFLTEFTDAGLTSMS 208
++ F F L ++
Sbjct: 88 EEEVKAFKEGFDSVCLATLH 107
>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 = 28.8 bits (63), Expect = 0.84
Identities = 8/29 (27%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 13 KVKRITPRHLQLAIRGDEELDSL-IKATI 40
+K++ L + D+ +L IKAT+
Sbjct: 21 ALKKLQAS---LKLYADDSAPALAIKATM 46
Score = 27.6 bits (60), Expect = 2.4
Identities = 7/26 (26%), Positives = 13/26 (50%), Gaps = 6/26 (23%)
Query: 111 IRELFVTQSSLSTLSPCIA---AVSA 133
+++L Q+SL + A A+ A
Sbjct: 22 LKKL---QASLKLYADDSAPALAIKA 44
Score = 26.5 bits (57), Expect = 5.2
Identities = 8/22 (36%), Positives = 12/22 (54%), Gaps = 2/22 (9%)
Query: 162 KETRDKLSDTIKLRCAEDRWKP 183
K+ KL ++KL A+D P
Sbjct: 19 KQALKKLQASLKLY-ADDS-AP 38
>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 = 28.8 bits (65), Expect = 0.88
Identities = 7/31 (22%), Positives = 16/31 (51%)
Query: 1 VLELAGNASKDLKVKRITPRHLQLAIRGDEE 31
V+EL+ + ++ L + H+ L + + E
Sbjct: 87 VIELSMDEARKLGHSYVGTEHILLGLIREGE 117
>3fh2_A Probable ATP-dependent protease (heat shock prote; struct genomics,
PSI2, MCSG, protein structure initiative; 1.60A
{Corynebacterium glutamicum}
Length = 146
Score = 28.5 bits (64), Expect = 1.1
Identities = 9/31 (29%), Positives = 13/31 (41%)
Query: 1 VLELAGNASKDLKVKRITPRHLQLAIRGDEE 31
VLEL+ + K I L L + + E
Sbjct: 89 VLELSLREGLQMGHKYIGTEFLLLGLIREGE 119
>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 = 28.3 bits (64), Expect = 2.1
Identities = 7/31 (22%), Positives = 16/31 (51%)
Query: 1 VLELAGNASKDLKVKRITPRHLQLAIRGDEE 31
V+EL+ + ++ L + H+ L + + E
Sbjct: 87 VIELSMDEARKLGHSYVGTEHILLGLIREGE 117
>1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo
sapiens} SCOP: a.22.1.3
Length = 97
Score = 26.8 bits (59), Expect = 2.4
Identities = 8/36 (22%), Positives = 17/36 (47%)
Query: 1 VLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI 36
+ A ++D K + + + +AI ++ D LI
Sbjct: 57 LTLRAWIHTEDNKRRTLQRNDIAMAITKFDQFDFLI 92
>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 = 27.9 bits (63), Expect = 2.7
Identities = 7/31 (22%), Positives = 16/31 (51%)
Query: 1 VLELAGNASKDLKVKRITPRHLQLAIRGDEE 31
V+EL+ + ++ L + H+ L + + E
Sbjct: 87 VIELSMDEARKLGHSYVGTEHILLGLIREGE 117
>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 = 26.4 bits (59), Expect = 4.4
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 1 VLELAGNASKDLKVKRITPRHLQLAIRGDEE 31
+LEL+G + LK I H+ LAI + E
Sbjct: 89 ILELSGMFANKLKTNYIGTEHILLAIIQEGE 119
>2rbb_A Glyoxalase/bleomycin resistance protein/dioxygena; structural
genomics, PSI-2, PROT structure initiative; 1.82A
{Burkholderia phytofirmans}
Length = 141
Score = 26.0 bits (57), Expect = 6.4
Identities = 9/53 (16%), Positives = 14/53 (26%)
Query: 10 KDLKVKRITPRHLQLAIRGDEELDSLIKATIAGGARFGLYPEVRRDGPALSYV 62
L + E +D L+ IA GA P + +
Sbjct: 67 AQFSETSGIKFLLNFDVDTKEAVDKLVPVAIAAGATLIKAPYETYYHWYQAVL 119
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
0.320 0.134 0.384
Gapped
Lambda K H
0.267 0.0792 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,126,625
Number of extensions: 174142
Number of successful extensions: 363
Number of sequences better than 10.0: 1
Number of HSP's gapped: 361
Number of HSP's successfully gapped: 28
Length of query: 218
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 128
Effective length of database: 4,188,903
Effective search space: 536179584
Effective search space used: 536179584
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (24.8 bits)