RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9118
(293 letters)
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 44.8 bits (105), Expect = 7e-06
Identities = 14/78 (17%), Positives = 30/78 (38%), Gaps = 24/78 (30%)
Query: 222 PETIRKNYELMEAEKTKLLISIQHQKVVEKDAETERKRAVI--EAEKE---------AQI 270
PE+IRK E+ + + E DA ++ +A+K+ Q+
Sbjct: 84 PESIRK-----WREEQRKRLQ-------ELDAASKVMEQEWREKAKKDLEEWNQRQSEQV 131
Query: 271 AKIQYEQKVMEQE-SKQR 287
K + ++ ++ +Q
Sbjct: 132 EKNKINNRIADKAFYQQP 149
Score = 32.1 bits (72), Expect = 0.14
Identities = 12/48 (25%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 243 IQHQKVVEKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQESKQRVAK 290
I + ++ E+ RK E+ ++ ++ KVMEQE +++ K
Sbjct: 74 IAQADRLTQEPESIRKWR---EEQRKRLQELDAASKVMEQEWREKAKK 118
>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 = 1e-05
Identities = 31/200 (15%), Positives = 64/200 (32%), Gaps = 60/200 (30%)
Query: 62 LLVFNYS-FHKIEE-----------GH-VGVYFRGGALLSTISGPGFHAMIPFITTFRHV 108
L + + F ++ GH +G Y AL S ++ ++ + V
Sbjct: 1736 LTLMEKAAFEDLKSKGLIPADATFAGHSLGEY---AALAS-LAD-----VMSIESLVEVV 1786
Query: 109 QV--TLQTDEVKNVPCGTSGGVMIYFDRIEVVNVLSVSSVYDIVKNYTADYDKALIFNKV 166
V G S MI + V S ++ +V+ +V
Sbjct: 1787 FYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVE-------------RV 1833
Query: 167 HHELNQFCSI--HNL-HEVYI---DLFDQIDENLKTALQRELNEMAPGLFIQAVRVTKPK 220
I +N+ ++ Y+ DL L T + LN + +Q + + +
Sbjct: 1834 GKRTGWLVEIVNYNVENQQYVAAGDL-----RALDT-VTNVLNFIK----LQKIDII--E 1881
Query: 221 IPETIRKNYELMEAEKTKLL 240
+ +++ +E + L
Sbjct: 1882 LQKSLS-----LEEVEGHLF 1896
Score = 39.6 bits (92), Expect = 0.001
Identities = 21/121 (17%), Positives = 42/121 (34%), Gaps = 36/121 (29%)
Query: 185 DLFDQIDENLKTALQRELNEMAPGLFIQAVRVTKPKIP---------ETIRKNYELMEAE 235
D++++ D + K G I + + P + IR+NY M E
Sbjct: 1644 DVWNRADNHFKDTY---------GFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFE 1694
Query: 236 KTKLLISIQHQKVVEKDAETERKRAVI-EAEKE-------AQIA-----KIQYEQKVMEQ 282
T + ++ +K+ + E + +EK Q A K +E ++
Sbjct: 1695 -TIVDGKLKTEKIFK--EINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFE--DLKS 1749
Query: 283 E 283
+
Sbjct: 1750 K 1750
>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 = 7e-05
Identities = 53/353 (15%), Positives = 95/353 (26%), Gaps = 111/353 (31%)
Query: 2 FDRGTITAKVL-SSRNRREKEDRIGESQPFQERTLSVQDKIRSGRAMADSLLVGIVSLFS 60
F+ ++ K+L ++R ++ + + T D + SL
Sbjct: 262 FN---LSCKILLTTRFKQ-----VTDFLSAATTTHISLDHHSMTLTPDEVK-----SLLL 308
Query: 61 LLLVFNYSFHKI-EEGHVGVYFRGGALLSTISGPGFHAMIPFITTFRHVQV--------- 110
L + + E LS I + ++HV
Sbjct: 309 KYL--DCRPQDLPREVLTTNPR----RLSII-AESIRDGLATWDNWKHVNCDKLTTIIES 361
Query: 111 ---TLQTDEVK-------------NVPCGTSG---GVMIYFDRIEVVNVL---------- 141
L+ E + ++P +I D + VVN L
Sbjct: 362 SLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQP 421
Query: 142 --SVSSVYDIVKNY--TADYDKALIFNKVHHEL-------NQFCSIHNLHEVYID--LFD 188
S S+ I + + AL H + F S +L Y+D +
Sbjct: 422 KESTISIPSIYLELKVKLENEYAL-----HRSIVDHYNIPKTFDS-DDLIPPYLDQYFYS 475
Query: 189 QIDENLKTALQRELNEMAPGL-----FIQA-VRVTKPKIPET----------------IR 226
I +LK E + + F++ +R + I
Sbjct: 476 HIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYIC 535
Query: 227 KN---YELMEAEKTKLLISIQHQKVVEKDAE-------TERKRAVIEAEKEAQ 269
N YE + L I+ + K + E + EA K+ Q
Sbjct: 536 DNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQ 588
Score = 34.1 bits (77), Expect = 0.059
Identities = 51/326 (15%), Positives = 95/326 (29%), Gaps = 97/326 (29%)
Query: 7 ITAKVLSSRNRREKEDRIGESQPFQERTLSVQDKIRSGRAMADSLLVGIVSLF-SLLLVF 65
+ +LS E + I TL + + S + +V F +L
Sbjct: 41 MPKSILSKE---EIDHIIMSKDA-VSGTLRLFWTLLSKQE-------EMVQKFVEEVLRI 89
Query: 66 NYSFHKIEEGHVGVYFRGGALLSTIS----GPGFHAMIPFITTFRHVQVTLQTDEVKNVP 121
NY F L+S I P +I + Q NV
Sbjct: 90 NYKF----------------LMSPIKTEQRQPSMM-TRMYIEQRDRLYNDNQVFAKYNVS 132
Query: 122 CGTSGGVMIYFDRIEVVNVL-----SVSSVYDIV--------KNYTADYDKALIFNKVHH 168
R++ L + +++ K + A + KV
Sbjct: 133 ------------RLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVAL--DVCLSYKVQC 178
Query: 169 ELNQFCSIHNLHEVYIDL-FDQIDENLKTALQRELNEMAPGLFIQAVRVTKPKIPETIRK 227
+++ I +++L E + LQ+ L ++ P ++ I+
Sbjct: 179 KMD--FKIF-----WLNLKNCNSPETVLEMLQKLLYQIDPNW------TSRSDHSSNIKL 225
Query: 228 NYELMEAEKTKLLISIQHQKV------VEKDAE-------------TERKRAVIEAEKEA 268
++AE +LL S ++ V ++A+ T R + V + A
Sbjct: 226 RIHSIQAELRRLLKSKPYENCLLVLLNV-QNAKAWNAFNLSCKILLTTRFKQVTDFLSAA 284
Query: 269 QIAKIQYEQKVM---EQESKQRVAKI 291
I + M E K + K
Sbjct: 285 TTTHISLDHHSMTLTPDEVKSLLLKY 310
>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex,
cytoplasm, ribonucleoprotein, structural protein; 3.50A
{Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A
Length = 861
Score = 33.6 bits (76), Expect = 0.078
Identities = 16/70 (22%), Positives = 28/70 (40%), Gaps = 2/70 (2%)
Query: 223 ETIRKNYELMEAEKTKLLISIQHQKVVEKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQ 282
E + EL+E E + + E ++ E R IE E AK++ + +E
Sbjct: 698 EAEKARKELLELEAMSMAVESTGNAKAEAESRAEAAR--IEGEGSVLQAKLKAQALAIET 755
Query: 283 ESKQRVAKIE 292
E++ K
Sbjct: 756 EAELERVKKV 765
Score = 32.1 bits (72), Expect = 0.22
Identities = 17/68 (25%), Positives = 31/68 (45%), Gaps = 1/68 (1%)
Query: 226 RKNYELMEAEKTKLLISIQHQKV-VEKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQES 284
R +E E + L ++ Q + +E +AE ER + V E E A+++ E +Q +
Sbjct: 729 RAEAARIEGEGSVLQAKLKAQALAIETEAELERVKKVREMELIYARAQLELEVSKAQQLA 788
Query: 285 KQRVAKIE 292
K +
Sbjct: 789 NVEAKKFK 796
Score = 29.8 bits (66), Expect = 1.3
Identities = 9/70 (12%), Positives = 24/70 (34%)
Query: 223 ETIRKNYELMEAEKTKLLISIQHQKVVEKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQ 282
+++ E+ + + E ER++ + ++E E ++ + +
Sbjct: 656 RSVQLAIEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAMSMA 715
Query: 283 ESKQRVAKIE 292
AK E
Sbjct: 716 VESTGNAKAE 725
>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 = 31.1 bits (69), Expect = 0.21
Identities = 7/25 (28%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 189 QIDENLKTALQRELNEMAPGLFIQA 213
+ + L+ +L+ ++ AP L I+A
Sbjct: 21 AL-KKLQASLKLYADDSAPALAIKA 44
Score = 30.3 bits (67), Expect = 0.40
Identities = 8/31 (25%), Positives = 15/31 (48%), Gaps = 4/31 (12%)
Query: 265 EKEAQIAKIQYEQKVMEQESKQRV---AKIE 292
EK+ + K+Q K+ +S + A +E
Sbjct: 18 EKQ-ALKKLQASLKLYADDSAPALAIKATME 47
>1g03_A HTLV-I capsid protein; beta hairpin loop, helix core, viral
protein; NMR {Human t-lymphotropic virus 1} SCOP:
a.73.1.1
Length = 134
Score = 28.7 bits (63), Expect = 1.1
Identities = 16/62 (25%), Positives = 36/62 (58%), Gaps = 2/62 (3%)
Query: 197 ALQRELNEMAPG--LFIQAVRVTKPKIPETIRKNYELMEAEKTKLLISIQHQKVVEKDAE 254
A+++E+++ APG F+Q +R+ + T + +L++ + L+ S+ HQ++ +E
Sbjct: 22 AIKQEVSQAAPGSPQFMQTIRLAVQQFDPTAKDLQDLLQYLCSSLVASLHHQQLDSLISE 81
Query: 255 TE 256
E
Sbjct: 82 AE 83
>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 9.00A {Bos
taurus}
Length = 205
Score = 29.1 bits (64), Expect = 1.5
Identities = 20/107 (18%), Positives = 42/107 (39%), Gaps = 14/107 (13%)
Query: 185 DLFDQIDENLKTALQRELNEMAPGLFIQAVRVTKPKIPETIRKNYELMEAEKTKLLISIQ 244
+ + + + +E N A G A + PE+IRK E Q
Sbjct: 62 GASEDMGATVNGDVFQEANGPADGYAAIAQADRLTQEPESIRKWRE------------EQ 109
Query: 245 HQKVVEKDAETERKRAVI--EAEKEAQIAKIQYEQKVMEQESKQRVA 289
+++ E DA ++ +A+K+ + + ++V + + R+A
Sbjct: 110 RKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIA 156
>3bk6_A PH stomatin; archaea, trimer, coiled- coil, flotillin, SPFH,
membrane fusion, trafficking, transmembrane, membrane
protein; 3.20A {Pyrococcus horikoshii}
Length = 188
Score = 27.2 bits (61), Expect = 5.0
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 246 QKVVEKDAETER-KRA-VIEAEKEAQIAKIQYEQKVMEQES 284
QK + + AE ER +RA + AE E Q A+ E + E
Sbjct: 119 QKAMARQAEAERERRARITLAEAERQAAEKLREAAEIISEH 159
>1ffy_A Isoleucyl-tRNA synthetase; protein-RNA complex, metal IONS, editing
tRNA synthetase, double-sieve, ligase/RNA, mupiroci;
HET: MRC; 2.20A {Staphylococcus aureus} SCOP: a.27.1.1
b.51.1.1 c.26.1.1 PDB: 1qu2_A* 1qu3_A*
Length = 917
Score = 27.9 bits (63), Expect = 5.5
Identities = 8/38 (21%), Positives = 18/38 (47%), Gaps = 6/38 (15%)
Query: 148 DIVKNYTADYDKALIFNKVHHELNQFCSIHNLHEVYID 185
+ NY ++D + ++ E+ F ++ L Y+D
Sbjct: 691 STINNY-ENFD----YLNIYQEVQNFINV-ELSNFYLD 722
>1yke_B RNA polymerase II holoenzyme component SRB7; gene regulation; 3.30A
{Saccharomyces cerevisiae} SCOP: a.252.1.1
Length = 151
Score = 26.6 bits (58), Expect = 6.2
Identities = 19/112 (16%), Positives = 38/112 (33%), Gaps = 16/112 (14%)
Query: 196 TALQRELNEMAPGLFIQAVRV---------TKPKIPETIRKNYELMEAEKTKLLISIQHQ 246
T LQ L++M F + P+ K+ ++ E+ I
Sbjct: 6 TQLQICLDQMT-EQFCATLNYIDKNHGFERLTVNEPQMSDKHATVVPPEEFSNTIDELST 64
Query: 247 KVVEKDAETER------KRAVIEAEKEAQIAKIQYEQKVMEQESKQRVAKIE 292
++ K + + V E+ +I +Q + +E E + + K E
Sbjct: 65 DIILKTRQINKLIDSLPGVDVSAEEQLRKIDMLQKKLVEVEDEKIEAIKKKE 116
>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 361
Score = 27.1 bits (59), Expect = 7.1
Identities = 13/66 (19%), Positives = 30/66 (45%), Gaps = 5/66 (7%)
Query: 228 NYELMEAEKTKLLISIQHQKVVEKDAETERKRAVIEAEKEAQIAKIQYEQKVMEQESKQR 287
E +++ L +KV +D ++ I EKEA++ ++Q M+ + + +
Sbjct: 292 QDLHYENFRSERL-KRGGRKVENEDMNKDQ----ILLEKEAELRRMQEMIARMQAQMQMQ 346
Query: 288 VAKIEG 293
+ +G
Sbjct: 347 MQGGDG 352
>1iq8_A Archaeosine tRNA-guanine transglycosylase; (alpha/beta)8 barrel,
riken structural genomics/proteomics initiative, RSGI;
2.20A {Pyrococcus horikoshii} SCOP: b.122.1.1 c.1.20.1
d.17.6.1 PDB: 1it7_A* 1it8_A* 1j2b_A
Length = 582
Score = 27.3 bits (61), Expect = 7.4
Identities = 6/44 (13%), Positives = 13/44 (29%), Gaps = 13/44 (29%)
Query: 151 KNYTADYDKALIFNKVHHELN----QFCSIHNLHEVYIDLFDQI 190
YT + + ++HNL V + ++
Sbjct: 285 SKYTPQE--------LREMPKEERTRLLALHNLW-VIKEEIKRV 319
>3qwe_A GMIP, GEM-interacting protein; structural genomics consortium, SGC,
protein binding; 2.40A {Homo sapiens}
Length = 279
Score = 26.7 bits (58), Expect = 8.1
Identities = 7/43 (16%), Positives = 23/43 (53%)
Query: 251 KDAETERKRAVIEAEKEAQIAKIQYEQKVMEQESKQRVAKIEG 293
K+ + ++ + EA + + A++QY Q+ + ++ + + +
Sbjct: 118 KEQWMKEQKRMNEAVQALRRAQLQYVQRSEDLRARSQGSPEDS 160
>2zkr_u 60S ribosomal protein L24; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 157
Score = 26.2 bits (57), Expect = 9.6
Identities = 17/79 (21%), Positives = 28/79 (35%), Gaps = 14/79 (17%)
Query: 211 IQAVRVTKPKIPETIRKNYELMEAEKTKLLISIQHQKVVEKDAETERKRAVIEAEKEAQI 270
I A R KP++ + R+ + A K + K K +A +A + +I
Sbjct: 90 IMAKRNQKPEVRKAQREQA--IRAAKEA-----KKAKQASKKTAMAAAKAPTKAAPKQKI 142
Query: 271 AKIQYEQKVMEQESKQRVA 289
K + S RV
Sbjct: 143 VK-------PVKVSAPRVG 154
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
0.319 0.135 0.371
Gapped
Lambda K H
0.267 0.0546 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,312,386
Number of extensions: 262628
Number of successful extensions: 605
Number of sequences better than 10.0: 1
Number of HSP's gapped: 591
Number of HSP's successfully gapped: 48
Length of query: 293
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 200
Effective length of database: 4,105,140
Effective search space: 821028000
Effective search space used: 821028000
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: 57 (26.2 bits)