RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy863
(216 letters)
>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 = 43.5 bits (102), Expect = 3e-05
Identities = 36/194 (18%), Positives = 56/194 (28%), Gaps = 79/194 (40%)
Query: 4 WCILLIIVPIHVTSNTRDSIRLLATYFPGYAMICGFKLLGNFEANGAGYQLTFLTSDDIQ 63
+ IL I+ ++ L +F G G ++ N+ A + F T D +
Sbjct: 1659 FSILDIV---------INNPVNLTIHFGGEK---GKRIRENYSA------MIFETIVDGK 1700
Query: 64 VSA----------ITDLIQSHVPDASLHNTQSSQITYTLPTQDTSPFPALFAT------- 106
+ T L TQ TQ PAL
Sbjct: 1701 LKTEKIFKEINEHSTSYTFRS-EKGLLSATQF--------TQ-----PALTLMEKAAFED 1746
Query: 107 LEEKKSALGIS---------SIG----IACTTIEEVFLKVGDLASKEKIESVDAKSKRST 153
L+ K G+ S+G +A +V + + L +E V R
Sbjct: 1747 LKSK----GLIPADATFAGHSLGEYAALASLA--DV-MSIESL-----VEVV---FYRGM 1791
Query: 154 LEQ--VPNGESNKE 165
Q VP E +
Sbjct: 1792 TMQVAVPRDELGRS 1805
Score = 39.6 bits (92), Expect = 5e-04
Identities = 43/207 (20%), Positives = 66/207 (31%), Gaps = 68/207 (32%)
Query: 41 LLGNFEANGAGYQLTFLTSDDIQVSAITDLIQSHVPDASLHNTQSSQITYTL-------P 93
L FE +L +DI + L+Q + D +L T+ Y P
Sbjct: 87 CLTEFEN-------CYLEGNDIH-ALAAKLLQEN--DTTLVKTKELIKNYITARIMAKRP 136
Query: 94 TQDTSPFPALFATLEEKKSALGISSI----GIACTTIEEVFLK---------VGDLASKE 140
S ALF + E + + +I G EE L+ VGDL
Sbjct: 137 FDKKSN-SALFRAVGEGNA--QLVAIFGGQGNTDDYFEE--LRDLYQTYHVLVGDL---- 187
Query: 141 KIESVDAKSKRSTLEQVPNGESNKEPLLHQKVQGVLFLVFL----------LFATAMLLF 190
I+ TL ++ + E + QG+ L +L +
Sbjct: 188 -IKFS-----AETLSELIRTTLDAEKVFT---QGLNILEWLENPSNTPDKDYLLSI---- 234
Query: 191 TYSYSLI--VQGPESLGYYFVLNVVFG 215
S LI +Q L +Y V + G
Sbjct: 235 PISCPLIGVIQ----LAHYVVTAKLLG 257
Score = 31.6 bits (71), Expect = 0.24
Identities = 44/239 (18%), Positives = 69/239 (28%), Gaps = 91/239 (38%)
Query: 17 SNTRDSIRLLA-------TYFPGYAMICGFKLLGNFEANGAG---YQLTFLTSDDIQVSA 66
+ R +I +L +P ++ +L + N G L+ QV
Sbjct: 294 VSVRKAITVLFFIGVRCYEAYPNTSL--PPSILEDSLENNEGVPSPMLSISNLTQEQVQD 351
Query: 67 ITDLIQSHVPDA-----SLHNT----------QS-------------------SQITYT- 91
+ SH+P SL N QS S+I ++
Sbjct: 352 YVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSE 411
Query: 92 ---------LPTQDTSPF------PA---LFATLEEKKSALGISSIGIACTTIEEVF--- 130
LP SPF PA + L + + I I V+
Sbjct: 412 RKLKFSNRFLPV--ASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIP------VYDTF 463
Query: 131 ----LKVGDLASKEKI------ESVD---AKSKRST--LEQVPNGESNKEPLLHQKVQG 174
L+V + E+I V ++T L+ P G S L H+ G
Sbjct: 464 DGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDG 522
>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 = 36.1 bits (82), Expect = 0.003
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 3/30 (10%)
Query: 79 SLHNTQSSQITYTLPTQDTSPFPALFATLE 108
+L Q+S Y D++P A+ AT+E
Sbjct: 21 ALKKLQASLKLYA-D--DSAPALAIKATME 47
>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 = 31.4 bits (70), Expect = 0.27
Identities = 29/194 (14%), Positives = 54/194 (27%), Gaps = 75/194 (38%)
Query: 55 TFLTSDDIQVS-AITDLIQSHVP----DASLHNTQSSQI--------TYTLPTQ--DTSP 99
LT+ QV+ ++ +H+ +L + + LP + T+P
Sbjct: 268 ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP 327
Query: 100 FPALFATLEEKKSALGISSIGIAC----TTIEEVFLKVGDLASKEKIESVDAKSKRSTLE 155
+S I + T + + V IES +L
Sbjct: 328 --------------RRLSIIAESIRDGLATWDN-WKHVNCDKLTTIIES--------SLN 364
Query: 156 QVPNGESNKEPLLHQKVQGVLFLVFLLFA-----TAMLLFTY-----------------S 193
+ EP ++K +F +F +LL
Sbjct: 365 VL-------EPAEYRK----MFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK 413
Query: 194 YSLIVQGPESLGYY 207
YSL+ + P+
Sbjct: 414 YSLVEKQPKESTIS 427
>3lft_A Uncharacterized protein; ABC, ATPase, cassette, L-Trp, PSI, MCSG,
structural genomics center for structural genomics; HET:
MSE TRP; 1.35A {Streptococcus pneumoniae}
Length = 295
Score = 28.4 bits (63), Expect = 2.0
Identities = 17/115 (14%), Positives = 30/115 (26%), Gaps = 13/115 (11%)
Query: 33 YAMICGFKLLGNFEANGAGYQLTFLTSDDIQVSAITDLIQSHVPDASLHNTQSSQITYTL 92
A I + SD +LI++ P+ + L
Sbjct: 88 MAAITDPIGANLVKDLKKPGGNVTGVSDHNPAQQQVELIKALTPNV--------KTIGAL 139
Query: 93 PTQDTSPFPALFATLEEKKSALGISSIGIACTTIEEVFLKVGDLASKEKIESVDA 147
+ + G++ A + E+ V + SK VDA
Sbjct: 140 YSSSEDNSKTQVEEFKAYAEKAGLTVETFAVPSTNEIASTVTVMTSK-----VDA 189
>2vk2_A YTFQ, ABC transporter periplasmic-binding protein YTFQ; transport
protein, galactofuranose; HET: GZL; 1.20A {Escherichia
coli}
Length = 306
Score = 27.7 bits (62), Expect = 2.6
Identities = 9/36 (25%), Positives = 12/36 (33%), Gaps = 4/36 (11%)
Query: 46 EANGAGYQLTFLTSDD---IQVSAITDLIQSHVPDA 78
EA G L Q+ A+ + V DA
Sbjct: 27 EAEKRGITLKIADGQQKQENQIKAVRSFVAQGV-DA 61
>8abp_A L-arabinose-binding protein; binding proteins; HET: GLA GAL;
1.49A {Escherichia coli} SCOP: c.93.1.1 PDB: 7abp_A*
6abp_A* 1abe_A* 1abf_A* 5abp_A* 1bap_A* 1apb_A* 9abp_A*
2wrz_A
Length = 306
Score = 27.0 bits (60), Expect = 5.1
Identities = 6/32 (18%), Positives = 12/32 (37%), Gaps = 2/32 (6%)
Query: 46 EANGAGYQLTFLTSDDI--QVSAITDLIQSHV 75
G+++ + D ++AI L S
Sbjct: 27 AGKDLGFEVIKIAVPDGEKTLNAIDSLAASGA 58
>2dri_A D-ribose-binding protein; sugar transport; HET: RIP; 1.60A
{Escherichia coli} SCOP: c.93.1.1 PDB: 1urp_A* 1ba2_A
1dbp_A* 1drj_A* 1drk_A* 2gx6_A*
Length = 271
Score = 26.8 bits (60), Expect = 5.9
Identities = 9/36 (25%), Positives = 15/36 (41%), Gaps = 4/36 (11%)
Query: 46 EANGAGYQLTFLTSDD---IQVSAITDLIQSHVPDA 78
EA+ GY L L S + +++ + DL
Sbjct: 26 EADKLGYNLVVLDSQNNPAKELANVQDLTVRGT-KI 60
>1mw9_X DNA topoisomerase I; decatenase enzyme, toprim domain; HET: DNA;
1.67A {Escherichia coli} SCOP: e.10.1.1 PDB: 1mw8_X*
1cy1_A* 1cy0_A* 1cy2_A* 1cy4_A* 1cy6_A* 1cy7_A* 1cy8_A*
3pwt_A* 3px7_A* 1ecl_A 1cy9_A* 1cyy_A*
Length = 592
Score = 26.8 bits (60), Expect = 5.9
Identities = 10/79 (12%), Positives = 17/79 (21%), Gaps = 19/79 (24%)
Query: 88 ITYTLPTQDTSPFPALFATLEEKKSALGISSIGIACTTIEEVFLKVGDLASKE-KIESVD 146
+ + T +K E+ V L + +
Sbjct: 222 VDASTTTPSGEALALQVTHQNDKPFRP---------VNKEQTQAAVSLLEKARYSVLERE 272
Query: 147 AKSKR---------STLEQ 156
K STL+Q
Sbjct: 273 DKPTTSKPGAPFITSTLQQ 291
>3l6u_A ABC-type sugar transport system periplasmic component; structural
genomics, nysgrc, target 11006S, PSI-2, protein
structure initiative; 1.90A {Exiguobacterium sibiricum}
Length = 293
Score = 26.5 bits (59), Expect = 6.6
Identities = 9/36 (25%), Positives = 14/36 (38%), Gaps = 4/36 (11%)
Query: 46 EANGAGYQLTFLTSDD---IQVSAITDLIQSHVPDA 78
EA Y+ TS + + I + + V DA
Sbjct: 33 EAKANKYEALVATSQNSRISEREQILEFVHLKV-DA 67
>2ioy_A Periplasmic sugar-binding protein; ribose binding protein,
thermophilic proteins; HET: RIP; 1.90A
{Thermoanaerobacter tengcongensis}
Length = 283
Score = 26.1 bits (58), Expect = 9.8
Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 4/36 (11%)
Query: 46 EANGAGYQLTFLTSDD---IQVSAITDLIQSHVPDA 78
+A GY++ S + ++S + DLIQ V D
Sbjct: 26 KAKELGYKIIVEDSQNDSSKELSNVEDLIQQKV-DV 60
>2fn9_A Ribose ABC transporter, periplasmic ribose-bindin; RBP, ribose
binding protein, periplasmic binding protein,
thermophilic proteins; 1.40A {Thermotoga maritima} PDB:
2fn8_A*
Length = 290
Score = 26.2 bits (58), Expect = 9.9
Identities = 8/36 (22%), Positives = 14/36 (38%), Gaps = 4/36 (11%)
Query: 46 EANGAGYQLTFLTSDD---IQVSAITDLIQSHVPDA 78
A GY+ T S + + + +I + DA
Sbjct: 27 RAEQLGYEATIFDSQNDTAKESAHFDAIIAAGY-DA 61
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
0.321 0.136 0.389
Gapped
Lambda K H
0.267 0.0662 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,956,397
Number of extensions: 156160
Number of successful extensions: 229
Number of sequences better than 10.0: 1
Number of HSP's gapped: 227
Number of HSP's successfully gapped: 17
Length of query: 216
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 126
Effective length of database: 4,188,903
Effective search space: 527801778
Effective search space used: 527801778
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 (21.9 bits)
S2: 55 (25.1 bits)