RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1968
(215 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 = 40.8 bits (95), Expect = 2e-04
Identities = 34/173 (19%), Positives = 56/173 (32%), Gaps = 47/173 (27%)
Query: 59 LNAYRTTLGRLGLVWTPPGGLSPK----SVC-------AVPAASDYPETYLRNTDKE-KL 106
L Y T LG PG L + A +D E++ + K +
Sbjct: 246 LAHYVVTAKLLGF---TPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV 302
Query: 107 LIWYCENFRRQYSSRYPLR--RPLVM--ALENECGVQK-MVCTSINVTRFPLVEFKSWSG 161
L + R YP P ++ +LEN GV M+ +++ +
Sbjct: 303 LFFI--GVRCY--EAYPNTSLPPSILEDSLENNEGVPSPML----SISNLTQEQ------ 348
Query: 162 CASFVSDHIVYEPLDHPTNLPVRLRSPSTVFNGQ-----SGHCFELSTLLVSL 209
V D++ P V + ++ NG SG L L ++L
Sbjct: 349 ----VQDYVNKTNSHLPAGKQVEI----SLVNGAKNLVVSGPPQSLYGLNLTL 393
Score = 32.7 bits (74), Expect = 0.098
Identities = 23/128 (17%), Positives = 36/128 (28%), Gaps = 39/128 (30%)
Query: 105 KLLIWYCENFRRQYSSRYPLRRPLVMALENECGVQKMVCTSINVTRFPLVEFKSWSGCAS 164
L + F Y L N+ + + + LV+ K
Sbjct: 85 NLCLTE---FENCY-----LE-------GND--IHALAAKLLQENDTTLVKTKELIKNY- 126
Query: 165 FVSDHIVYEPLDHPTN--LPVRLRSPS-------TVFNGQ--SGHCF-ELSTL------L 206
+ + P D +N L R+ +F GQ + F EL L L
Sbjct: 127 ITARIMAKRPFDKKSNSAL---FRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVL 183
Query: 207 VSLLLVRV 214
V L+
Sbjct: 184 VGDLIKFS 191
>3kd4_A Putative protease; structural genomics, joint center for STR
genomics, JCSG, protein structure initiative, PSI-2,
hydrol; HET: MSE; 2.00A {Parabacteroides distasonis atcc
8503}
Length = 506
Score = 36.8 bits (84), Expect = 0.004
Identities = 9/46 (19%), Positives = 18/46 (39%), Gaps = 1/46 (2%)
Query: 165 FVSDHIVYEPLDHPTNLPVRLRSPSTVFNGQSGHCFELSTLLVSLL 210
+ +++ P+ +R TV G E++ LL +L
Sbjct: 254 HILNNLSTCPIPMAMT-GYTVRDIDTVLRSAYGTPLEIAQLLNVML 298
>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 = 34.1 bits (77), Expect = 0.036
Identities = 22/137 (16%), Positives = 43/137 (31%), Gaps = 33/137 (24%)
Query: 18 LMDSFHLDDSD--LDSDDENDRRPPI---VQPIVPIKYETLDRDKVLNAYRTTLGRL--- 69
LM + + + ++R + Q KY + R + R L L
Sbjct: 94 LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA--KY-NVSRLQPYLKLRQALLELRPA 150
Query: 70 -GLVWTPPGGLSPKSVCAVPAASDYP-------ETY---LRNTDKEKLLIWYCENFRRQ- 117
++ G S K+ A+ Y + + L+N + + ++ + Q
Sbjct: 151 KNVLIDGVLG-SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI 209
Query: 118 ---------YSSRYPLR 125
+SS LR
Sbjct: 210 DPNWTSRSDHSSNIKLR 226
>1rm1_C Transcription initiation factor IIA large chain; yeast TFIIA, TBP
protein, ATA-box DNA, transcription/DNA complex; 2.50A
{Saccharomyces cerevisiae}
Length = 286
Score = 28.7 bits (62), Expect = 1.3
Identities = 10/43 (23%), Positives = 18/43 (41%), Gaps = 2/43 (4%)
Query: 24 LDDSDLDSDDENDRRPPIVQPIVPIKYETLDRDKVLNAYRTTL 66
LDDSD D + ++ Y+ + R K ++ +L
Sbjct: 222 LDDSDDDYLISEGEEDGPDENLMLCLYDKVTRTK--ARWKCSL 262
>2qk4_A Trifunctional purine biosynthetic protein adenosi; purine
synthesis, enzyme, protein-ATP complex, structural GE
structural genomics consortium, SGC; HET: ATP; 2.45A
{Homo sapiens}
Length = 452
Score = 28.6 bits (65), Expect = 1.6
Identities = 13/58 (22%), Positives = 19/58 (32%), Gaps = 11/58 (18%)
Query: 43 QPIVPIKYETLDRDKV---LNAYRTTLGRLGLVWTPPGGLSPKSVCAVPAASDYPETY 97
Q I+P+ L D + L VW ++ V A+ YP Y
Sbjct: 321 QVILPL----LKSDLYEVIQSTLDGLLCTSLPVWLENH----TALTVVMASKGYPGDY 370
>1nh2_C Transcription initiation factor IIA large chain;
transcription/DNA; HET: 5IU; 1.90A {Saccharomyces
cerevisiae} SCOP: b.56.1.1 PDB: 1ytf_C*
Length = 79
Score = 26.1 bits (57), Expect = 2.7
Identities = 10/43 (23%), Positives = 18/43 (41%), Gaps = 2/43 (4%)
Query: 24 LDDSDLDSDDENDRRPPIVQPIVPIKYETLDRDKVLNAYRTTL 66
LDDSD D + ++ Y+ + R K ++ +L
Sbjct: 15 LDDSDDDYLISEGEEDGPDENLMLCLYDKVTRTK--ARWKCSL 55
>1j5w_A Glycyl-tRNA synthetase alpha chain; structural genomics, TM0216,
JCSG, PSI, protein structure initiative; 1.95A
{Thermotoga maritima} SCOP: d.104.1.1
Length = 298
Score = 27.1 bits (60), Expect = 5.2
Identities = 10/36 (27%), Positives = 16/36 (44%)
Query: 87 VPAASDYPETYLRNTDKEKLLIWYCENFRRQYSSRY 122
V A + +P T+ + K + Y + RR RY
Sbjct: 41 VGAGTFHPATFFGSLRKGPWKVAYVQPSRRPTDGRY 76
>1vkz_A Phosphoribosylamine--glycine ligase; TM1250, structural GENO JCSG,
protein structure initiative, PSI, joint center for S
genomics; 2.30A {Thermotoga maritima} SCOP: b.84.2.1
c.30.1.1 d.142.1.2
Length = 412
Score = 27.1 bits (61), Expect = 5.6
Identities = 12/55 (21%), Positives = 18/55 (32%), Gaps = 8/55 (14%)
Query: 43 QPIVPIKYETLDRDKVLNAYRTTLGRLGLVWTPPGGLSPKSVCAVPAASDYPETY 97
+ IV + VL G++ V +V V AA YP+
Sbjct: 296 EVIVT-LNPEGFVNAVLEG--YRGGKMEPVEPRG-----FAVDVVLAARGYPDAP 342
>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system
kinase, STRU genomics, joint center for structural
genomics, JCSG; 1.95A {Silicibacter SP}
Length = 208
Score = 26.2 bits (58), Expect = 6.5
Identities = 11/38 (28%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 2 DKLASHLLGKVPSSGNL-MDSFHLDDSDLDSDDENDRR 38
+ LA+ L + + + MD FHLD+ L+ R+
Sbjct: 40 NPLAAALSAQGLPAEVVPMDGFHLDNRLLEPRGLLPRK 77
>1qfg_A FHUA, protein (ferric hydroxamate uptake receptor); TONB-dependent
receptor, integral outer membrane protein,
ferrichrome-iron receptor; HET: PA1 GCN KDO GMH GLC GLA
FTT DAO MYR DDQ; 2.50A {Escherichia coli} SCOP: f.4.3.3
PDB: 1qff_A* 1qjq_A* 1qkc_A* 2grx_A* 1fi1_A* 2fcp_A*
1by5_A* 1by3_A* 1fcp_A*
Length = 725
Score = 26.9 bits (60), Expect = 6.6
Identities = 4/17 (23%), Positives = 8/17 (47%)
Query: 65 TLGRLGLVWTPPGGLSP 81
R G+ + G++P
Sbjct: 487 FTWRGGVNYLFDNGVTP 503
>3qlb_A FETA, enantio-pyochelin receptor; membrane protein, transport,
ferri-enantiopyochelin, outer M metal transport; HET:
CIT EFE; 3.26A {Pseudomonas fluorescens}
Length = 748
Score = 26.5 bits (59), Expect = 7.2
Identities = 7/17 (41%), Positives = 9/17 (52%)
Query: 65 TLGRLGLVWTPPGGLSP 81
R GLV+ GL+P
Sbjct: 507 FTYRTGLVYLADNGLAP 523
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 0.137 0.424
Gapped
Lambda K H
0.267 0.0709 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,225,529
Number of extensions: 179727
Number of successful extensions: 427
Number of sequences better than 10.0: 1
Number of HSP's gapped: 427
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 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.0 bits)