RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14433
(144 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 = 38.5 bits (89), Expect = 4e-04
Identities = 32/155 (20%), Positives = 49/155 (31%), Gaps = 57/155 (36%)
Query: 2 DYF---RDLGNSFSPKSPPNSPNTELSTEDDHLKGVYINFANK--DELVAN-------FD 49
DYF RDL ++ L G I F+ + EL+ F
Sbjct: 168 DYFEELRDLYQTYHV-----------------LVGDLIKFSAETLSELIRTTLDAEKVFT 210
Query: 50 KSTDWIWDWSSRPDQAPPKDWKFRHPKSKSYSM---------RYAKVGKNSLFSKEVMYT 100
+ + I +W P P KD+ P S Y K F+
Sbjct: 211 QGLN-ILEWLENPSNTPDKDYLLSIP----ISCPLIGVIQLAHYVVTAKLLGFTPG---- 261
Query: 101 LFVTNIISILLG-TGVGMWLSRRGMLIASNVAKSK 134
+ S L G TG +G++ A +A++
Sbjct: 262 ----ELRSYLKGATGHS-----QGLVTAVAIAETD 287
>2j5d_A BNIP3 TM, BCL2/adenovirus E1B 19 kDa protein-interacting protein 3;
membrane protein, mitochondrion, transmembrane,
transmembrane domain, membrane; NMR {Homo sapiens} PDB:
2ka1_A 2ka2_A
Length = 45
Score = 27.2 bits (60), Expect = 0.39
Identities = 11/34 (32%), Positives = 20/34 (58%)
Query: 89 KNSLFSKEVMYTLFVTNIISILLGTGVGMWLSRR 122
K +FS E + + ++S LL G+G+++ RR
Sbjct: 8 KGGIFSAEFLKVFLPSLLLSHLLAIGLGIYIGRR 41
>2ida_A Hypothetical protein; zinc binding protein, structural genomics,
PSI-2, protein structure initiative; NMR
{Rhodopseudomonas palustris} SCOP: g.44.1.5
Length = 102
Score = 28.0 bits (62), Expect = 0.52
Identities = 6/37 (16%), Positives = 11/37 (29%), Gaps = 9/37 (24%)
Query: 44 LVANFDKSTDWIWDWSSR-----PDQAPPKDWKFRHP 75
++ +D W W + D+ P P
Sbjct: 65 IIEGYDPPEGWGWCYVDEVMFDLSDRMTPH----NGP 97
>3dpj_A Transcription regulator, TETR family; APC88616, silicibacter
pomeroyi DSS, structural genomics, PSI-2, protein
structure initiative; HET: MES; 1.90A {Silicibacter
pomeroyi}
Length = 194
Score = 27.6 bits (62), Expect = 1.2
Identities = 10/43 (23%), Positives = 17/43 (39%), Gaps = 7/43 (16%)
Query: 32 KGVYINFANKDELVA-----NFDKSTDWIWDWSSRPDQAPPKD 69
Y +F KDE++A ++ + DW D P+
Sbjct: 43 GNFYYHFKTKDEILAEVIRLRLARTAQMLADWQGTGD--SPRA 83
>2fd5_A Transcriptional regulator; DNA-binding protein, structural G PSI,
protein structure initiative, midwest center for struc
genomics, MCSG; 1.70A {Pseudomonas aeruginosa} SCOP:
a.4.1.9 a.121.1.1
Length = 180
Score = 27.3 bits (61), Expect = 1.5
Identities = 7/40 (17%), Positives = 13/40 (32%), Gaps = 5/40 (12%)
Query: 33 GVYINFANKDELVA-----NFDKSTDWIWDWSSRPDQAPP 67
G Y +F +KD L+ K + + +
Sbjct: 43 GFYAHFQSKDALMLEAFEQLLGKRRELLGELDPGLSGKER 82
>3rj1_B Mediator of RNA polymerase II transcription subun; RNA polymeras
II, POL II, head module, head, regulator, helical
bundle; 4.30A {Saccharomyces cerevisiae}
Length = 583
Score = 27.2 bits (59), Expect = 2.5
Identities = 16/96 (16%), Positives = 31/96 (32%), Gaps = 11/96 (11%)
Query: 6 DLGNSFSPKSPPNSPNTELSTEDDHLKGVYINFANKDELVANFDKSTDWIWDWSSRPDQA 65
+ +S K + + K E ++ S + + D S ++A
Sbjct: 264 IESQNLDLIPHSSSVFKGTDFVHSVKKFLRVRIFTKIESEDDYILSGESVMDRDSESEEA 323
Query: 66 PPKDWKFRHPKSKSYSMRYAKVGKNSLFSKEVMYTL 101
KD + + K +F KE+MY +
Sbjct: 324 ETKDIRKQIQLLK-----------KIIFEKELMYQI 348
>2zkt_A 2,3-bisphosphoglycerate-independent phosphoglycer mutase;
phosphonopyruvate decarboxylase, isomerase, structural
genom NPPSFA; 2.40A {Pyrococcus horikoshii}
Length = 412
Score = 26.1 bits (57), Expect = 4.9
Identities = 5/43 (11%), Positives = 13/43 (30%)
Query: 1 MDYFRDLGNSFSPKSPPNSPNTELSTEDDHLKGVYINFANKDE 43
D + G + + + + V+++F D
Sbjct: 264 FDVYTPEGATGEYNTNEMAKAKKAVELLKDYDFVFLHFKPTDA 306
>3tui_A D-methionine transport system permease protein ME; ABC-transporter,
type I ABC type importer, methionine uptake transporter,
membrane protein; HET: ADP; 2.90A {Escherichia coli}
PDB: 3dhw_A* 3tuj_A 3tuz_A*
Length = 217
Score = 25.7 bits (57), Expect = 5.7
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 96 EVMYTLFVTNIISILLGTGVGMWL--SRRGMLIASNV 130
E + FV+ ++G VG+ L +R G +IA+
Sbjct: 15 ETLAMTFVSGFFGFVIGLPVGVLLYVTRPGQIIANAK 51
>2j42_A C2-II, C2 toxin component-II; 3.13A {Clostridium botulinum}
Length = 721
Score = 25.3 bits (54), Expect = 9.1
Identities = 4/59 (6%), Positives = 13/59 (22%), Gaps = 6/59 (10%)
Query: 17 PNSPNTELSTEDDH------LKGVYINFANKDELVANFDKSTDWIWDWSSRPDQAPPKD 69
+ + + + L G Y + + + + + K
Sbjct: 3 VSKFENSVKNSNKNYFTINGLMGYYFENDFFNLNIISPTLDGNLTFSKEDINSILGNKI 61
>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 = 24.9 bits (53), Expect = 10.0
Identities = 3/5 (60%), Positives = 3/5 (60%)
Query: 62 PDQAP 66
D AP
Sbjct: 34 DDSAP 38
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
0.318 0.132 0.417
Gapped
Lambda K H
0.267 0.0725 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,166,788
Number of extensions: 109850
Number of successful extensions: 310
Number of sequences better than 10.0: 1
Number of HSP's gapped: 309
Number of HSP's successfully gapped: 13
Length of query: 144
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 59
Effective length of database: 4,328,508
Effective search space: 255381972
Effective search space used: 255381972
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (23.8 bits)