RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy280
(156 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 = 36.6 bits (84), Expect = 0.002
Identities = 16/91 (17%), Positives = 39/91 (42%), Gaps = 26/91 (28%)
Query: 16 SQHDLESLVDEISEIIKQ-VQAVDFTKLPN-------DKK-IEADLLVLYAINSLYFINL 66
SQ L+ +V+ + + V+ V++ + N D + ++ N L FI L
Sbjct: 1822 SQEALQYVVERVGKRTGWLVEIVNY-NVENQQYVAAGDLRALDT------VTNVLNFIKL 1874
Query: 67 RIKHVDSDFVKVELKRIQETMKKFKQTKDKL 97
+ K+++ +Q+++ ++ + L
Sbjct: 1875 Q---------KIDIIELQKSL-SLEEVEGHL 1895
>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 = 34.8 bits (79), Expect = 0.009
Identities = 20/145 (13%), Positives = 48/145 (33%), Gaps = 24/145 (16%)
Query: 1 MTLNLIDELLSKFIN-SQHDLESLVDEISEIIKQ-VQAVD-------FTKL---PNDKKI 48
L++I E + + + D+++ II+ + ++ F +L P I
Sbjct: 328 RRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI 387
Query: 49 EADLLVLYAINSLYFINLRIKHVDSDFVKVELKRIQETMK--------KFKQTKDKLTIM 100
LL L + + + + V+ +++ + + K + +
Sbjct: 388 PTILLSLIWFDVIKSDVMVV--VNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL 445
Query: 101 PR--LDKDASKRFVRNALWTPPESD 123
R +D + + PP D
Sbjct: 446 HRSIVDHYNIPKTFDSDDLIPPYLD 470
Score = 32.9 bits (74), Expect = 0.039
Identities = 16/129 (12%), Positives = 45/129 (34%), Gaps = 20/129 (15%)
Query: 4 NLIDELLSKFINSQHDLESLVDEISEIIKQVQAVDFTKLPNDKKIEADLLVLYAI----N 59
+++ F+ D + + D I+ + + + + L + + +
Sbjct: 20 DILSVFEDAFV-DNFDCKDVQDMPKSILSKEEIDHIIMSKDA--VSGTLRLFWTLLSKQE 76
Query: 60 SLY--FINLRIKHVDSDF----VKVELKRIQETMKKFKQTKDKL-TIMPRLDKDASKRF- 111
+ F+ ++ ++ F +K E ++ + + + +D+L K R
Sbjct: 77 EMVQKFVEEVLR-INYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ 135
Query: 112 ----VRNAL 116
+R AL
Sbjct: 136 PYLKLRQAL 144
Score = 27.9 bits (61), Expect = 1.7
Identities = 17/107 (15%), Positives = 30/107 (28%), Gaps = 36/107 (33%)
Query: 68 IKHVDSDFVK-VELKRIQETMKKFKQTK--DKLTIMPR------------LDKDAS--KR 110
+ + FV + K +Q+ K + D + + L K ++
Sbjct: 22 LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK 81
Query: 111 FVRNA-------LWTP-------PESDTPC-----DKKTKDIPPVSK 138
FV L +P P T D+ D +K
Sbjct: 82 FVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAK 128
>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 = 30.3 bits (67), Expect = 0.17
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 5/32 (15%)
Query: 77 KVELKRIQETMKKFKQTKDKLTIMPRLDKDAS 108
K LK++Q ++K + D P L A+
Sbjct: 19 KQALKKLQASLKLY--ADDS---APALAIKAT 45
Score = 29.5 bits (65), Expect = 0.30
Identities = 10/27 (37%), Positives = 15/27 (55%), Gaps = 5/27 (18%)
Query: 46 KKIEADLLVLYAINS---LYFINLRIK 69
KK++A L LYA +S L I ++
Sbjct: 23 KKLQAS-LKLYADDSAPALA-IKATME 47
>2z9v_A Aspartate aminotransferase; pyridoxamine, pyruvate; HET: PXM; 1.70A
{Mesorhizobium loti} PDB: 2z9u_A* 2z9w_A* 2z9x_A*
Length = 392
Score = 30.3 bits (69), Expect = 0.20
Identities = 5/34 (14%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 68 IKHVDSDFVKVELKRIQETMKKFKQTKDKLTIMP 101
+ D F + +++ + +K + +K I+
Sbjct: 33 LYDYDPAFQLL-YEKVVDKAQKAMRLSNKPVILH 65
>1iug_A Putative aspartate aminotransferase; wild type,
pyridoxal-5'-phosphate form, riken structural
genomics/proteomics initiative, RSGI; HET: LLP; 2.20A
{Thermus thermophilus} SCOP: c.67.1.3
Length = 352
Score = 29.1 bits (66), Expect = 0.58
Identities = 4/34 (11%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 68 IKHVDSDFVKVELKRIQETMKKFKQTKDKLTIMP 101
+ H +V + + +++ +T+ ++ I+
Sbjct: 25 LHHRTEAAREV-FLKARGLLREAFRTEGEVLILT 57
>1usg_A Leucine-specific binding protein; leucine-binding protein, X-RAY
crystallography, protein structure, ABC transport
systems, transport protein; 1.53A {Escherichia coli}
SCOP: c.93.1.1 PDB: 1usi_A* 1usk_A 2lbp_A 1z15_A 1z16_A
1z17_A 1z18_A 2liv_A
Length = 346
Score = 28.8 bits (65), Expect = 0.63
Identities = 4/28 (14%), Positives = 8/28 (28%)
Query: 129 KTKDIPPVSKKTKFDADGNVIEETITIL 156
K V +D G++ +
Sbjct: 307 KANGANTVIGPLNWDEKGDLKGFDFGVF 334
>3ipc_A ABC transporter, substrate binding protein (amino; venus flytrap
domain, transport protein; 1.30A {Agrobacterium
tumefaciens} PDB: 3ip5_A 3ip6_A 3ip7_A 3ip9_A 3ipa_A
Length = 356
Score = 28.8 bits (65), Expect = 0.64
Identities = 5/28 (17%), Positives = 8/28 (28%)
Query: 129 KTKDIPPVSKKTKFDADGNVIEETITIL 156
K P + FD G+ +
Sbjct: 306 KKGSFPTALGEISFDEKGDPKLPGYVMY 333
>3td9_A Branched chain amino acid ABC transporter, peripl amino
acid-binding protein; leucine binding, structural
genomics; HET: MSE PHE; 1.90A {Thermotoga maritima}
Length = 366
Score = 26.8 bits (60), Expect = 2.9
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 128 KKTKDIPPVSKKTKFDADGNVI 149
+KT++ S D +G+ I
Sbjct: 320 RKTRNFNGASGIINIDENGDAI 341
>2qyb_A Membrane protein, putative; GAF domain, domain of putative
membrane protein, PSI-2, MCSG structural genomics;
2.40A {Geobacter sulfurreducens pca}
Length = 181
Score = 26.2 bits (58), Expect = 4.4
Identities = 6/30 (20%), Positives = 17/30 (56%)
Query: 10 LSKFINSQHDLESLVDEISEIIKQVQAVDF 39
S+ +N DL+ ++D++ ++ + +D
Sbjct: 8 ASEIMNRTLDLQIIMDDLLNLLLKEFKLDL 37
>3hut_A Putative branched-chain amino acid ABC transporter; extracellular
ligand-binding receptor,transport protein; 1.93A
{Rhodospirillum rubrum atcc 11170}
Length = 358
Score = 26.1 bits (58), Expect = 5.6
Identities = 7/29 (24%), Positives = 12/29 (41%)
Query: 128 KKTKDIPPVSKKTKFDADGNVIEETITIL 156
T V+ T+FD + + +T L
Sbjct: 310 AATDRYAGVTGITRFDPETRETTKILTRL 338
>3k2n_A Sigma-54-dependent transcriptional regulator; PSI-2, protein
structure initiative, structural genomics; 2.50A
{Chlorobium tepidum tls}
Length = 177
Score = 25.9 bits (57), Expect = 5.7
Identities = 5/30 (16%), Positives = 14/30 (46%)
Query: 10 LSKFINSQHDLESLVDEISEIIKQVQAVDF 39
+ I + D + L +++ ++ + A D
Sbjct: 11 IGDAIGTIRDPQELFRTVTDKLRLLFAFDS 40
>3f0h_A Aminotransferase; RER070207000802, structural genomics, JOIN for
structural genomics, JCSG; HET: MSE LLP; 1.70A
{Eubacterium rectale}
Length = 376
Score = 26.0 bits (58), Expect = 6.7
Identities = 3/34 (8%), Positives = 11/34 (32%), Gaps = 2/34 (5%)
Query: 68 IKHVDSDFVKVELKRIQETMKK-FKQTKDKLTIM 100
++F + ++ M + K + +
Sbjct: 43 PYFRTTEFSST-MLENEKFMLEYAKAPEGSKAVF 75
>3u24_A Putative lipoprotein; COG4805, DUF885, structural genomics,
PSI-biology, midwest C structural genomics, MCSG, lipid
BIND protein; 2.25A {Shewanella oneidensis}
Length = 572
Score = 25.7 bits (56), Expect = 7.9
Identities = 3/46 (6%), Positives = 16/46 (34%)
Query: 16 SQHDLESLVDEISEIIKQVQAVDFTKLPNDKKIEADLLVLYAINSL 61
+ + + +++ + L +++ I+ L+ +
Sbjct: 60 DEAGRVKTLAFVKAQQAKLKQFELKSLTSNETIDYHLIDNLLSSMA 105
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
0.317 0.135 0.372
Gapped
Lambda K H
0.267 0.0724 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,297,120
Number of extensions: 127897
Number of successful extensions: 473
Number of sequences better than 10.0: 1
Number of HSP's gapped: 472
Number of HSP's successfully gapped: 41
Length of query: 156
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 70
Effective length of database: 4,300,587
Effective search space: 301041090
Effective search space used: 301041090
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 (21.6 bits)
S2: 53 (24.2 bits)