RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy860
(178 letters)
>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint
center for structural genomics, JCSG, protein structu
initiative, PSI; 2.10A {Thermotoga maritima} SCOP:
c.37.1.12
Length = 256
Score = 77.2 bits (191), Expect = 8e-18
Identities = 18/75 (24%), Positives = 30/75 (40%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
I Y P+ G ++ E L + + +++ ++ GL E YS
Sbjct: 90 ISYLPEEAGAYRNMQGIEYLRFVAGFYASSSSEIEEMVERATEIAGLGEKIKDRVSTYSK 149
Query: 145 GNKRKLSTAMALIGD 159
G RKL A AL+ +
Sbjct: 150 GMVRKLLIARALMVN 164
Score = 43.3 bits (103), Expect = 1e-05
Identities = 7/46 (15%), Positives = 17/46 (36%)
Query: 10 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLG 55
I Y P+ G ++ E L + + +++ ++ G
Sbjct: 90 ISYLPEEAGAYRNMQGIEYLRFVAGFYASSSSEIEEMVERATEIAG 135
>1sgw_A Putative ABC transporter; structural genomics, P protein structure
initiative, southeast collaboratory for S genomics,
secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12
Length = 214
Score = 70.6 bits (174), Expect = 1e-15
Identities = 13/75 (17%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
I + P+ + ++ ++ L+ ++L G+ K+ I ++ + + + + ++ G S
Sbjct: 80 IFFLPEEIIVPRKISVEDYLKAVASLYGVKVNKN--EIMDALESVEVLDLKKKL-GELSQ 136
Query: 145 GNKRKLSTAMALIGD 159
G R++ A L+ +
Sbjct: 137 GTIRRVQLASTLLVN 151
Score = 41.0 bits (97), Expect = 5e-05
Identities = 7/46 (15%), Positives = 22/46 (47%), Gaps = 2/46 (4%)
Query: 10 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLG 55
I + P+ + ++ ++ L+ ++L G+ K+ I ++ +
Sbjct: 80 IFFLPEEIIVPRKISVEDYLKAVASLYGVKVNKN--EIMDALESVE 123
>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 = 36.8 bits (84), Expect = 0.003
Identities = 34/214 (15%), Positives = 56/214 (26%), Gaps = 72/214 (33%)
Query: 21 EHLTAQEMLECFSALRGI--PGVK--SGPIIDYWIDLLGSAIRFSPFQAAQNSLLMTN-- 74
L E + F L + P + + W D++ S + + + SL+
Sbjct: 364 NVLEPAEYRKMFDRL-SVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK 422
Query: 75 -----IMHLF-------------------QYLSGIGYCPQ-----------FNGINEHLT 99
I ++ Y + ++ I HL
Sbjct: 423 ESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLK 482
Query: 100 AQEMLECFSALR----------------GIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYS 143
E E + R SG I++ L L Y+ Y
Sbjct: 483 NIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILN---TLQQLKFYK-----PYI 534
Query: 144 GGNKRKLSTAMALIGDRDDGFQKLPFSSQNLYNT 177
N K L+ D F LP +NL +
Sbjct: 535 CDNDPKYE---RLVNAILD-F--LPKIEENLICS 562
>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 = 35.8 bits (82), Expect = 0.005
Identities = 36/183 (19%), Positives = 66/183 (36%), Gaps = 53/183 (28%)
Query: 20 NEHLTAQEMLECFSALRGIPGVKSGPIIDYW----IDLLGSAIRF-----SPFQAAQNSL 70
A ++ E F+ + +P G D +L+G + + P + Q
Sbjct: 25 ASFFIASQLQEQFNKI--LPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQ 82
Query: 71 LMTNIMHLF--QYLSGIGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPII-DYWID 127
++ + F YL G N I H A ++L+ VK+ +I +Y
Sbjct: 83 VLNLCLTEFENCYLEG-------NDI--HALAAKLLQ----ENDTTLVKTKELIKNY--- 126
Query: 128 LLGLTEYRHR-VSGR-YSGGNKRKLSTA--------MALI---GDRDDGFQKLPFSSQNL 174
R ++ R + + L A +A+ G+ DD F++L ++L
Sbjct: 127 ------ITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEEL----RDL 176
Query: 175 YNT 177
Y T
Sbjct: 177 YQT 179
>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative
iron chelatin ABC transporter, nucleotide binding
domain; 2.40A {Haemophilus influenzae}
Length = 253
Score = 34.5 bits (80), Expect = 0.009
Identities = 21/104 (20%), Positives = 38/104 (36%), Gaps = 21/104 (20%)
Query: 69 SLLMTNIMHLFQYLSG-------IGYCPQFNGINEHLTAQEMLECFSALRG--------- 112
S L+ ++ + + + G IG+ PQF + +++ L G
Sbjct: 45 STLLDLLLGIHRPIQGKIEVYQSIGFVPQFFSSPFAYSVLDIV-----LMGRSTHINTFA 99
Query: 113 IPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMAL 156
P + +D L LT R SGG ++ + A A+
Sbjct: 100 KPKSHDYQVAMQALDYLNLTHLAKREFTSLSGGQRQLILIARAI 143
>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette,
hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}
Length = 279
Score = 34.5 bits (80), Expect = 0.011
Identities = 16/83 (19%), Positives = 29/83 (34%), Gaps = 10/83 (12%)
Query: 85 IGYCPQ--FNGINEHLTAQEMLECFSALRGIPGVKSGP------IIDYWIDLLGLTEYRH 136
IG+ E +++ S GV + L+G++
Sbjct: 99 IGFVSHSLLEKFQEGERVIDVV--ISGAFKSIGVYQDIDDEIRNEAHQLLKLVGMSAKAQ 156
Query: 137 RVSGRYSGGNKRKLSTAMALIGD 159
+ G S G K+++ A AL+G
Sbjct: 157 QYIGYLSTGEKQRVMIARALMGQ 179
>1g6h_A High-affinity branched-chain amino acid transport ATP-binding
protein; beta-core domain; HET: ADP; 1.60A
{Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB:
1gaj_A 1g9x_A*
Length = 257
Score = 32.9 bits (76), Expect = 0.040
Identities = 9/32 (28%), Positives = 15/32 (46%)
Query: 125 WIDLLGLTEYRHRVSGRYSGGNKRKLSTAMAL 156
++ L L+ R +G SGG + + AL
Sbjct: 137 ILEFLKLSHLYDRKAGELSGGQMKLVEIGRAL 168
>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane,
membrane, transmembrane, transport, ATP- binding,
hydrolase, nucleotide-binding, periplasm; HET: 1PE;
2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C
Length = 249
Score = 29.8 bits (68), Expect = 0.41
Identities = 10/72 (13%), Positives = 20/72 (27%), Gaps = 5/72 (6%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
Y Q L +++ L L + R + + SG
Sbjct: 75 RAYLSQQQTPPFATPVWHYL-----TLHQHDKTRTELLNDVAGALALDDKLGRSTNQLSG 129
Query: 145 GNKRKLSTAMAL 156
G +++ A +
Sbjct: 130 GEWQRVRLAAVV 141
>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur
cluster, adenosine diphosphate, nucleotide-binding; HET:
ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*
Length = 607
Score = 29.2 bits (66), Expect = 0.75
Identities = 17/77 (22%), Positives = 29/77 (37%), Gaps = 4/77 (5%)
Query: 85 IGYCPQFNGINEHLTAQEMLECFSALRGIPGVKSGPIIDYWIDLLGLTEYRHRVSGRYSG 144
+ Y PQ+ T E+L + S + LG+ + R SG
Sbjct: 419 VAYKPQYIKAEYEGTVYELLSK----IDSSKLNSNFYKTELLKPLGIIDLYDRNVEDLSG 474
Query: 145 GNKRKLSTAMALIGDRD 161
G ++++ A L+ D D
Sbjct: 475 GELQRVAIAATLLRDAD 491
Score = 26.9 bits (60), Expect = 3.8
Identities = 9/36 (25%), Positives = 17/36 (47%)
Query: 122 IDYWIDLLGLTEYRHRVSGRYSGGNKRKLSTAMALI 157
+ + L L R + SGG ++++ A AL+
Sbjct: 209 FEEVVKELELENVLDRELHQLSGGELQRVAIAAALL 244
>1ezj_A Nucleocapsid phosphoprotein; four stranded coiled coil, viral
polymerase, T viral protein, transferase; 1.90A {Sendai
virus} SCOP: h.1.14.1
Length = 115
Score = 26.4 bits (57), Expect = 3.3
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 59 RFSPFQAAQNSLLMTNIMHL 78
RFS +Q QNSLLM+N+ L
Sbjct: 91 RFSEYQKEQNSLLMSNLSTL 110
>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET:
ATP; NMR {Saccharomyces cerevisiae}
Length = 608
Score = 26.1 bits (58), Expect = 7.6
Identities = 7/36 (19%), Positives = 16/36 (44%)
Query: 126 IDLLGLTEYRHRVSGRYSGGNKRKLSTAMALIGDRD 161
+ L + + + SGG ++++ +AL D
Sbjct: 452 VKPLRIDDIIDQEVQHLSGGELQRVAIVLALGIPAD 487
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
0.324 0.141 0.440
Gapped
Lambda K H
0.267 0.0789 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,841,254
Number of extensions: 166479
Number of successful extensions: 230
Number of sequences better than 10.0: 1
Number of HSP's gapped: 224
Number of HSP's successfully gapped: 20
Length of query: 178
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 91
Effective length of database: 4,272,666
Effective search space: 388812606
Effective search space used: 388812606
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (24.5 bits)