RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6109
(192 letters)
>2bl2_A V-type sodium ATP synthase subunit K; V-type ATPase, K-ring,
membrane rotor, sodium transporter, H ION transport,
hydrolase, transmembrane; HET: LHG UMQ; 2.1A
{Enterococcus hirae} PDB: 2cyd_A* 2db4_A* 3aou_A*
Length = 156
Score = 91.1 bits (226), Expect = 7e-24
Identities = 22/77 (28%), Positives = 34/77 (44%)
Query: 116 NLRKAKHAALGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFA 175
NL G LGA L + F+GL +G A G V AG++ A++P I+
Sbjct: 79 NLGSDMSVVQGLNFLGASLPIAFTGLFSGIAQGKVAAAGIQILAKKPEHATKGIIFAAMV 138
Query: 176 EVLGLYGLIVAIYLYTK 192
E + G +++ L
Sbjct: 139 ETYAILGFVISFLLVLN 155
Score = 51.8 bits (124), Expect = 6e-09
Identities = 18/71 (25%), Positives = 33/71 (46%)
Query: 122 HAALGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLY 181
+ + F L A FSG+ + +G+ G+A T QP F +++ + GLY
Sbjct: 9 NGGMVFAVLAMATATIFSGIGSAKGVGMTGEAAAALTTSQPEKFGQALILQLLPGTQGLY 68
Query: 182 GLIVAIYLYTK 192
G ++A ++
Sbjct: 69 GFVIAFLIFIN 79
>2xqu_A C15_RING, ATP synthase C chain; membrane protein, F1FO-ATP synthase
rotor, ION (PROT translocation; HET: FME CVM; 1.84A
{Arthrospira platensis} PDB: 2xqs_A* 2xqt_A* 2wie_A*
2w5j_A
Length = 82
Score = 51.6 bits (124), Expect = 1e-09
Identities = 23/70 (32%), Positives = 33/70 (47%), Gaps = 4/70 (5%)
Query: 124 ALGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLG 179
+ A LAVG + G G V G A+QP ++ ++L L F E L
Sbjct: 6 TTAASVIAAALAVGIGSIGPGLGQGQAAGQAVEGIARQPEAEGKIRGTLLLSLAFMEALT 65
Query: 180 LYGLIVAIYL 189
+YGL+VA+ L
Sbjct: 66 IYGLVVALVL 75
>1wu0_A ATP synthase C chain; ATPase, membrane protein, hydrogen ION
transport, hydrolase; NMR {Bacillus SP}
Length = 72
Score = 50.4 bits (121), Expect = 3e-09
Identities = 18/72 (25%), Positives = 31/72 (43%), Gaps = 4/72 (5%)
Query: 125 LGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGL 180
+ L A +AVG L AG G++ + G A+QP L M + + E L +
Sbjct: 1 MSLGVLAAAIAVGLGALGAGIGNGLIVSRTIEGIARQPELRPVLQTTMFIGVALVEALPI 60
Query: 181 YGLIVAIYLYTK 192
G++ + +
Sbjct: 61 IGVVFSFIYLGR 72
>2wgm_A ATP synthase subunit C, sodium ION specific; F1FO-ATP synthase
rotor, sodium-motive force, cell inner membrane, CF(0),
membrane, transport; HET: F09; 2.35A {Ilyobacter
tartaricus} PDB: 1yce_A*
Length = 89
Score = 46.6 bits (111), Expect = 1e-07
Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 5/79 (6%)
Query: 115 LNLRKAKHAALGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMIL 170
+++ AK L +GAG A+ +G+ G G V A+QP + M+L
Sbjct: 1 MDMLFAKTVVLAASAVGAGTAM-IAGIGPGVGQGYAAGKAVESVARQPEAKGDIISTMVL 59
Query: 171 ILIFAEVLGLYGLIVAIYL 189
AE G+Y L++A+ L
Sbjct: 60 GQAVAESTGIYSLVIALIL 78
>2x2v_A ATP synthase subunit C; membrane protein, ION transport, ATP
synthesis, transmembran CF(0), membrane, transport,
C-ring rotor; HET: FME DPV; 2.50A {Bacillus pseudofirmus
OF4}
Length = 69
Score = 45.2 bits (107), Expect = 2e-07
Identities = 17/64 (26%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGLYGLIV 185
LGA +A G + +A A+ I+ A + GT +QP L M + + AE + + +++
Sbjct: 4 LGAAIAAGLAAVAGAIAVAIIVKATIEGTTRQPELRGTLQTLMFIGVPLAEAVPIIAIVI 63
Query: 186 AIYL 189
++ +
Sbjct: 64 SLLI 67
>1a91_A F1FO ATPase subunit C; membrane protein, hydrogen ION transport;
NMR {Escherichia coli} SCOP: f.17.1.1 PDB: 1c0v_A 1c17_A
1c99_A 1qo1_K 1aty_A 1l6t_A 1ijp_A
Length = 79
Score = 41.0 bits (96), Expect = 1e-05
Identities = 13/70 (18%), Positives = 34/70 (48%), Gaps = 4/70 (5%)
Query: 124 ALGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLG 179
+ +++ A + +G + + A IGI+G + G A+QP L +++ + +
Sbjct: 5 NMDLLYMAAAVMMGLAAIGAAIGIGILGGKFLEGAARQPDLIPLLRTQFFIVMGLVDAIP 64
Query: 180 LYGLIVAIYL 189
+ + + +Y+
Sbjct: 65 MIAVGLGLYV 74
>4f4s_A ATP synthase subunit 9, mitochondrial; C10 ring, F1FO ATP synthase,
oligomycin, membr protein-antibiotic complex; HET: FME
EFO; 1.90A {Saccharomyces cerevisiae} PDB: 2wpd_J*
2xok_K* 3u2y_K* 3u32_K* 3ud0_K* 3zry_J* 3u2f_K*
Length = 76
Score = 38.6 bits (90), Expect = 1e-04
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 5/64 (7%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGLYGLIV 185
+GAG++ L AG I IV A + G ++ P +F IL +E GL+ L+V
Sbjct: 10 IGAGIST-IGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMV 68
Query: 186 AIYL 189
+ L
Sbjct: 69 SFLL 72
>2xnd_J ATP synthase lipid-binding protein, mitochondrial; ATP
phosphorylase (H+ transporting), ATP synthesis, F1FO ATP
synthase, hydrolase, ION transport; HET: ANP; 3.50A {Bos
taurus}
Length = 72
Score = 38.2 bits (89), Expect = 1e-04
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 5/64 (7%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGLYGLIV 185
+GAG A +G IG V + + G A+ P +LF IL +E +GL+ L+V
Sbjct: 8 IGAGAAT-VGVAGSGAGIGTVFGSLIIGYARNPSLKQQLFSYAILGFALSEAMGLFCLMV 66
Query: 186 AIYL 189
A +
Sbjct: 67 AFLI 70
>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 = 29.4 bits (65), Expect = 0.89
Identities = 13/68 (19%), Positives = 22/68 (32%), Gaps = 19/68 (27%)
Query: 63 TTSWQKLRQQSIADQLAEVSPTCPTRKTLRLGLN-----------LGAPPD--PFEPWCI 109
TT R + + D L+ + T + + L L P P E
Sbjct: 271 TT-----RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREV-LT 324
Query: 110 SRPLGLNL 117
+ P L++
Sbjct: 325 TNPRRLSI 332
>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 = 27.6 bits (60), Expect = 1.9
Identities = 10/47 (21%), Positives = 15/47 (31%), Gaps = 23/47 (48%)
Query: 71 QQSIADQLAEVSPTCPTRKTLRLGLNLGAPPDPFEPWCISRP-LGLN 116
+Q++ K L+ L L A D S P L +
Sbjct: 19 KQAL--------------KKLQASLKLYA-DD-------SAPALAIK 43
>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 = 28.5 bits (63), Expect = 2.0
Identities = 21/102 (20%), Positives = 33/102 (32%), Gaps = 44/102 (43%)
Query: 53 GAYCKDERGSTTSWQKLRQQSIADQLAEVSPTC-----------------------PTRK 89
G C + +T+ + + S+ + E P+ P K
Sbjct: 307 GVRCYEAYPNTSLPPSILEDSLENN--EGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGK 364
Query: 90 TLRLGL-N------LGAPPDPFEPWCISRPL-GLN--LRKAK 121
+ + L N + PP + L GLN LRKAK
Sbjct: 365 QVEISLVNGAKNLVVSGPP---------QSLYGLNLTLRKAK 397
>1fd3_A Beta-defensin 2; antimicrobial protein; 1.35A {Synthetic} SCOP:
g.9.1.1 PDB: 1fd4_A 1fqq_A 1e4q_A
Length = 41
Score = 24.6 bits (53), Expect = 3.9
Identities = 12/32 (37%), Positives = 15/32 (46%)
Query: 4 PTAVLISGAVQEPVKYPAYKSSTGTCEIPSIQ 35
P L SGA+ PV P GTC +P +
Sbjct: 5 PVTCLKSGAICHPVFCPRRYKQIGTCGLPGTK 36
>1nun_A Fibroblast growth factor-10; beta-trefoil fold, immunoglobulin-like
domain, hormone/growth factor/membrane protein complex;
HET: 15P; 2.90A {Homo sapiens} SCOP: b.42.1.1
Length = 145
Score = 26.1 bits (57), Expect = 5.1
Identities = 7/46 (15%), Positives = 19/46 (41%)
Query: 144 GFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLYGLIVAIYL 189
+ + I + V GT ++ + + + + V+ + + YL
Sbjct: 24 KYFLKIEKNGKVSGTKKENCPYSILEITSVEIGVVAVKAINSNYYL 69
>2qi9_A Vitamin B12 import system permease protein BTUC; inner membrane,
membrane, transmembrane, transport, ATP- binding,
hydrolase, nucleotide-binding, periplasm; HET: 1PE;
2.60A {Escherichia coli} PDB: 4dbl_A 1l7v_A*
Length = 326
Score = 25.7 bits (57), Expect = 10.0
Identities = 11/39 (28%), Positives = 18/39 (46%), Gaps = 5/39 (12%)
Query: 113 LGLNLRKAKHAALGFIHLGAGLAVGFSGLAAGFAIGIVG 151
LGL L ++ + G++V +G AIG +G
Sbjct: 224 LGLPLWFWRNVLVAATGWMVGVSVALAG-----AIGFIG 257
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 0.138 0.411
Gapped
Lambda K H
0.267 0.0667 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,883,956
Number of extensions: 168418
Number of successful extensions: 328
Number of sequences better than 10.0: 1
Number of HSP's gapped: 320
Number of HSP's successfully gapped: 21
Length of query: 192
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 104
Effective length of database: 4,244,745
Effective search space: 441453480
Effective search space used: 441453480
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: 54 (24.7 bits)