RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5598
(128 letters)
>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis,
ATP-binding, hydrogen ION TRA hydrolase, ION transport;
2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D
3j0j_D*
Length = 464
Score = 146 bits (370), Expect = 3e-43
Identities = 42/102 (41%), Positives = 60/102 (58%)
Query: 21 ISQPRITYKTVSGVNGPLVILDEVKFPKYAEIVQLRLNDGSYRAGQVLEVSGSKAVVQVF 80
+ + Y ++ ++GPL+ ++ K Y IV ++ G R GQV+EVS AV+QVF
Sbjct: 1 MDLLKKEYTGITYISGPLLFVENAKDLAYGAIVDIKDGTGRVRGGQVIEVSEEYAVIQVF 60
Query: 81 EGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 122
E T+G+D T D+ R VS++MLGR FNG GKPID
Sbjct: 61 EETTGLDLATTSVSLVEDVARLGVSKEMLGRRFNGIGKPIDG 102
>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase,
A1AO, ATP synthesis, hydrogen ION transport, ION
transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A*
3b2q_A* 2rkw_A* 3eiu_A*
Length = 469
Score = 142 bits (360), Expect = 1e-41
Identities = 45/108 (41%), Positives = 69/108 (63%), Gaps = 2/108 (1%)
Query: 16 VTRDYISQPRI-TYKTVSGVNGPLVILDEVKFPKYAEIVQLRLNDGSYRAGQVLEVSGSK 74
+ + P + YKT++ + GPL+ +++ + Y EIV +++ DG+ R GQVL+ S
Sbjct: 1 MKHHHHHHPMVKEYKTITQIAGPLIFVEKTEPVGYNEIVNIKMGDGTVRRGQVLDSSADI 60
Query: 75 AVVQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 122
VVQVFEGT G+D K+ FTG+ L+ P S D+LGR+ +GSG+P D
Sbjct: 61 VVVQVFEGTGGLD-KDCGVIFTGETLKLPASVDLLGRILSGSGEPRDG 107
>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop,
phenylalanine mutant, hydrolase; 2.35A {Pyrococcus
horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A
3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A
3sdz_A
Length = 588
Score = 56.7 bits (137), Expect = 1e-10
Identities = 24/93 (25%), Positives = 46/93 (49%), Gaps = 4/93 (4%)
Query: 30 TVSGVNGPLVILDEVKFPKYAEIVQLRLNDGSYRAGQVLEVSGSKAVVQVFEGTSGIDAK 89
+ V GPLV+ K A++ ++ G+++ + G KAV+QV+E T+G+
Sbjct: 6 RIIRVTGPLVV---ADGMKGAKMYEVVRVGELGLIGEIIRLEGDKAVIQVYEETAGVRPG 62
Query: 90 NTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 122
V TG L + +L +++G +P++
Sbjct: 63 EPV-VGTGASLSVELGPRLLTSIYDGIQRPLEV 94
>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis,
ATP-binding, hydrogen ION TRA hydrolase, ION transport;
2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A
3j0j_A* 1um2_C
Length = 578
Score = 49.3 bits (118), Expect = 4e-08
Identities = 23/96 (23%), Positives = 43/96 (44%), Gaps = 10/96 (10%)
Query: 30 TVSGVNGPLVILDEVKFPKYAEIV---QLRLNDGSYRAGQVLEVSGSKAVVQVFEGTSGI 86
+ + GP VI + + +I + L G+++ + G A VQV+E TSG+
Sbjct: 5 VIQKIAGPAVIAKGMLGARMYDISKVGEEGL------VGEIIRLDGDTAFVQVYEDTSGL 58
Query: 87 DAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPIDK 122
TG L + ML +++G +P+++
Sbjct: 59 -KVGEPVVSTGLPLAVELGPGMLNGIYDGIQRPLER 93
Score = 28.5 bits (64), Expect = 0.52
Identities = 12/52 (23%), Positives = 21/52 (40%), Gaps = 3/52 (5%)
Query: 74 KAVVQVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFN--GSGKPIDKD 123
+V+ + G TV E G + V D+ GRV +G+ ++
Sbjct: 120 TPMVKPGDEVRGGMVLGTVPE-FGFTHKILVPPDVRGRVKEVKPAGEYTVEE 170
>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta
structure, hydrolase; HET: ADP; 2.40A {Salmonella
typhimurium}
Length = 438
Score = 46.2 bits (110), Expect = 4e-07
Identities = 21/102 (20%), Positives = 39/102 (38%), Gaps = 14/102 (13%)
Query: 31 VSGVNGPLVILDEVKFPKYA--EIVQLRLNDGSYRA---GQVLEVSGSKAVVQVFEGTSG 85
++ G ++ E + + DG +V+ +G + + E G
Sbjct: 13 LTRATGLVL---EATGLQLPLGATCIIERQDGPETKEVESEVVGFNGQRLFLMPLEEVEG 69
Query: 86 I------DAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
I A+N + + P+ +LGRV +G GKP+D
Sbjct: 70 ILPGARVYARNGHGDGLQSGKQLPLGPALLGRVLDGGGKPLD 111
>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase,
hydrolase-transport PROT complex; HET: ANP ADP; 3.26A
{Escherichia coli DH1} PDB: 2a7u_A
Length = 513
Score = 40.7 bits (96), Expect = 3e-05
Identities = 15/26 (57%), Positives = 16/26 (61%)
Query: 96 TGDILRTPVSEDMLGRVFNGSGKPID 121
TG IL PV +LGRV N G PID
Sbjct: 91 TGRILEVPVGRGLLGRVVNTLGAPID 116
>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability,
potential tentoxin binding hydrolase; 3.20A {Spinacia
oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*
Length = 507
Score = 40.7 bits (96), Expect = 4e-05
Identities = 16/26 (61%), Positives = 17/26 (65%)
Query: 96 TGDILRTPVSEDMLGRVFNGSGKPID 121
TG I + PVSE LGRV N KPID
Sbjct: 92 TGRIAQIPVSEAYLGRVINALAKPID 117
>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase,
single analysis, thermoalkaliphilic, hydrolase; 3.06A
{Bacillus SP} PDB: 1sky_B
Length = 502
Score = 40.7 bits (96), Expect = 4e-05
Identities = 14/26 (53%), Positives = 18/26 (69%)
Query: 96 TGDILRTPVSEDMLGRVFNGSGKPID 121
TG I+ PV E +LGRV N G+P+D
Sbjct: 91 TGRIMEVPVGEALLGRVVNPLGQPLD 116
>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP
ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11
PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A*
1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A*
2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...
Length = 510
Score = 40.4 bits (95), Expect = 4e-05
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 96 TGDILRTPVSEDMLGRVFNGSGKPID 121
TG I+ PV E++LGRV + G ID
Sbjct: 91 TGAIVDVPVGEELLGRVVDALGNAID 116
>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for
structural genomics, JCSG, protein structure initiative
ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima
MSB8}
Length = 515
Score = 40.4 bits (95), Expect = 5e-05
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 96 TGDILRTPVSEDMLGRVFNGSGKPID 121
I+ PV E++LGRV N G+P+D
Sbjct: 104 LKRIIEVPVGEELLGRVVNPLGEPLD 129
>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*
Length = 347
Score = 36.5 bits (85), Expect = 0.001
Identities = 7/22 (31%), Positives = 15/22 (68%)
Query: 100 LRTPVSEDMLGRVFNGSGKPID 121
+ V + +LGR+ +G G+P++
Sbjct: 3 HKIRVGDALLGRLIDGIGRPME 24
>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC
F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1
b.49.1.1 c.37.1.11
Length = 473
Score = 35.4 bits (82), Expect = 0.002
Identities = 31/103 (30%), Positives = 44/103 (42%), Gaps = 16/103 (15%)
Query: 31 VSGVNGPLVILDEVKFPK-------YAEIVQLRLNDGSYRAGQ-VLEVS---GSKAVVQV 79
V V GP+V +VKF A +Q + + + LEV+ G V +
Sbjct: 6 VIQVMGPVV---DVKFENGHLPAIYNALKIQHKARNENEVDIDLTLEVALHLGDDTVRTI 62
Query: 80 -FEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
T G+ + TG + PV + LGRVFN G+PID
Sbjct: 63 AMASTDGL-IRGMEVIDTGAPISVPVGQVTLGRVFNVLGEPID 104
>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP;
1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB:
1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D*
1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D*
2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...
Length = 482
Score = 34.9 bits (81), Expect = 0.004
Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 5/59 (8%)
Query: 67 VLEVS---GSKAVVQV-FEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFNGSGKPID 121
VLEV+ G V + +GT G+ + +G +R PV + LGR+ N G+PID
Sbjct: 50 VLEVAQHLGESTVRTIAMDGTEGL-VRGQKVLDSGAPIRIPVGPETLGRIMNVIGEPID 107
>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability,
potential tentoxin binding hydrolase; 3.20A {Spinacia
oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*
Length = 498
Score = 35.0 bits (81), Expect = 0.004
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 96 TGDILRTPVSEDMLGRVFNGSGKPID 121
TG L PV LGR+FN G+P+D
Sbjct: 94 TGAPLSVPVGGPTLGRIFNVLGEPVD 119
>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 = 34.3 bits (78), Expect = 0.006
Identities = 30/150 (20%), Positives = 54/150 (36%), Gaps = 47/150 (31%)
Query: 1 M-SIS--SKQALRENVLAVTRDYISQPRITYKTVSGVNGP--LVI-------------LD 42
M SIS +++ + ++ + T ++ + +S VNG LV+ L
Sbjct: 338 MLSISNLTQEQV-QDYVNKTNSHLPAGKQVE--ISLVNGAKNLVVSGPPQSLYGLNLTLR 394
Query: 43 EVKFPKYAEIVQLRLNDGSYRA----GQVLEVSG-------SKAVVQVFEGTSGIDAKNT 91
+ K P + + Q R+ S R + L V+ A + + D
Sbjct: 395 KAKAP--SGLDQSRI-PFSERKLKFSNRFLPVASPFHSHLLVPASDLINK-----DLVKN 446
Query: 92 VCEFTGDILRTPV-----SEDMLGRVFNGS 116
F ++ PV D+ RV +GS
Sbjct: 447 NVSFNAKDIQIPVYDTFDGSDL--RVLSGS 474
Score = 32.7 bits (74), Expect = 0.025
Identities = 25/133 (18%), Positives = 45/133 (33%), Gaps = 38/133 (28%)
Query: 7 QALRENVLAVTRDYISQPRITYKTV-SGVN---------GPLVILDEVKF--P-----KY 49
+ +REN A+ + I ++ + + +N +L +F P +
Sbjct: 1682 KRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEK 1741
Query: 50 AEIVQLR----LNDGSYRAGQVL-EVSGSKAVVQV-----FEGTSGIDAKNTVCEFT-GD 98
A L+ + + AG L E + A+ + E V F G
Sbjct: 1742 AAFEDLKSKGLIPADATFAGHSLGEYA---ALASLADVMSIE-----SLVEVV--FYRGM 1791
Query: 99 ILRTPVSEDMLGR 111
++ V D LGR
Sbjct: 1792 TMQVAVPRDELGR 1804
>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 = 33.7 bits (76), Expect = 0.012
Identities = 13/97 (13%), Positives = 28/97 (28%), Gaps = 19/97 (19%)
Query: 18 RDYISQPRITYKTVSGVNGPLVILDEVKFPKYAEIVQLRLNDGSYRAGQVLEVSGSKAVV 77
R + Y+ L++L V + A+ N ++L + K V
Sbjct: 235 RRLLKSKP--YENC------LLVLLNV---QNAKAWNA-FNLSC----KILLTTRFKQVT 278
Query: 78 QVFEGTSGIDAKNTVCEFTGDILRTPVSEDMLGRVFN 114
S + + L + +L + +
Sbjct: 279 DFL---SAATTTHISLDHHSMTLTPDEVKSLLLKYLD 312
Score = 27.5 bits (60), Expect = 1.6
Identities = 15/98 (15%), Positives = 29/98 (29%), Gaps = 30/98 (30%)
Query: 19 DY-ISQPRITYKTVSGVNGPLVILD-EVK----FPK-------YAEIVQLRLND-GSYRA 64
D+ + + YK + V + + + K PK I+ + G+ R
Sbjct: 8 DFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRL 67
Query: 65 GQVLEVSGSKAVVQVFEGTSGIDAKNTVCEFTGDILRT 102
L + V +F ++LR
Sbjct: 68 FWTLLSKQ----------------EEMVQKFVEEVLRI 89
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 31.8 bits (72), Expect = 0.045
Identities = 14/96 (14%), Positives = 25/96 (26%), Gaps = 33/96 (34%)
Query: 1 MSISSKQALRENVLAVTR------------DYISQPRITYKTVS------------GVNG 36
M + Q L ++ R +Y+ P T KT G
Sbjct: 1393 MMNGALQILNSGIIPGNRNADNVDKILEQFEYVLYPSKTLKTDGVRAVSITSFGFGQKGG 1452
Query: 37 PLVI---------LDEVKFPKYAEIVQLRLNDGSYR 63
++ + E ++ +Y V R
Sbjct: 1453 QAIVVHPDYLYGAITEDRYNEYVAKVSAREKSAYKF 1488
>3sqr_A Laccase; multicopper oxidase, glycosylation, oxidoreductase; HET:
NAG BMA MAN; 1.67A {Botrytis aclada}
Length = 580
Score = 25.5 bits (56), Expect = 7.2
Identities = 7/27 (25%), Positives = 12/27 (44%)
Query: 33 GVNGPLVILDEVKFPKYAEIVQLRLND 59
G+ GPL+I ++ + L D
Sbjct: 178 GLFGPLIINGPATADYDEDVGVIFLQD 204
>3n6x_A Putative glutathionylspermidine synthase; domain of unknown
function (DUF404), structural genomics; 2.35A
{Methylobacillus flagellatus}
Length = 474
Score = 25.3 bits (55), Expect = 7.7
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 1 MSISSKQALRENVLAVTRDYISQPRITYKTV 31
S + R+ +LA +YI+QP + T
Sbjct: 384 ASKQELEDFRQRILANPANYIAQPTLALSTC 414
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
0.316 0.135 0.381
Gapped
Lambda K H
0.267 0.0731 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,936,603
Number of extensions: 109046
Number of successful extensions: 260
Number of sequences better than 10.0: 1
Number of HSP's gapped: 255
Number of HSP's successfully gapped: 30
Length of query: 128
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 45
Effective length of database: 4,384,350
Effective search space: 197295750
Effective search space used: 197295750
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: 51 (23.4 bits)