RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2899
(139 letters)
>1aqt_A ATP synthase; hydrolase, ATPase, epsilon subunit; 2.30A
{Escherichia coli} SCOP: a.2.10.1 b.93.1.1 PDB: 1qo1_J
1bsh_A 1bsn_A 1fs0_E 3oaa_H*
Length = 138
Score = 115 bits (291), Expect = 2e-34
Identities = 57/134 (42%), Positives = 84/134 (62%), Gaps = 2/134 (1%)
Query: 1 MRIDIVSIEGLLFSNKNIEFIVLPGELGDLGVYPLHSPLITCIKPGFIRIKISKKIEEKC 60
+D+VS E +FS +E I + G G+LG+YP H+PL+T IKPG IRI E+
Sbjct: 4 YHLDVVSAEQQMFS-GLVEKIQVTGSEGELGIYPGHAPLLTAIKPGMIRIVKQHG-HEEF 61
Query: 61 IFVSGGIIDIQPDSVIVLADTAIHGSDLVEKQIEKEKILLENILYNKKSNIDYSITKAKL 120
I++SGGI+++QP +V VLADTAI G DL E + + K E + + ++DY+ A+L
Sbjct: 62 IYLSGGILEVQPGNVTVLADTAIRGQDLDEARAMEAKRKAEEHISSSHGDVDYAQASAEL 121
Query: 121 AIIIAQLKTIQYLR 134
A IAQL+ I+ +
Sbjct: 122 AKAIAQLRVIELTK 135
>2e5y_A ATP synthase epsilon chain; F1FO ATP synthase, F1-ATPase, epsilon
subunit, hydrolase; HET: ATP; 1.92A {Bacillus SP} PDB:
2e5t_A 2e5u_A
Length = 133
Score = 112 bits (281), Expect = 5e-33
Identities = 31/131 (23%), Positives = 68/131 (51%), Gaps = 3/131 (2%)
Query: 1 MRIDIVSIEGLLFSNKNIEFIVLPGELGDLGVYPLHSPLITCIKPGFIRIKISKKIEEKC 60
+ + +V+ +G ++ ++E + + + G+LG+ P H PL+ ++ R+K + +
Sbjct: 4 IHVSVVTPDGPVYE-DDVEMVSVKAKSGELGILPGHIPLVAPLEISAARLKKGG--KTQY 60
Query: 61 IFVSGGIIDIQPDSVIVLADTAIHGSDLVEKQIEKEKILLENILYNKKSNIDYSITKAKL 120
I VSGG ++++PD V +LA A D+ + + K E L +++ +ID+ + L
Sbjct: 61 IAVSGGFLEVRPDKVTILAQAAERAEDIDVLRAKAAKERAERRLQSQQDDIDFKRAELAL 120
Query: 121 AIIIAQLKTIQ 131
+ +L +
Sbjct: 121 KRAMNRLSVAE 131
>2qe7_H ATP synthase subunit epsilon; blockage of ATP hydrolysis,
F1-ATPase, single analysis, thermoalkaliphilic,
hydrolase; 3.06A {Bacillus SP}
Length = 135
Score = 105 bits (264), Expect = 2e-30
Identities = 43/132 (32%), Positives = 69/132 (52%), Gaps = 4/132 (3%)
Query: 1 MRIDIVSIEGLLFSNKNIEFIVLPGELGDLGVYPLHSPLITCIKPGFIRIKISKKIEEKC 60
+++DIV+ E +F + ++ G G+LGV H PL+T +K +RIK K E
Sbjct: 4 VQVDIVTPERKVFQ-GEADIVIARGVEGELGVMAGHIPLVTPLKTAPVRIKQGDK--ETL 60
Query: 61 IFVSGGIIDIQPDSVIVLADTAIHGSDLVEKQIEKEKILLENILYNKK-SNIDYSITKAK 119
I VSGG ++++PD V +LADTA ++ ++ +K K E IL ++ DY K
Sbjct: 61 IAVSGGFLEVRPDKVNILADTAELPEEIDVERAKKAKARHETILKRLDKTDKDYLRHKRA 120
Query: 120 LAIIIAQLKTIQ 131
L +L+
Sbjct: 121 LERAEVRLQVAN 132
>2w6j_H F1-ATPase delta subunit; ATP phosphorylase (H+ transporting),
transit peptide, F1FO ATP synthase, ATP phosphorylase;
3.84A {Bos taurus} PDB: 2w6h_H 2w6i_H
Length = 168
Score = 105 bits (263), Expect = 5e-30
Identities = 25/132 (18%), Positives = 53/132 (40%), Gaps = 2/132 (1%)
Query: 1 MRIDIVSIEGLLFSNKNIEFIVLPGELGDLGVYPLHSPLITCIKPGFIRIKISKKIEEKC 60
M S + F++ N+ + +P + G G+ H P + ++PG + +
Sbjct: 38 MSFTFASPTQVFFNSANVRQVDVPTQTGAFGILAAHVPTLQVLRPGLVVVHAEDG-TTSK 96
Query: 61 IFVSGGIIDIQPDS-VIVLADTAIHGSDLVEKQIEKEKILLENILYNKKSNIDYSITKAK 119
FVS G + + DS V +LA+ A+ L + ++ L + + +
Sbjct: 97 YFVSSGSVTVNADSSVQLLAEEAVTLDMLDLGAAKANLEKAQSELLGAADEATRAEIQIR 156
Query: 120 LAIIIAQLKTIQ 131
+ A +K ++
Sbjct: 157 IEANEALVKALE 168
>2xok_H ATP synthase; hydrolase, ATP-binding, F(O), F(1), mitochondr inner
membrane, transmembrane; HET: ANP; 3.01A {Saccharomyces
cerevisiae}
Length = 160
Score = 104 bits (260), Expect = 1e-29
Identities = 29/135 (21%), Positives = 57/135 (42%), Gaps = 8/135 (5%)
Query: 1 MRIDIVSIEGLLFSNKNIEFIVLPGELGDLGVYPLHSPLITCIKPGFIRIKISKKIEEKC 60
+++ L+S + + LP + G +GV H P + + PG + + + K
Sbjct: 32 LKLQFALPHETLYSGSEVTQVNLPAKSGRIGVLANHVPTVEQLLPGVVEVM--EGSNSKK 89
Query: 61 IFVSGGIIDIQPDS-VIVLADTAIHGSDLVEKQIEKEKILLENILYNKKSNIDYSITKAK 119
F+SGG +QPDS + V A A ++ I+ + + + + A+
Sbjct: 90 FFISGGFATVQPDSQLCVTAIEAFPLESFSQENIKNLLAEAKKNVSSSDAR-----EAAE 144
Query: 120 LAIIIAQLKTIQYLR 134
AI + L+ +Q +
Sbjct: 145 AAIQVEVLENLQSVL 159
>2ck3_H ATP synthase subunit delta\, mitochondrial; hydrolase; HET: ANP
ADP; 1.9A {Bos taurus} SCOP: a.2.10.1 b.93.1.1 PDB:
1e79_H* 1h8e_H* 2jdi_H* 2v7q_H* 2wss_H* 2xnd_H*
Length = 146
Score = 100 bits (251), Expect = 2e-28
Identities = 25/132 (18%), Positives = 53/132 (40%), Gaps = 2/132 (1%)
Query: 1 MRIDIVSIEGLLFSNKNIEFIVLPGELGDLGVYPLHSPLITCIKPGFIRIKISKKIEEKC 60
M S + F++ N+ + +P + G G+ H P + ++PG + +
Sbjct: 16 MSFTFASPTQVFFNSANVRQVDVPTQTGAFGILAAHVPTLQVLRPGLVVVHAEDG-TTSK 74
Query: 61 IFVSGGIIDIQPDS-VIVLADTAIHGSDLVEKQIEKEKILLENILYNKKSNIDYSITKAK 119
FVS G + + DS V +LA+ A+ L + ++ L + + +
Sbjct: 75 YFVSSGSVTVNADSSVQLLAEEAVTLDMLDLGAAKANLEKAQSELLGAADEATRAEIQIR 134
Query: 120 LAIIIAQLKTIQ 131
+ A +K ++
Sbjct: 135 IEANEALVKALE 146
>3oee_H ATP synthase subunit delta; ATP phosphatase, F1F0 ATPase, ATP
synthesis, H ADP, PO4, mitochondria; HET: ANP; 2.74A
{Saccharomyces cerevisiae} PDB: 2wpd_H* 3fks_H 2hld_H*
3oeh_H* 3ofn_H* 3zry_H* 3oe7_H*
Length = 138
Score = 100 bits (250), Expect = 3e-28
Identities = 29/135 (21%), Positives = 57/135 (42%), Gaps = 8/135 (5%)
Query: 1 MRIDIVSIEGLLFSNKNIEFIVLPGELGDLGVYPLHSPLITCIKPGFIRIKISKKIEEKC 60
+++ L+S + + LP + G +GV H P + + PG + + + K
Sbjct: 10 LKLQFALPHETLYSGSEVTQVNLPAKSGRIGVLANHVPTVEQLLPGVVEVM--EGSNSKK 67
Query: 61 IFVSGGIIDIQPDS-VIVLADTAIHGSDLVEKQIEKEKILLENILYNKKSNIDYSITKAK 119
F+SGG +QPDS + V A A ++ I+ + + + + A+
Sbjct: 68 FFISGGFATVQPDSQLCVTAIEAFPLESFSQENIKNLLAEAKKNVSSSDAR-----EAAE 122
Query: 120 LAIIIAQLKTIQYLR 134
AI + L+ +Q +
Sbjct: 123 AAIQVEVLENLQSVL 137
>2rq6_A ATP synthase epsilon chain; F1FO ATP synthase, F1-ATPase, epsilon
subunit, ATP synthesis, CF1, hydrogen ION transport,
hydrolase; NMR {Thermosynechococcus elongatus} PDB:
2rq7_A
Length = 138
Score = 99.7 bits (249), Expect = 4e-28
Identities = 27/131 (20%), Positives = 62/131 (47%), Gaps = 6/131 (4%)
Query: 1 MRIDIVSIEGLLFSNKNIEFIVLPGELGDLGVYPLHSPLITCIKPGFIRIKISKKIEEKC 60
M + +++ + ++ E ++LP G LG+ H+PL+T ++ G +R++ + E
Sbjct: 3 MTVRVIAPDKTVWD-APAEEVILPSTTGQLGILSNHAPLLTALETGVMRVRQDR--EWVA 59
Query: 61 IFVSGGIIDIQPDSVIVLADTAIHGSDLVEKQIEKEKILLENILYNKK-SNIDYSITKAK 119
I + GG +++ + V +L + A G + ++ + E + L + + +A
Sbjct: 60 IALMGGFAEVENNEVTILVNGAERGDTIDLEKAKAEFAAAQAALAQAEQGESKQAKIQAT 119
Query: 120 LAI--IIAQLK 128
A A+L+
Sbjct: 120 QAFRRARARLQ 130
>3ppg_A 5-methyltetrahydropteroyltriglutamate--homocystei
methyltransferase; cobalamin-independent, surface
entropy reduction; 1.98A {Candida albicans} PDB: 3ppf_A
3pph_A 3ppc_A
Length = 789
Score = 31.4 bits (71), Expect = 0.072
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 9/45 (20%)
Query: 1 MRIDIVSIEGLLFSNKN-----IEFIVLPGELGDLGVYPLHSPLI 40
+ D+VSIE FS K+ EF P +G LG++ +HSP I
Sbjct: 693 LDADVVSIE---FSKKDDPNYIQEFSEYPNHIG-LGLFDIHSPRI 733
>1u1j_A 5-methyltetrahydropteroyltriglutamate-- homocysteine
methyltransferase; methionine, synthase,
methyltetrahydrofolate; HET: C2F; 2.40A {Arabidopsis
thaliana} SCOP: c.1.22.2 c.1.22.2 PDB: 1u1h_A* 1u1u_A
1u22_A*
Length = 765
Score = 30.2 bits (68), Expect = 0.18
Identities = 13/47 (27%), Positives = 22/47 (46%), Gaps = 11/47 (23%)
Query: 1 MRIDIVSIEGLLFSNKNIEFIVL-------PGELGDLGVYPLHSPLI 40
M D+++IE S + + + + +G GVY +HSP I
Sbjct: 663 MDADVITIE---NSRSDEKLLSVFREGVKYGAGIG-PGVYDIHSPRI 705
>2ab1_A Hypothetical protein; HS.95870, DUF498, structural genomics,
protein structure INI PSI, center for eukaryotic
structural genomics, CESG; 2.59A {Homo sapiens} SCOP:
c.103.1.1 PDB: 2q4q_A
Length = 122
Score = 28.7 bits (64), Expect = 0.40
Identities = 12/64 (18%), Positives = 23/64 (35%)
Query: 37 SPLITCIKPGFIRIKISKKIEEKCIFVSGGIIDIQPDSVIVLADTAIHGSDLVEKQIEKE 96
SP I + G +++K S + C GG + +D+ E +
Sbjct: 3 SPEIASLSWGQMKVKGSNTTYKDCKVWPGGSRTWDWRETGTEHSPGVQPADVKEVVEKGV 62
Query: 97 KILL 100
+ L+
Sbjct: 63 QTLV 66
>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 = 29.2 bits (65), Expect = 0.40
Identities = 24/93 (25%), Positives = 36/93 (38%), Gaps = 24/93 (25%)
Query: 13 FSNKNIEFIV--LPGELGDLGVYPLHSPLITCIKPGFIRIKISKKIEEKCIFVSGGIIDI 70
FS + ++F LP + P HS L+ I+K + + + + I I
Sbjct: 409 FSERKLKFSNRFLP-----VAS-PFHSHLLVPASD-----LINKDLVKNNVSFNAKDIQI 457
Query: 71 QPDSVIVLADTAIHGSDLVEKQIEKEKILLENI 103
P V DT GSDL ++ I E I
Sbjct: 458 -P--VY---DTF-DGSDL---RVLSGSI-SERI 479
>2nq5_A 5-methyltetrahydropteroyltriglutamate-- homocysteine
methyltransferase; structural genomics, target 6426D,
PSI; 1.90A {Streptococcus mutans} PDB: 3l7s_A 3l7r_A
3t0c_A
Length = 755
Score = 29.4 bits (66), Expect = 0.42
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 10/46 (21%)
Query: 1 MRIDIVSIEGLLFSNKNIEFIVL------PGELGDLGVYPLHSPLI 40
+ D++SIE S + + I P +G LGVY +HSP +
Sbjct: 648 LDADVISIE---TSRSHGDIIESFETAVYPLGIG-LGVYDIHSPRV 689
>1t7l_A 5-methyltetrahydropteroyltriglutamate-- homocysteine
methyltransferase; TIM barrel, methyltetrahydrofolate,
zinc; 2.00A {Thermotoga maritima} PDB: 3bq5_A 3bq6_A
1xdj_A 1xr2_A* 1xpg_A*
Length = 766
Score = 28.6 bits (64), Expect = 0.62
Identities = 13/47 (27%), Positives = 22/47 (46%), Gaps = 11/47 (23%)
Query: 1 MRIDIVSIEGLLFSNKNIEFIVL-------PGELGDLGVYPLHSPLI 40
+ D++SIE S E I ++G +GV+ +HSP +
Sbjct: 666 LEFDVISIE---ASRSKGEIISAFENFKGWIKQIG-VGVWDIHSPAV 708
>3rpd_A Methionine synthase (B12-independent); structural genomics,
PSI-biology, midwest center for structu genomics, MCSG,
rossmann fold, Zn, TRA; HET: MSE; 1.50A {Shewanella SP}
Length = 357
Score = 27.7 bits (62), Expect = 1.3
Identities = 9/44 (20%), Positives = 19/44 (43%), Gaps = 8/44 (18%)
Query: 1 MRIDIVSIEGLLFSNKNIEFIVL----PGELGDLGVYPLHSPLI 40
IDI+S+E N ++ +L ++ +G + + I
Sbjct: 258 SNIDIISLE---CHNSHVPMELLELIRGKKVM-VGAIDVATDTI 297
>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 = 27.2 bits (59), Expect = 1.3
Identities = 7/42 (16%), Positives = 14/42 (33%), Gaps = 18/42 (42%)
Query: 54 KKIEEKC-IFVSGGIIDIQPDSVIVLADTAIHGSDLVEKQIE 94
KK++ ++ DS LA ++ +E
Sbjct: 23 KKLQASLKLY--------ADDSAPALA---------IKATME 47
>1ydw_A AX110P-like protein; structural genomics, protein structure
initiative, center for eukaryotic structural genomics,
CESG, AT4G09670; 2.49A {Arabidopsis thaliana} SCOP:
c.2.1.3 d.81.1.5 PDB: 2q4e_A
Length = 362
Score = 26.9 bits (60), Expect = 2.5
Identities = 6/12 (50%), Positives = 7/12 (58%)
Query: 25 GELGDLGVYPLH 36
G LGD G Y +
Sbjct: 183 GALGDAGWYAIR 194
>3rc1_A Sugar 3-ketoreductase; sugar biosynthesis, TDP binding, NADP
binding binding protein; HET: TLO NAP; 1.71A
{Actinomadura kijaniata} PDB: 3rbv_A* 3rc2_A* 3rcb_A*
3rc7_A* 3rc9_A*
Length = 350
Score = 26.1 bits (58), Expect = 3.9
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 25 GELGDLGVYPLH 36
G L D+GVYP+
Sbjct: 196 GALLDIGVYPIR 207
>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein,
ATPase, RNA binding protein; 3.00A {Methanocaldococcus
jannaschii} SCOP: c.37.1.19 c.37.1.19
Length = 367
Score = 25.9 bits (58), Expect = 4.7
Identities = 10/55 (18%), Positives = 20/55 (36%), Gaps = 8/55 (14%)
Query: 45 PGFIRIKISKKIEEKCIFVSGG--------IIDIQPDSVIVLADTAIHGSDLVEK 91
FI+ KI+ IE+ + V+ ++ + +V T +L
Sbjct: 203 YSFIKAKINANIEQSYVEVNENERFEALCRLLKNKEFYGLVFCKTKRDTKELASM 257
>1ytm_A Phosphoenolpyruvate carboxykinase [ATP], phosphoenolpyruvate;
domain closure, nucleotide binding; HET: ATP; 2.20A
{Anaerobiospirillum succiniciproducens} PDB: 1yvy_A
Length = 532
Score = 25.4 bits (56), Expect = 7.3
Identities = 7/21 (33%), Positives = 12/21 (57%), Gaps = 3/21 (14%)
Query: 99 LLENILYNKKSNIDY---SIT 116
LLEN+ + +D+ S+T
Sbjct: 303 LLENVTVDANGKVDFADKSVT 323
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
0.322 0.144 0.398
Gapped
Lambda K H
0.267 0.0762 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,139,767
Number of extensions: 128185
Number of successful extensions: 303
Number of sequences better than 10.0: 1
Number of HSP's gapped: 289
Number of HSP's successfully gapped: 29
Length of query: 139
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 55
Effective length of database: 4,356,429
Effective search space: 239603595
Effective search space used: 239603595
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 (21.9 bits)
S2: 52 (23.7 bits)