RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9628
(112 letters)
>2ck3_G ATP synthase subunit gamma\, mitochondrial; hydrolase; HET: ANP
ADP; 1.9A {Bos taurus} SCOP: c.49.2.1 PDB: 1cow_G*
1bmf_G* 1e1q_G* 1e1r_G* 1efr_G* 1e79_G* 1h8h_G* 1nbm_G*
1ohh_G* 1qo1_G 1w0j_G* 1w0k_G* 1h8e_G* 2jiz_G* 2jj1_G*
2jj2_G* 2v7q_G* 2wss_G* 2xnd_G* 2w6j_G ...
Length = 272
Score = 86.0 bits (214), Expect = 6e-22
Identities = 44/91 (48%), Positives = 63/91 (69%), Gaps = 2/91 (2%)
Query: 15 QIITIGDKSRAILQRLYGNNIILAANEVGRRPPTFLDASKVAQE--TSKYNFTSGKIIYN 72
+II +GDK R+IL R + + ++ EVGRRPPTF DAS +A E S Y F G II+N
Sbjct: 104 KIIGVGDKIRSILHRTHSDQFLVTFKEVGRRPPTFGDASVIALELLNSGYEFDEGSIIFN 163
Query: 73 KFKSVVSYTTSDLPIFSLASVTAAPKLGVYD 103
+F+SV+SY T + PIFSL ++++A + +YD
Sbjct: 164 RFRSVISYKTEEKPIFSLDTISSAESMSIYD 194
>3oee_G ATP synthase subunit gamma; ATP phosphatase, F1F0 ATPase, ATP
synthesis, H ADP, PO4, mitochondria; HET: ANP; 2.74A
{Saccharomyces cerevisiae} PDB: 2wpd_G* 3fks_G 2hld_G*
3oeh_G* 3ofn_G* 3zry_G* 3oe7_G*
Length = 278
Score = 83.7 bits (208), Expect = 5e-21
Identities = 29/93 (31%), Positives = 50/93 (53%), Gaps = 4/93 (4%)
Query: 15 QIITIGDKSRAILQRLYGNNIILAANEVGRRPPTFLDASKVAQET----SKYNFTSGKII 70
I+TIGDK + L R + NNI L+ N +G+ PTF +++ +A + + I
Sbjct: 106 DIVTIGDKIKMQLLRTHPNNIKLSINGIGKDAPTFQESALIADKLLSVMKAGTYPKISIF 165
Query: 71 YNKFKSVVSYTTSDLPIFSLASVTAAPKLGVYD 103
YN S +S+ S+ PIF+ ++ +P G ++
Sbjct: 166 YNDPVSSLSFEPSEKPIFNAKTIEQSPSFGKFE 198
>2xok_G ATP synthase subunit gamma, mitochondrial; hydrolase, ATP-binding,
F(O), F(1), mitochondr inner membrane, transmembrane;
HET: ANP; 3.01A {Saccharomyces cerevisiae}
Length = 311
Score = 83.4 bits (207), Expect = 8e-21
Identities = 29/93 (31%), Positives = 50/93 (53%), Gaps = 4/93 (4%)
Query: 15 QIITIGDKSRAILQRLYGNNIILAANEVGRRPPTFLDASKVAQET----SKYNFTSGKII 70
I+TIGDK + L R + NNI L+ N +G+ PTF +++ +A + + I
Sbjct: 139 DIVTIGDKIKMQLLRTHPNNIKLSINGIGKDAPTFQESALIADKLLSVMKAGTYPKISIF 198
Query: 71 YNKFKSVVSYTTSDLPIFSLASVTAAPKLGVYD 103
YN S +S+ S+ PIF+ ++ +P G ++
Sbjct: 199 YNDPVSSLSFEPSEKPIFNAKTIEQSPSFGKFE 231
>1fs0_G ATP synthase gamma subunit; coiled coil, epsilon, hydrolase; 2.10A
{Escherichia coli} SCOP: c.49.2.1
Length = 230
Score = 47.5 bits (114), Expect = 6e-08
Identities = 13/70 (18%), Positives = 28/70 (40%), Gaps = 8/70 (11%)
Query: 15 QIITIGDKSRAILQRLYGNNIILAANEVGRRPPTFLDASKVAQETSKYNFTSGK-----I 69
+ IG K + + GN ++ +G P + + + + + G+ I
Sbjct: 96 DLAMIGSKGVSFFNSVGGN-VVAQVTGMGDNP-SLSELIGPVKVMLQA-YDEGRLDKLYI 152
Query: 70 IYNKFKSVVS 79
+ NKF + +S
Sbjct: 153 VSNKFINTMS 162
>3oaa_G ATP synthase gamma chain; rossmann fold, hydrolase,
hydrolase-transport PROT complex; HET: ANP ADP; 3.26A
{Escherichia coli DH1}
Length = 286
Score = 47.1 bits (113), Expect = 1e-07
Identities = 13/70 (18%), Positives = 28/70 (40%), Gaps = 8/70 (11%)
Query: 15 QIITIGDKSRAILQRLYGNNIILAANEVGRRPPTFLDASKVAQETSKYNFTSGK-----I 69
+ IG K + + GN ++ +G P + + + + + G+ I
Sbjct: 113 DLAMIGSKGVSFFNSVGGN-VVAQVTGMGDNP-SLSELIGPVKVMLQA-YDEGRLDKLYI 169
Query: 70 IYNKFKSVVS 79
+ NKF + +S
Sbjct: 170 VSNKFINTMS 179
>2qe7_G ATP synthase subunit gamma; blockage of ATP hydrolysis, F1-ATPase,
single analysis, thermoalkaliphilic, hydrolase; 3.06A
{Bacillus SP}
Length = 286
Score = 46.0 bits (110), Expect = 3e-07
Identities = 13/70 (18%), Positives = 24/70 (34%), Gaps = 8/70 (11%)
Query: 15 QIITIGDKSRAILQRLYGNNIILAANEVGRRPPTFLDASKVAQETSKYNFTSGK-----I 69
I +G K R ++ ++ + P + + +AQ F I
Sbjct: 114 VIFAVGRKGRDFFKKRGYP-VVEEVTGISDTP-SLTEIQDIAQSAIGM-FADETFDKLTI 170
Query: 70 IYNKFKSVVS 79
YN+F S +
Sbjct: 171 FYNEFVSPIV 180
>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 = 26.1 bits (56), Expect = 2.8
Identities = 8/37 (21%), Positives = 15/37 (40%), Gaps = 8/37 (21%)
Query: 75 KSVVSYTTSDLPIFSLASVTAAPKLGVYDSLWKRCVE 111
K + + L +++ S AP L + K +E
Sbjct: 19 KQALKKLQASLKLYADDS---APALAI-----KATME 47
>1nyr_A Threonyl-tRNA synthetase 1; ATP, threonine, ligase; HET: ATP; 2.80A
{Staphylococcus aureus} SCOP: c.51.1.1 d.15.10.1
d.67.1.1 d.104.1.1 PDB: 1nyq_A*
Length = 645
Score = 26.0 bits (58), Expect = 3.2
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 20 GDKSRAILQRLYG 32
GD + +LQR+YG
Sbjct: 207 GDSNNKMLQRIYG 219
>1qf6_A THRRS, threonyl-tRNA synthetase; tRNA(Thr), AMP, mRNA, aminoacylati
translational regulation, protein/RNA, ligase-RNA
complex; HET: H2U AET G7M 5MU PSU AMP; 2.90A
{Escherichia coli} SCOP: c.51.1.1 d.15.10.1 d.67.1.1
d.104.1.1
Length = 642
Score = 26.0 bits (58), Expect = 3.5
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 20 GDKSRAILQRLYG 32
GD + +LQR+YG
Sbjct: 208 GDSNNKMLQRIYG 220
>3qtd_A PMBA protein; putative modulator of gyrase (PMBA), structural
genomics, PS biology, midwest center for structural
genomics, MCSG; 2.70A {Pseudomonas aeruginosa}
Length = 449
Score = 25.7 bits (57), Expect = 3.5
Identities = 9/24 (37%), Positives = 14/24 (58%), Gaps = 1/24 (4%)
Query: 3 GTSST-NAPSMTNQIITIGDKSRA 25
G ST NA + N ++ GD+ +A
Sbjct: 337 GLPSTANAGGVHNLFVSHGDEDQA 360
>3tv9_A Putative peptide maturation protein; structural genomics, center
for structural genomics of infec diseases, csgid,
alpha-beta, cytosol; 2.50A {Shigella flexneri}
Length = 457
Score = 25.7 bits (57), Expect = 3.5
Identities = 7/24 (29%), Positives = 9/24 (37%), Gaps = 1/24 (4%)
Query: 3 GTSST-NAPSMTNQIITIGDKSRA 25
G ST +A + N I S
Sbjct: 348 GLKSTGHAGGIHNWRIAGQGLSFE 371
>1hr0_W Translation initiation factor; ribosomal subunit, ribosome, IF1;
3.20A {Escherichia coli} SCOP: b.40.4.5 PDB: 1zo1_W
Length = 71
Score = 24.5 bits (54), Expect = 4.2
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 54 KVAQETSKYNFTSGKIIYNK 73
+V E + Y+ T G+I+Y K
Sbjct: 52 RVVVEITPYDPTRGRIVYRK 71
>3b4t_A Ribonuclease PH; RNAse, tRNA nucleotidyltransferase, RPHA, STRU
genomics, TBSGC; 2.10A {Mycobacterium tuberculosis}
Length = 262
Score = 25.2 bits (55), Expect = 5.4
Identities = 7/34 (20%), Positives = 15/34 (44%)
Query: 31 YGNNIILAANEVGRRPPTFLDASKVAQETSKYNF 64
+G+ +L V P + A+ + T++Y
Sbjct: 37 FGHTKVLCTASVTEGVPRWRKATGLGWLTAEYAM 70
>1ah9_A IF1, initiation factor 1; ribosome binding, protein-RNA
interaction, OB fold; NMR {Escherichia coli} SCOP:
b.40.4.5
Length = 71
Score = 24.1 bits (53), Expect = 6.5
Identities = 6/18 (33%), Positives = 12/18 (66%)
Query: 54 KVAQETSKYNFTSGKIIY 71
KV E + Y+ + G+I++
Sbjct: 51 KVTVELTPYDLSKGRIVF 68
>1y88_A Hypothetical protein AF1548; APC5567, structural genomics, protein
structure INIT PSI, midwest center for structural
genomics center, MCSG; 1.85A {Archaeoglobus fulgidus}
SCOP: a.60.4.3 c.52.1.30
Length = 199
Score = 25.0 bits (54), Expect = 6.8
Identities = 7/42 (16%), Positives = 15/42 (35%), Gaps = 1/42 (2%)
Query: 17 ITIGDKSRAILQRLYGNNIILAANEVGRRPPTFLDASKVAQE 58
ITI + +L L ++ +V L ++ +
Sbjct: 143 ITILRIDKEVLDELVRAGLVF-CRDVVSAGEEKLREIGLSAK 183
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
0.314 0.128 0.358
Gapped
Lambda K H
0.267 0.0735 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,526,386
Number of extensions: 74594
Number of successful extensions: 129
Number of sequences better than 10.0: 1
Number of HSP's gapped: 123
Number of HSP's successfully gapped: 19
Length of query: 112
Length of database: 6,701,793
Length adjustment: 76
Effective length of query: 36
Effective length of database: 4,579,797
Effective search space: 164872692
Effective search space used: 164872692
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)