RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780616|ref|YP_003065029.1| F0F1 ATP synthase subunit
gamma [Candidatus Liberibacter asiaticus str. psy62]
(294 letters)
>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* 3oe7_G*
Length = 278
Score = 219 bits (560), Expect = 4e-58
Identities = 74/290 (25%), Positives = 136/290 (46%), Gaps = 16/290 (5%)
Query: 3 SLKEFKSRIHSVKETQKITEAMQLISVTKLRRAKEAIQNASSYQFHIKDFFMKCVVGEHF 62
+LKE + R+ S+K +KIT+ M++++ T+L +A++A +A D +
Sbjct: 2 TLKEVEMRLKSIKNIEKITKTMKIVASTRLSKAEKAKISAKKM-----DEAEQLFYKNAE 56
Query: 63 QEYPSPFVRGTGKDKVYLLVICTAEKGLCGGFNAQIIRFARDRIKEFIAEGKEIKLLIIG 122
+ TG K ++ I T++KGLCG ++Q+ + R + + ++ IG
Sbjct: 57 TKNLDVEATETGAPKELIVAI-TSDKGLCGSIHSQLAKAVRRHLNDQ----PNADIVTIG 111
Query: 123 RKGYEGLRKEFSSMIIDSIELSSKKGVDFVQAHGIARQITSLFTSNVFDLCFFIYSEFKS 182
K L + + I SI K F ++ IA ++ S+ + + Y++ S
Sbjct: 112 DKIKMQLLRTHPNNIKLSINGIGKDAPTFQESALIADKLLSVMKAGTYPKISIFYNDPVS 171
Query: 183 IIQQIPIISKIIPVDWSQDLEQKQQDILSVYRYESTLYSVLDDIVLRSISSRVFWIILEN 242
+ P I + +Q T +V D+ ++++++ + +
Sbjct: 172 SLSFEPSEKPIFN------AKTIEQSPSFGKFEIDTDANVPRDLFEYTLANQMLTAMAQG 225
Query: 243 KASEVGARITAMDNATRNAGQMVDNLVLSYNRQRQMRITTELIEIIAGAE 292
A+E+ AR AMDNA++NAG M++ + YNR RQ IT EL++II GA
Sbjct: 226 YAAEISARRNAMDNASKNAGDMINRYSILYNRTRQAVITNELVDIITGAS 275
>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 = 218 bits (556), Expect = 1e-57
Identities = 73/292 (25%), Positives = 134/292 (45%), Gaps = 16/292 (5%)
Query: 1 MTSLKEFKSRIHSVKETQKITEAMQLISVTKLRRAKEAIQNASSYQFHIKDFFMKCVVGE 60
+LKE + R+ S+K +KIT+ M++++ T+L +A++A +A D +
Sbjct: 33 YATLKEVEMRLKSIKNIEKITKTMKIVASTRLSKAEKAKISAKKM-----DEAEQLFYKN 87
Query: 61 HFQEYPSPFVRGTGKDKVYLLVICTAEKGLCGGFNAQIIRFARDRIKEFIAEGKEIKLLI 120
+ TG K ++ I T++KGLCG ++Q+ + R + + ++
Sbjct: 88 AETKNLDVEATETGAPKELIVAI-TSDKGLCGSIHSQLAKAVRRHLNDQ----PNADIVT 142
Query: 121 IGRKGYEGLRKEFSSMIIDSIELSSKKGVDFVQAHGIARQITSLFTSNVFDLCFFIYSEF 180
IG K L + + I SI K F ++ IA ++ S+ + + Y++
Sbjct: 143 IGDKIKMQLLRTHPNNIKLSINGIGKDAPTFQESALIADKLLSVMKAGTYPKISIFYNDP 202
Query: 181 KSIIQQIPIISKIIPVDWSQDLEQKQQDILSVYRYESTLYSVLDDIVLRSISSRVFWIIL 240
S + P I + T +V D+ ++++++ +
Sbjct: 203 VSSLSFEPSEKPIFNAKTIEQSPSFG------KFEIDTDANVPRDLFEYTLANQMLTAMA 256
Query: 241 ENKASEVGARITAMDNATRNAGQMVDNLVLSYNRQRQMRITTELIEIIAGAE 292
+ A+E+ AR AMDNA++NAG M++ + YNR RQ IT EL++II GA
Sbjct: 257 QGYAAEISARRNAMDNASKNAGDMINRYSILYNRTRQAVITNELVDIITGAS 308
>2qe7_G ATP synthase subunit gamma; blockage of ATP hydrolysis, F1-ATPase,
single particle analysis, thermoalkaliphilic, hydrolase;
3.06A {Bacillus SP}
Length = 286
Score = 198 bits (503), Expect = 2e-51
Identities = 95/292 (32%), Positives = 153/292 (52%), Gaps = 9/292 (3%)
Query: 1 MTSLKEFKSRIHSVKETQKITEAMQLISVTKLRRAKEAIQNASSYQFHIKDFFMKCVVGE 60
M ++E K RI SVK T++IT+AM++++ KLRRA+E +NA Y IK+ G
Sbjct: 1 MQGMREIKRRIRSVKNTRQITKAMKMVAAAKLRRAQETAENARPYADKIKEVISSIAAGT 60
Query: 61 HFQEYPSPFVRGTGKDKVYLLVICTAEKGLCGGFNAQIIRFARDRIKEFIAEGKEIKLLI 120
++ P + K ++ T+++GL G +NA I+R I+E E +
Sbjct: 61 K--DFSHPMLEARPVKKT-GYMVITSDRGLAGPYNANILRLVSKTIEERHQSKDEYVIFA 117
Query: 121 IGRKGYEGLRKEFSSMIIDSIELSSKKGVDFVQAHGIARQITSLFTSNVFDLCFFIYSEF 180
+GRKG + +K ++ + +S + IA+ +F FD Y+EF
Sbjct: 118 VGRKGRDFFKKRGYPVVEEVTGISDTP--SLTEIQDIAQSAIGMFADETFDKLTIFYNEF 175
Query: 181 KSIIQQIPIISKIIPVDWSQDLEQKQQDILSVYRYESTLYSVLDDIVLRSISSRVFWIIL 240
S I Q P+ +++P+ + L+ Y YE SVL+ ++ + + ++ +L
Sbjct: 176 VSPIVQRPVEKQLLPLTSEEVLDGPVSA----YEYEPDSESVLEVLLPKYAETLIYSALL 231
Query: 241 ENKASEVGARITAMDNATRNAGQMVDNLVLSYNRQRQMRITTELIEIIAGAE 292
+ KASE GAR+TAM NAT NA +M++ L L +NR RQ IT E+ EI+AGA
Sbjct: 232 DAKASEFGARMTAMGNATDNATEMLETLTLQFNRARQAAITQEIAEIVAGAN 283
>2hld_G ATP synthase gamma chain, mitochondrial; ATP phosphorylase (H+
transporting), F1FO, F1- ATPase, hydrolase; HET: ANP;
2.80A {Saccharomyces cerevisiae} PDB: 3fks_G
Length = 278
Score = 185 bits (470), Expect = 9e-48
Identities = 74/290 (25%), Positives = 137/290 (47%), Gaps = 16/290 (5%)
Query: 3 SLKEFKSRIHSVKETQKITEAMQLISVTKLRRAKEAIQNASSYQFHIKDFFMKCVVGEHF 62
+LKE + R+ S+K +KIT+ M++++ T+L +A++A +A D +
Sbjct: 2 TLKEVEMRLKSIKNIEKITKTMKIVASTRLSKAEKAKISAKKM-----DEAEQLFYKNAE 56
Query: 63 QEYPSPFVRGTGKDKVYLLVICTAEKGLCGGFNAQIIRFARDRIKEFIAEGKEIKLLIIG 122
+ TG K L+V T++KGLCG ++Q+ + ++ + + ++ IG
Sbjct: 57 TKNLDVEATETGAPKE-LIVAITSDKGLCGSIHSQLAKA----VRRHLNDQPNADIVTIG 111
Query: 123 RKGYEGLRKEFSSMIIDSIELSSKKGVDFVQAHGIARQITSLFTSNVFDLCFFIYSEFKS 182
K L + + I SI K F ++ IA ++ S+ + + Y++ S
Sbjct: 112 DKIKMQLLRTHPNNIKLSINGIGKDAPTFQESALIADKLLSVMKAGTYPKISIFYNDPVS 171
Query: 183 IIQQIPIISKIIPVDWSQDLEQKQQDILSVYRYESTLYSVLDDIVLRSISSRVFWIILEN 242
+ P I + +Q T +V D+ ++++++ + +
Sbjct: 172 SLSFEPSEKPIFN------AKTIEQSPSFGKFEIDTDANVPRDLFEYTLANQMLTAMAQG 225
Query: 243 KASEVGARITAMDNATRNAGQMVDNLVLSYNRQRQMRITTELIEIIAGAE 292
A+E+ AR AMDNA++NAG M++ + YNR RQ IT EL++II GA
Sbjct: 226 YAAEISARRNAMDNASKNAGDMINRYSILYNRTRQAVITNELVDIITGAS 275
>2ck3_G ATP synthase gamma chain; ATP phosphorylase, ATP phosphorylase (H+
transporting), F1FO ATP synthase, F1-ATPase, hydrolase,
ATP synthesis; 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* 2w6j_G 2w6e_G
2w6g_G ...
Length = 272
Score = 175 bits (445), Expect = 9e-45
Identities = 77/290 (26%), Positives = 139/290 (47%), Gaps = 21/290 (7%)
Query: 3 SLKEFKSRIHSVKETQKITEAMQLISVTKLRRAKEAIQNASSYQFHIKDFFMKCVVGEHF 62
+LK+ R+ S+K QKIT++M++++ K RA+ ++ A Y
Sbjct: 2 TLKDITRRLKSIKNIQKITKSMKMVAAAKYARAERELKPARVYGVGSLAL---------- 51
Query: 63 QEYPSPFVRGTGKDKVYLLVICTAEKGLCGGFNAQIIRFARDRIKEFIAEGKEIKLLIIG 122
Y ++ K +L++ ++++GLCG ++ + + + A GKE+K++ +G
Sbjct: 52 --YEKADIKTPEDKKKHLIIGVSSDRGLCGAIHSSVAKQMKSEAANLAAAGKEVKIIGVG 109
Query: 123 RKGYEGLRKEFSSMIIDSIELSSKKGVDFVQAHGIARQITSLFTSNVFDLCFFIYSEFKS 182
K L + S + + + ++ F A IA ++ + FD I++ F+S
Sbjct: 110 DKIRSILHRTHSDQFLVTFKEVGRRPPTFGDASVIALELL--NSGYEFDEGSIIFNRFRS 167
Query: 183 IIQQIPIISKIIPVDWSQDLEQKQQDILSVYRYESTLYSVLDDIVLRSISSRVFWIILEN 242
+I I +D E L + S+++ +++ + E+
Sbjct: 168 VISYKTEEKPIFSLDTISSAESMSIYDDIDADV-------LRNYQEYSLANIIYYSLKES 220
Query: 243 KASEVGARITAMDNATRNAGQMVDNLVLSYNRQRQMRITTELIEIIAGAE 292
SE AR+TAMDNA++NA +M+D L L++NR RQ IT ELIEII+GA
Sbjct: 221 TTSEQSARMTAMDNASKNASEMIDKLTLTFNRTRQAVITKELIEIISGAA 270
>1fs0_G ATP synthase gamma subunit; coiled coil, epsilon, hydrolase; 2.10A
{Escherichia coli} SCOP: c.49.2.1
Length = 230
Score = 156 bits (396), Expect = 5e-39
Identities = 55/236 (23%), Positives = 116/236 (49%), Gaps = 7/236 (2%)
Query: 19 KITEAMQLISVTKLRRAKEAIQNASSYQFHIKDFFMKCVVGEHFQEYPSPFVRGTGKDKV 78
KIT+AM++++ +K+R++++ + + Y ++ + EY P++ +V
Sbjct: 1 KITKAMEMVAASKMRKSQDRMAASRPYAETMRKVIGH--LAHGNLEYKHPYLEDRDVKRV 58
Query: 79 YLLVICTAEKGLCGGFNAQIIRFARDRIKEFIAEGKEIKLLIIGRKGYEGLRKEFSSMII 138
LV+ + ++GLCGG N + + +K + +G + L +IG KG +++
Sbjct: 59 GYLVV-STDRGLCGGLNINLFKKLLAEMKTWTDKGVQCDLAMIGSKGVSFFNSVGGNVVA 117
Query: 139 DSIELSSKKGVDFVQAHGIARQITSLFTSNVFDLCFFIYSEFKSIIQQIPIISKIIPVDW 198
+ + G + + + D + + ++F + + Q+P IS+++P+
Sbjct: 118 QVTGMGDNPSLSE--LIGPVKVMLQAYDEGRLDKLYIVSNKFINTMSQVPTISQLLPLPA 175
Query: 199 SQDLEQKQQDILSVYRYESTLYSVLDDIVLRSISSRVFWIILENKASEVGARITAM 254
S D + K + Y YE ++LD ++ R + S+V+ ++EN ASE AR+ AM
Sbjct: 176 SDDDDLKHKS--WDYLYEPDPKALLDTLLRRYVESQVYQGVVENLASEQAARMVAM 229
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 39.2 bits (91), Expect = 0.001
Identities = 61/344 (17%), Positives = 108/344 (31%), Gaps = 162/344 (47%)
Query: 5 KEFKSRI-----HSVKETQKITEAMQLISVTKLRRAKEAIQNASSY-QFH--IKD----- 51
E +S + HS Q + A+ AI S+ F ++
Sbjct: 261 GELRSYLKGATGHS----QGLVTAV-------------AIAETDSWESFFVSVRKAITVL 303
Query: 52 FFM--KCVVGEHFQEYP----SPFVRGTGKDKV--------YLLVICTAEKGLCGGFNAQ 97
FF+ +C + + YP P + +D + +L I L
Sbjct: 304 FFIGVRC----Y-EAYPNTSLPPSIL---EDSLENNEGVPSPMLSI----SNL------- 344
Query: 98 IIRFARDRIKEFIA-------EGKEIKL-LIIGRK-----G-----YEG----LRKEFSS 135
++++++++ GK++++ L+ G K G Y G LRK +
Sbjct: 345 ----TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLY-GLNLTLRKAKAP 399
Query: 136 MIIDS--IELSSKK----------GVDFVQAHG----IARQI--TSLFTSNVF----DLC 173
+D I S +K F H A + L +NV D+
Sbjct: 400 SGLDQSRIPFSERKLKFSNRFLPVASPF---HSHLLVPASDLINKDLVKNNVSFNAKDIQ 456
Query: 174 FFIYSEF---------KSIIQQIPIISKII--PVDWSQDLEQKQQDILSVYRYESTLYSV 222
+Y F SI ++I + II PV W + +++T +
Sbjct: 457 IPVYDTFDGSDLRVLSGSISERI--VDCIIRLPVKWETTTQ-----------FKAT--HI 501
Query: 223 LD----------DIVLRSIS---SRVFWIIL-----ENKASEVG 248
LD + R+ RV I+ N + G
Sbjct: 502 LDFGPGGASGLGVLTHRNKDGTGVRV---IVAGTLDINPDDDYG 542
Score = 35.3 bits (81), Expect = 0.017
Identities = 41/181 (22%), Positives = 78/181 (43%), Gaps = 28/181 (15%)
Query: 122 GRKGYEGLRKEFSSMIIDSI---ELSSKKGVDFVQAHGIA---RQITSLFTSNVFDLCFF 175
G KG + +R+ +S+MI ++I +L ++K + H + R L ++ F
Sbjct: 1678 GEKG-KRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPAL 1736
Query: 176 IYSEFKSIIQQIPIISK-IIPVDWSQDLEQKQQDILSVYRYESTLYSVLDDIVLRSISSR 234
E K+ + + SK +IP D + S+ Y + L S+ D + + S+
Sbjct: 1737 TLME-KAAFEDLK--SKGLIPADATFAGH-------SLGEY-AALASLADVMSIESLVEV 1785
Query: 235 VFWIILENKAS----EVGARITAMDNATRNAGQMVDNL---VLSYNRQRQMRITTELIEI 287
VF+ + + + E+G M N G++ + L Y +R + T L+EI
Sbjct: 1786 VFYRGMTMQVAVPRDELGRSNYGM--IAINPGRVAASFSQEALQYVVERVGKRTGWLVEI 1843
Query: 288 I 288
+
Sbjct: 1844 V 1844
>3hno_A Pyrophosphate-dependent phosphofructokinase; structural genomics,
PSI-2, protein structure initiative; 2.00A {Nitrosospira
multiformis atcc 25196} PDB: 3k2q_A
Length = 419
Score = 30.0 bits (67), Expect = 0.57
Identities = 12/81 (14%), Positives = 21/81 (25%), Gaps = 12/81 (14%)
Query: 89 GLCGGFNAQIIRFARDRIKEFIAEGKEIKLLIIGRKGYEGLRKEFSSMIIDSIELSSKKG 148
G+ NA I+ + +I + GR G G E D I+ +
Sbjct: 13 GVTAVINASA----AGVIEAARKQSGKIGRIYAGRNGIIGALTE------DLIDTGQESD 62
Query: 149 VDFVQAHGIARQITSLFTSNV 169
+ +
Sbjct: 63 AAISALRY--TPSGAFGSCRY 81
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.4 bits (62), Expect = 2.0
Identities = 10/37 (27%), Positives = 20/37 (54%), Gaps = 7/37 (18%)
Query: 179 EFKSIIQQIPIISKIIPVDWSQ----DLE---QKQQD 208
E + +Q++ SK++ +W + DLE Q+Q +
Sbjct: 93 EQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSE 129
>1x3a_A Synapse associated protein 1; BSD domain, homolog of the drosophila
SAP47, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: a.240.1.1
Length = 100
Score = 27.4 bits (61), Expect = 4.3
Identities = 14/70 (20%), Positives = 29/70 (41%), Gaps = 9/70 (12%)
Query: 177 YSEFKSIIQQIPIISK---------IIPVDWSQDLEQKQQDILSVYRYESTLYSVLDDIV 227
++ ++I QQI +S V ++ D +Q L + + + L + +V
Sbjct: 8 TNDEETIQQQILALSADKRNFLRDPPAGVQFNFDFDQMYPVALVMLQEDELLSKMRFALV 67
Query: 228 LRSISSRVFW 237
+ + VFW
Sbjct: 68 PKLVKEEVFW 77
>1cjx_A 4-hydroxyphenylpyruvate dioxygenase; oxidoreductase, iron; 2.40A
{Pseudomonas fluorescens} SCOP: d.32.1.3 d.32.1.3
Length = 357
Score = 27.3 bits (60), Expect = 4.9
Identities = 12/84 (14%), Positives = 30/84 (35%), Gaps = 4/84 (4%)
Query: 96 AQIIRFARDRIKEFIAEGKE--IKLLIIGRKGYEGLRKEFSSMIIDSIELSSKKG--VDF 151
Q + F D + + K+ ++ + Y + + + ++ +G +D
Sbjct: 238 IQHVAFLTDDLVKTWDALKKIGMRFMTAPPDTYYEMLEGRLPDHGEPVDQLQARGILLDG 297
Query: 152 VQAHGIARQITSLFTSNVFDLCFF 175
G R + +F+ + FF
Sbjct: 298 SSVEGDKRLLLQIFSETLMGPVFF 321
>3ikm_A DNA polymerase subunit gamma-1; human mitochondrial DNA polymerase,
disease mutation, DNA replication, DNA-binding,
DNA-directed DNA polymerase; HET: DNA; 3.24A {Homo
sapiens}
Length = 1172
Score = 26.4 bits (58), Expect = 6.9
Identities = 29/161 (18%), Positives = 51/161 (31%), Gaps = 25/161 (15%)
Query: 1 MTSLKEFKSRIHSVKETQKITEAMQLISVTKLRRAKEAIQNASSYQFHIKDFFMKCVVGE 60
L +F R+ + +E + A Q+ + TK R + + G
Sbjct: 896 ERLLMQFNHRL-TQQEAAEK--AQQMYAATKGLRWYRLSDEGEWLVRELNLPVDRTEGGW 952
Query: 61 HFQEYPSPFVRGTGKDKVYLLVICTAEKGLCGG-----FNAQIIRFARDRIKEFIAEGKE 115
+ R T + + AE+ GG FN E IA
Sbjct: 953 ISLQDLRKVQRETARKSQWKKWEVVAERAWKGGTESEMFNKL----------ESIATSDI 1002
Query: 116 IKLLIIGRKGYEGLR-----KEFSSMIIDSIELSSKKGVDF 151
+ ++G L +EF + ++ + SS VD+
Sbjct: 1003 PRTPVLGCCISRALEPSAVQEEFMTSRVNWVVQSS--AVDY 1041
>3k44_A Purine-rich binding protein-alpha, isoform B; PUR-alpha, PUR
repeat, PUR domain, whirly fold, DNA binding protein,
RNA binding protein; 2.10A {Drosophila melanogaster}
Length = 146
Score = 26.3 bits (58), Expect = 8.1
Identities = 10/65 (15%), Positives = 21/65 (32%), Gaps = 12/65 (18%)
Query: 73 TGKDKVYLLVICTAEKGLCGGFNAQIIRFARDRIKEFIAEGKEIKLLIIGRKGYEGLRKE 132
+ Y L + +G RF R + + I G + + +G R
Sbjct: 88 IKDYRRYYLDLKENARG----------RFLR--VSQTITRGGPRSQIALPAQGMIEFRDA 135
Query: 133 FSSMI 137
+ ++
Sbjct: 136 LTDLL 140
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.323 0.137 0.381
Gapped
Lambda K H
0.267 0.0563 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,433,851
Number of extensions: 111032
Number of successful extensions: 337
Number of sequences better than 10.0: 1
Number of HSP's gapped: 322
Number of HSP's successfully gapped: 20
Length of query: 294
Length of database: 5,693,230
Length adjustment: 92
Effective length of query: 202
Effective length of database: 3,462,782
Effective search space: 699481964
Effective search space used: 699481964
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (25.7 bits)