RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11193
(340 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 = 116 bits (292), Expect = 5e-32
Identities = 35/122 (28%), Positives = 57/122 (46%), Gaps = 2/122 (1%)
Query: 111 FVALGAAYGTAKAGTGIAAMSVMRPELIMKSIIPVVMAGIIAIYGLVVAVLISGAVQEPV 170
F +G+A G G AA++ +PE +++I ++ G +YG V+A LI +
Sbjct: 25 FSGIGSAKGVGMTGEAAAALTTSQPEKFGQALILQLLPGTQGLYGFVIAFLIFINLGSD- 83
Query: 171 KYPAYKGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLG 230
+G LGA L + F+GL +G A G V AG++ A++P I+ E
Sbjct: 84 -MSVVQGLNFLGASLPIAFTGLFSGIAQGKVAAAGIQILAKKPEHATKGIIFAAMVETYA 142
Query: 231 PY 232
Sbjct: 143 IL 144
Score = 104 bits (262), Expect = 1e-27
Identities = 41/156 (26%), Positives = 65/156 (41%), Gaps = 29/156 (18%)
Query: 8 ALGAAYGTAKAGTGIAAMSVMRPELIMKSIIPVVMAGIIAIYGLVVAVLISGAVQEPVKY 67
+G+A G G AA++ +PE +++I ++ G +YG V+A LI +
Sbjct: 27 GIGSAKGVGMTGEAAAALTTSQPEKFGQALILQLLPGTQGLYGFVIAFLIFINLGSD--M 84
Query: 68 PAYKGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVALGAAYGTAKAGTGI 127
+G LGA L + F+GL +G A G V AG++ A++P
Sbjct: 85 SVVQGLNFLGASLPIAFTGLFSGIAQGKVAAAGIQILAKKPEHAT--------------- 129
Query: 128 AAMSVMRPELIMKSIIPVVMAGIIAIYGLVVAVLIS 163
K II M AI G V++ L+
Sbjct: 130 ------------KGIIFAAMVETYAILGFVISFLLV 153
>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 = 40.2 bits (93), Expect = 8e-04
Identities = 40/325 (12%), Positives = 87/325 (26%), Gaps = 115/325 (35%)
Query: 35 KSIIPVVMAGIIA------IYGLVVAVLISGAVQEPVKYP-------------------A 69
K I+ V + + + ++L + +
Sbjct: 19 KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM 78
Query: 70 YKGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFV-ALGAAYGTAKAGTGIA 128
+ F+ L + + L + R + R+++ Y + A
Sbjct: 79 VQKFV--EEVLRINYKFLMSPIK------TEQRQPSMMTRMYIEQRDRLYNDNQV---FA 127
Query: 129 AMSVMRPELIMK------SIIPVVMAGIIAIYGLVVAVLISGAVQEPVKYPAYKGFIHLG 182
+V R + +K + P A + I G+ LG
Sbjct: 128 KYNVSRLQPYLKLRQALLELRP---AKNVLIDGV------------------------LG 160
Query: 183 AGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGPYFLSLIKSCTT 242
+G +A Q ++ + ++L+L K+C +
Sbjct: 161 SGKTW----VAL---------DVCLSYKVQCKMDFKI------------FWLNL-KNCNS 194
Query: 243 TFEYLLAISLFFHCLFP-----SNIIYNQSHEFSWVRD---RHFAKKKKQ----VL---K 287
L + + + P S+ N ++ R K + VL +
Sbjct: 195 PETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ 254
Query: 288 NPNISSYFHILWRMC-IIINMMDKS 311
N + F++ C I++ K
Sbjct: 255 NAKAWNAFNL---SCKILLTTRFKQ 276
Score = 32.1 bits (72), Expect = 0.33
Identities = 13/70 (18%), Positives = 27/70 (38%), Gaps = 19/70 (27%)
Query: 22 IAAMSVMRPELIMK------SIIPVVMAGIIAIYG--------LVVAVLISGAVQEPVKY 67
A +V R + +K + P A + I G + + V +S VQ + +
Sbjct: 126 FAKYNVSRLQPYLKLRQALLELRP---AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDF 182
Query: 68 PAYKGFIHLG 77
+ +++L
Sbjct: 183 KIF--WLNLK 190
>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 = 35.4 bits (82), Expect = 0.003
Identities = 19/63 (30%), Positives = 26/63 (41%), Gaps = 4/63 (6%)
Query: 176 KGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGP 231
+ A LAVG + G G V G A+QP ++ ++L L F E L
Sbjct: 7 TAASVIAAALAVGIGSIGPGLGQGQAAGQAVEGIARQPEAEGKIRGTLLLSLAFMEALTI 66
Query: 232 YFL 234
Y L
Sbjct: 67 YGL 69
Score = 33.9 bits (78), Expect = 0.009
Identities = 19/92 (20%), Positives = 31/92 (33%), Gaps = 23/92 (25%)
Query: 71 KGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVALGAAYGTAKAGTGIAAM 130
+ A LAVG + G G V G A+QP
Sbjct: 7 TAASVIAAALAVGIGSIGPGLGQGQAAGQAVEGIARQPE--------------------- 45
Query: 131 SVMRPELIMKSIIPVVMAGIIAIYGLVVAVLI 162
++ ++ + + IYGLVVA+++
Sbjct: 46 --AEGKIRGTLLLSLAFMEALTIYGLVVALVL 75
>1wu0_A ATP synthase C chain; ATPase, membrane protein, hydrogen ION
transport, hydrolase; NMR {Bacillus SP}
Length = 72
Score = 34.6 bits (80), Expect = 0.005
Identities = 17/60 (28%), Positives = 24/60 (40%), Gaps = 4/60 (6%)
Query: 177 GFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGPY 232
L A +AVG L AG G++ + G A+QP L M + + E L
Sbjct: 2 SLGVLAAAIAVGLGALGAGIGNGLIVSRTIEGIARQPELRPVLQTTMFIGVALVEALPII 61
Score = 33.1 bits (76), Expect = 0.013
Identities = 22/93 (23%), Positives = 33/93 (35%), Gaps = 23/93 (24%)
Query: 72 GFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVALGAAYGTAKAGTGIAAMS 131
L A +AVG L AG G++ + G A+QP
Sbjct: 2 SLGVLAAAIAVGLGALGAGIGNGLIVSRTIEGIARQPE---------------------- 39
Query: 132 VMRPELIMKSIIPVVMAGIIAIYGLVVAVLISG 164
+RP L I V + + I G+V + + G
Sbjct: 40 -LRPVLQTTMFIGVALVEALPIIGVVFSFIYLG 71
>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 = 37.0 bits (85), Expect = 0.009
Identities = 26/148 (17%), Positives = 40/148 (27%), Gaps = 75/148 (50%)
Query: 97 GDAGV-RGTA-QQPRLFVALGAAYGTAKAGTGIAAMSVMRPELIMKSIIPVVMAGIIAIY 154
+ G+ T QP L + AA ++ + G+I
Sbjct: 1721 SEKGLLSATQFTQPALTL------------MEKAAFEDLKSK------------GLI--- 1753
Query: 155 GLVVAVLISGAVQEPVKYPAYKGFIHLGAGLAVG-FSGLAAGFAIGIVGDAGV------- 206
PA F AG ++G ++ LA+ A V
Sbjct: 1754 ------------------PADATF----AGHSLGEYAALASL--------ADVMSIESLV 1783
Query: 207 -----RGTAQQ---PRLFVGMILILIFA 226
RG Q PR +G + A
Sbjct: 1784 EVVFYRGMTMQVAVPRDELGRSNYGMIA 1811
Score = 35.8 bits (82), Expect = 0.021
Identities = 23/139 (16%), Positives = 46/139 (33%), Gaps = 49/139 (35%)
Query: 50 GLVVAVLISGAVQEPVKYPAYKGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQ-- 107
GLV AV I+ +++ F + F I GVR +
Sbjct: 276 GLVTAVAIAET-------DSWESFFVSVR------KAITVLFFI------GVR--CYEAY 314
Query: 108 PRLFVALGAAYGTAKAGTGIAA-M-SV--MRPELIMKSI------IP------------- 144
P + + + G+ + M S+ + E + + +P
Sbjct: 315 PNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGA 374
Query: 145 --VVMAG-IIAIYGLVVAV 160
+V++G ++YGL + +
Sbjct: 375 KNLVVSGPPQSLYGLNLTL 393
Score = 30.4 bits (68), Expect = 1.0
Identities = 31/186 (16%), Positives = 51/186 (27%), Gaps = 77/186 (41%)
Query: 155 GLVVAVLISGAVQEPVKYPAYKGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQ-- 212
GLV AV I+ +++ F + F I GVR +
Sbjct: 276 GLVTAVAIAET-------DSWESFFVSVR------KAITVLFFI------GVR--CYEAY 314
Query: 213 PRLFVGMILILIFAE-----------VLGPYFLSLIKSCTTTFEYL-----LAISLF--- 253
P + ++ E + + T +L + ISL
Sbjct: 315 PNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGA 374
Query: 254 --------------FHCLF-----PSNIIYNQSH-EFSWVRDRHFAKKKKQVLKN---PN 290
+ PS + +QS FS ++K N P
Sbjct: 375 KNLVVSGPPQSLYGLNLTLRKAKAPSGL--DQSRIPFS---------ERKLKFSNRFLP- 422
Query: 291 ISSYFH 296
++S FH
Sbjct: 423 VASPFH 428
>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 = 31.7 bits (72), Expect = 0.043
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 181 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVL 229
LGA +A G + +A A+ I+ A + GT +QP L M + + AE +
Sbjct: 4 LGAAIAAGLAAVAGAIAVAIIVKATIEGTTRQPELRGTLQTLMFIGVPLAEAV 56
Score = 30.1 bits (68), Expect = 0.15
Identities = 14/35 (40%), Positives = 21/35 (60%)
Query: 76 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRL 110
LGA +A G + +A A+ I+ A + GT +QP L
Sbjct: 4 LGAAIAAGLAAVAGAIAVAIIVKATIEGTTRQPEL 38
>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 = 29.6 bits (67), Expect = 0.30
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 5/58 (8%)
Query: 181 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGPYFL 234
+GAG A+ +G+ G G V A+QP + M+L AE G Y L
Sbjct: 16 VGAGTAM-IAGIGPGVGQGYAAGKAVESVARQPEAKGDIISTMVLGQAVAESTGIYSL 72
Score = 28.1 bits (63), Expect = 1.3
Identities = 18/87 (20%), Positives = 33/87 (37%), Gaps = 24/87 (27%)
Query: 76 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVALGAAYGTAKAGTGIAAMSVMRP 135
+GAG A+ +G+ G G V A+QP +
Sbjct: 16 VGAGTAM-IAGIGPGVGQGYAAGKAVESVARQPE-----------------------AKG 51
Query: 136 ELIMKSIIPVVMAGIIAIYGLVVAVLI 162
++I ++ +A IY LV+A+++
Sbjct: 52 DIISTMVLGQAVAESTGIYSLVIALIL 78
>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 = 29.5 bits (66), Expect = 0.35
Identities = 13/43 (30%), Positives = 23/43 (53%)
Query: 72 GFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVAL 114
+++ A + +G + + A IGI+G + G A+QP L L
Sbjct: 7 DLLYMAAAVMMGLAAIGAAIGIGILGGKFLEGAARQPDLIPLL 49
Score = 29.5 bits (66), Expect = 0.36
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 177 GFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRL 215
+++ A + +G + + A IGI+G + G A+QP L
Sbjct: 7 DLLYMAAAVMMGLAAIGAAIGIGILGGKFLEGAARQPDL 45
>1uur_A Stata protein, STAT protein; transcription activator, SH2, signal
transduction, transducer, transcription factor; HET:
PTR; 2.7A {Dictyostelium discoideum} SCOP: a.47.1.1
b.2.5.5 d.93.1.1 PDB: 1uus_A*
Length = 473
Score = 30.7 bits (68), Expect = 0.67
Identities = 13/96 (13%), Positives = 28/96 (29%), Gaps = 3/96 (3%)
Query: 225 FAEVLGPYFLSLIKSCTTTFEYLLAISLFFHCLFPSNIIYNQSHEFSWVRDRHFAKKKKQ 284
F L +FL K + L+ + + F +
Sbjct: 278 FINTLQRHFLIATKQDPVRPKRPLSSYDL---KYIQTHFFGNRSIIHQQDFDKFWVWFGK 334
Query: 285 VLKNPNISSYFHILWRMCIIINMMDKSKHQRTMKNK 320
++ + LW+ II M + + ++N+
Sbjct: 335 SMQTLRYQRHISTLWQEGIIYGYMGRQEVNDALQNQ 370
>4dqz_A Methyltransferase type 12; ligase-activating, bacterial PNKP; 2.30A
{Clostridium thermocellum} PDB: 4drf_B 4e6n_B*
Length = 230
Score = 29.0 bits (65), Expect = 1.7
Identities = 10/31 (32%), Positives = 15/31 (48%), Gaps = 5/31 (16%)
Query: 2 SSLLENALGAAYGTAKAGTGIAAMSVMRPEL 32
SS + A+ +GTA +G +PEL
Sbjct: 86 SSFMSVAISRVFGTAMSGK-----CKEKPEL 111
>1qfj_A Protein (flavin reductase); riboflavin, ferredoxin reductase
superfami oxidoreductase; 2.20A {Escherichia coli} SCOP:
b.43.4.2 c.25.1.1
Length = 232
Score = 28.7 bits (65), Expect = 2.2
Identities = 10/47 (21%), Positives = 19/47 (40%), Gaps = 18/47 (38%)
Query: 97 GDAGVRGTAQQPRLFVALGAAYGTAKAGTGIAAMSVMRPELIMKSII 143
G+A +R ++P + +A GTG + +SI+
Sbjct: 93 GEAWLRDDEERPMILIA---------GGTGFSY---------ARSIL 121
>4av3_A K(+)-stimulated pyrophosphate-energized sodium PU; hydrolase,
membrane pyrophosphotase, ION pump; 2.60A {Thermotoga
maritima} PDB: 4av6_A
Length = 735
Score = 27.8 bits (62), Expect = 7.0
Identities = 26/157 (16%), Positives = 47/157 (29%), Gaps = 23/157 (14%)
Query: 45 IIAIYGLVVAVLISGAVQEPVKYPAYKGFIHLGAGLAVGF------SGLAAGFAIGIVGD 98
I +V+A+L+ I V F S A + +
Sbjct: 65 AIFKVAIVIAILL---------------MIFTTWQTGVAFLLGAVMSASAGIVGMKMATR 109
Query: 99 AGVRGTAQQPRLFVALGAAYGTAKAGTGIAAMSVMRPELIMKSIIPVVMAGIIAIYGLVV 158
A VR A+ R +G A A G + +SV L+ ++ ++ + +
Sbjct: 110 ANVR-VAEAARTTKKIGPALKVAYQGGSVMGLSVGGFALLGLVLVYLIFGKWMGQVDNLN 168
Query: 159 AVLISGAVQEPVKYPAYKGFIHLGAGLAVGFSGLAAG 195
+ G+ LG + F + G
Sbjct: 169 IYTNWLGINFVPFAMTVSGY-ALGCSIIAMFDRVGGG 204
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
0.327 0.142 0.421
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: 5,369,896
Number of extensions: 354512
Number of successful extensions: 1184
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1146
Number of HSP's successfully gapped: 55
Length of query: 340
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 246
Effective length of database: 4,077,219
Effective search space: 1002995874
Effective search space used: 1002995874
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 58 (26.2 bits)