RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1296
(283 letters)
>1okc_A ADP, ATP carrier protein heart isoform T1; mitochondrial
transporter, nucleotide translocation, membrane protein,
transport; HET: CXT CDL LDM PC1; 2.2A {Bos taurus} SCOP:
f.42.1.1 PDB: 2c3e_A*
Length = 297
Score = 115 bits (291), Expect = 7e-31
Identities = 51/269 (18%), Positives = 99/269 (36%), Gaps = 49/269 (18%)
Query: 1 EKIHPFQFFLAGGVGGALTVLVGHPFDTCKVRLQTANSKQPEYTASSFVGILYCTPIPLF 60
+ + + FLAGGV A++ P + K+ LQ ++ + + GI+
Sbjct: 3 QALSFLKDFLAGGVAAAISKTAVAPIERVKLLLQVQHASKQISAEKQYKGII-------- 54
Query: 61 YGRGEDSSFPILPSWWCRWSFNCFGMLDCVTKILQKEKIFGFYKGMGAPLVGVAPLNALN 120
DCV +I +++ F++G A ++ P ALN
Sbjct: 55 ---------------------------DCVVRIPKEQGFLSFWRGNLANVIRYFPTQALN 87
Query: 121 YFGYGTGLKFFTN---EKNMGQLELWQYFLSGSLGGIVTAALVAPGERIKCLLQVQ--EG 175
+ + F SG G + V P + + L +G
Sbjct: 88 FAFKDKYKQIFLGGVDRHKQFWRYFAGNLASGGAAGATSLCFVYPLDFARTRLAADVGKG 147
Query: 176 GLSNVYSGPVDVIRKLIQQHGLGSVFKGFSATLLRDVPAFGAYYAMYETVKHVFSGQGDS 235
++G + I K+ + GL +++GF+ ++ + AY+ +Y+T K + +
Sbjct: 148 AAQREFTGLGNCITKIFKSDGLRGLYQGFNVSVQGIIIYRAAYFGVYDTAKGMLPDPKNV 207
Query: 236 VIEVSDQTRKTTPLVGTITAGSMAG-ISY 263
I VS ++ ++AG +SY
Sbjct: 208 HIIVSW-------MIAQT-VTAVAGLVSY 228
Score = 108 bits (271), Expect = 6e-28
Identities = 44/222 (19%), Positives = 80/222 (36%), Gaps = 43/222 (19%)
Query: 9 FLAGGVGGALTVLVGHPFDTCKVRLQTANSKQPEYTASSFVGILYCTPIPLFYGRGEDSS 68
+GG GA ++ +P D + RL K
Sbjct: 116 LASGGAAGATSLCFVYPLDFARTRLAADVGKG-----------------------AAQRE 152
Query: 69 FPILPSWWCRWSFNCFGMLDCVTKILQKEKIFGFYKGMGAPLVGVAPLNALNYFGYGTGL 128
F G+ +C+TKI + + + G Y+G + G+ A + Y T
Sbjct: 153 FT--------------GLGNCITKIFKSDGLRGLYQGFNVSVQGIIIYRAAYFGVYDTAK 198
Query: 129 KFFTNEKNMGQLELWQYFLSGSLGGIVTAALVAPGERIKCLLQVQEG--GLSNVYSGPVD 186
+ KN+ + W + V + P + ++ + +Q G G +Y+G VD
Sbjct: 199 GMLPDPKNVHIIVSW---MIAQTVTAVAGLVSYPFDTVRRRMMMQSGRKGADIMYTGTVD 255
Query: 187 VIRKLIQQHGLGSVFKGFSATLLRDVPAFGAYYAMYETVKHV 228
RK+ + G + FKG + +LR + +Y+ +K
Sbjct: 256 CWRKIAKDEGPKAFFKGAWSNVLRGMGG-AFVLVLYDEIKKF 296
Score = 45.7 bits (109), Expect = 5e-06
Identities = 22/127 (17%), Positives = 36/127 (28%), Gaps = 44/127 (34%)
Query: 1 EKIHPFQFFLAGGVGGALTVLVGHPFDTCKVRLQT---ANSKQPEYTASSFVGILYCTPI 57
+ +H ++ A+ LV +PFDT + R+ YT
Sbjct: 205 KNVHIIVSWMIAQTVTAVAGLVSYPFDTVRRRMMMQSGRKGADIMYT------------- 251
Query: 58 PLFYGRGEDSSFPILPSWWCRWSFNCFGMLDCVTKILQKEKIFGFYKGMGAPLVGVAPLN 117
G +DC KI + E F+KG + ++
Sbjct: 252 ---------------------------GTVDCWRKIAKDEGPKAFFKGAWSNVLRGMG-G 283
Query: 118 ALNYFGY 124
A Y
Sbjct: 284 AFVLVLY 290
>2lck_A Mitochondrial uncoupling protein 2; membrane protein, proton
translocator, mitochondrial carrier transport protein,
structural genomics; NMR {Mus musculus}
Length = 303
Score = 113 bits (286), Expect = 4e-30
Identities = 51/264 (19%), Positives = 87/264 (32%), Gaps = 45/264 (17%)
Query: 9 FLAGGVGGALTVLVGHPFDTCKVRLQTANSKQPEYTASSFVGILYCTPIPLFYGRGEDSS 68
FL G + L+ P DT KVRLQ Q ++ Y
Sbjct: 5 FLGAGTAACIADLITFPLDTAKVRLQIQGESQGLVRTAA----------SAQYR------ 48
Query: 69 FPILPSWWCRWSFNCFGMLDCVTKILQKEKIFGFYKGMGAPLVGVAPLNALNYFGYGTGL 128
G+L + +++ E Y G+ A L ++ Y +
Sbjct: 49 ----------------GVLGTILTMVRTEGPRSLYNGLVAGLQRQMSFASVRIGLYDSVK 92
Query: 129 KFFTNEKNMGQLELWQYFLSGSLGGIVTAALVAPGERIKCLLQVQ-EGGLSNVYSGPVDV 187
+F+T + L+GS G + A+ P + +K Q Q G Y V+
Sbjct: 93 QFYTKGS--EHAGIGSRLLAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRRYQSTVEA 150
Query: 188 IRKLIQQHGLGSVFKGFSATLLRDVPAFGAYYAMYETVKHVFSGQGDSVIEVSDQTRKTT 247
+ + ++ G+ ++KG S + R+ A Y+ +K T
Sbjct: 151 YKTIAREEGIRGLWKGTSPNVARNAIVNCAELVTYDLIKDTLLKANL----------MTD 200
Query: 248 PLVGTITAGSMAGISYWIVVDSVD 271
L T+ AG ++ VD
Sbjct: 201 DLPCHFTSAFGAGFCTTVIASPVD 224
Score = 88.9 bits (221), Expect = 9e-21
Identities = 44/231 (19%), Positives = 66/231 (28%), Gaps = 46/231 (19%)
Query: 1 EKIHPFQFFLAGGVGGALTVLVGHPFDTCKVRLQT--ANSKQPEYTASSFVGILYCTPIP 58
E LAG GAL V V P D KVR Q Y
Sbjct: 100 EHAGIGSRLLAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRRYQ-------------- 145
Query: 59 LFYGRGEDSSFPILPSWWCRWSFNCFGMLDCVTKILQKEKIFGFYKGMGAPLVGVAPLNA 118
++ I ++E I G +KG + A +N
Sbjct: 146 --------------------------STVEAYKTIAREEGIRGLWKGTSPNVARNAIVNC 179
Query: 119 LNYFGYGTGLKFFTNEKNMGQLELWQYFLSGSLGGIVTAALVAPGERIKCLLQVQEGGLS 178
Y M +L +F S G T + +P + +K G
Sbjct: 180 AELVTYDLIKDTLLKANLMTD-DLPCHFTSAFGAGFCTTVIASPVDVVKTRYMNSALGQ- 237
Query: 179 NVYSGPVDVIRKLIQQHGLGSVFKGFSATLLRDVPAFGAYYAMYETVKHVF 229
Y ++++ G + +KGF + LR + YE +K
Sbjct: 238 --YHSAGHCALTMLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTYEQLKRAL 286
Score = 61.9 bits (151), Expect = 3e-11
Identities = 24/127 (18%), Positives = 44/127 (34%), Gaps = 18/127 (14%)
Query: 142 LWQYFLSGSLGGIVTAALVAPGERIKCLLQVQ-------EGGLSNVYSGPVDVIRKLIQQ 194
+ FL + + P + K LQ+Q S Y G + I +++
Sbjct: 1 MTVKFLGAGTAACIADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRT 60
Query: 195 HGLGSVFKGFSATLLRDVPAFGAYYAMYETVKHVFSGQGDSVIEVSDQTRKTTPLVGTIT 254
G S++ G A L R + +Y++VK ++ + + +
Sbjct: 61 EGPRSLYNGLVAGLQRQMSFASVRIGLYDSVKQFYTKGS-----------EHAGIGSRLL 109
Query: 255 AGSMAGI 261
AGS G
Sbjct: 110 AGSTTGA 116
>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 = 45.0 bits (106), Expect = 2e-05
Identities = 37/196 (18%), Positives = 62/196 (31%), Gaps = 53/196 (27%)
Query: 56 PIPLFYGRGEDSSFPILPSWWCRWSFNCFGMLDCVTKILQKEKIFGFYKGMGAPLVGVAP 115
P+ L +G E + + + S LQ++ F K + P G A
Sbjct: 8 PLTLSHGSLE-HVLLVPTASFFIAS------------QLQEQ----FNKILPEPTEGFAA 50
Query: 116 LN--------ALNYFGYGTGLKFFTNEKNMGQLE-----LWQYFLSGSLGG--IVTAALV 160
+ + GY + +GQ + F + L G I A
Sbjct: 51 DDEPTTPAELVGKFLGY---VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAK 107
Query: 161 APGERIKCLLQVQEGGLSNVYSGPVDVIRKLIQQHGLGSVFKGFSATLLRDVPAFGA-YY 219
E L++ +E + N + + R ++ SA L R V A
Sbjct: 108 LLQENDTTLVKTKEL-IKNYITARIMAKRPFDKKSN--------SA-LFRAVGEGNAQLV 157
Query: 220 AMYETVKHVFSGQGDS 235
A +F GQG++
Sbjct: 158 A-------IFGGQGNT 166
Score = 35.0 bits (80), Expect = 0.028
Identities = 47/212 (22%), Positives = 68/212 (32%), Gaps = 73/212 (34%)
Query: 103 YKGMGAPLVGVAPL------NALNYFG--YG-TGLKFFTNEKNMGQLELWQYFLSGSLGG 153
+GMG L + A N+F YG + L N N L + +F GG
Sbjct: 1628 EQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVIN--NPVNLTI--HF-----GG 1678
Query: 154 IVTAALVAPGERIKCLLQVQEGGLSNVYSGPVD------VIRKLIQQHGLGSVFKGFSAT 207
G+RI+ E + ++ VD I K I +H F+
Sbjct: 1679 -------EKGKRIR------ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRS-EKG 1724
Query: 208 LLRDV----PA-FGAYYAMYETVKHVFSGQGDSVIEVSDQTRKTTPLVGTITAG------ 256
LL PA A +E +K D+ AG
Sbjct: 1725 LLSATQFTQPALTLMEKAAFEDLKSKGLIPADATF-----------------AGHSLGEY 1767
Query: 257 ----SMAG-ISYWIVVDSVDRRGESMYIVEAV 283
S+A +S +V+ V RG +M AV
Sbjct: 1768 AALASLADVMSIESLVEVVFYRGMTMQ--VAV 1797
Score = 33.1 bits (75), Expect = 0.13
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 17/60 (28%)
Query: 109 PLVGVAPLNALNY--FGYGTGLKFFTNEKNMGQLELWQYFLSGSLG---GIVTAALVAPG 163
PL+GV L +Y G G+L + +L G+ G G+VTA +A
Sbjct: 239 PLIGVIQL--AHYVVTAKLLGF-------TPGEL---RSYLKGATGHSQGLVTAVAIAET 286
Score = 31.2 bits (70), Expect = 0.51
Identities = 30/151 (19%), Positives = 52/151 (34%), Gaps = 50/151 (33%)
Query: 42 EYTA-SSFVGILYCTPIP-----LFYGRGE--DSSFPILPSWWCRWSFNCFGMLDC---- 89
EY A +S ++ I +FY RG + P + +GM+
Sbjct: 1766 EYAALASLADVM---SIESLVEVVFY-RGMTMQVAVPRDEL-----GRSNYGMIAINPGR 1816
Query: 90 VTKILQKEKIFGFYKGMGAP---LVGVAPLNALNYFGYGTGLKFFTNEKNMGQLELWQYF 146
V +E + + +G LV + NY N +N QY
Sbjct: 1817 VAASFSQEALQYVVERVGKRTGWLVEIV-----NY-----------NVENQ------QYV 1854
Query: 147 LSGSLGGI--VTAALVAPGER-IKCLLQVQE 174
+G L + VT L + I ++++Q+
Sbjct: 1855 AAGDLRALDTVTNVLNFIKLQKID-IIELQK 1884
>3k2z_A LEXA repressor; winged helix-turn-helix, SOS system, autoca
cleavage, DNA damage, DNA repair, DNA replication,
DNA-BIND hydrolase; 1.37A {Thermotoga maritima}
Length = 196
Score = 29.4 bits (67), Expect = 1.1
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 237 IEVSDQTRKTTPLVGTITAGS 257
+ +S R PL+G I AG
Sbjct: 64 LRISKSIRNKIPLIGEIRAGE 84
>2je6_A RRP42, exosome complex exonuclease 2; nuclease, hydrolase,
exonuclease, phosphorolytic, exoribonuclease, RNA
degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus}
SCOP: d.14.1.4 d.101.1.1 PDB: 2jea_A* 2jeb_A* 2br2_A
2c37_A* 2c38_A* 2c39_A* 3l7z_A
Length = 277
Score = 28.5 bits (64), Expect = 2.4
Identities = 11/60 (18%), Positives = 24/60 (40%)
Query: 209 LRDVPAFGAYYAMYETVKHVFSGQGDSVIEVSDQTRKTTPLVGTITAGSMAGISYWIVVD 268
+ D + A+Y T + + + ++ PL + S+A + ++VVD
Sbjct: 155 VLDACTLASVAALYNTKVYKVEQHSNGISVNKNEVVGKLPLNYPVVTISVAKVDKYLVVD 214
>3tgu_G UQCRQ, mitochondrial ubiquinol-cytochrome C reductase UB binding
protein QP-C; cytochrome BC1, membrane protein, heme
protein, rieske iron protein; HET: HEM WF3 UQ CDL PEE
HEC BOG; 2.70A {Gallus gallus} PDB: 3cwb_G* 3h1i_G*
3h1h_G* 3h1k_G* 3h1l_G* 3h1j_G* 3l71_G* 3l72_G* 3l73_G*
3l74_G* 3l75_G* 3l70_G*
Length = 81
Score = 26.7 bits (59), Expect = 2.9
Identities = 9/35 (25%), Positives = 16/35 (45%)
Query: 195 HGLGSVFKGFSATLLRDVPAFGAYYAMYETVKHVF 229
L +V++ FS+ + + P F Y +Y F
Sbjct: 32 DALPNVWRRFSSQVFKVAPPFLGAYLLYSWGTQEF 66
>1l8r_A Dachshund; winged-helix, transcription; 1.65A {Homo sapiens} SCOP:
a.6.1.4
Length = 101
Score = 26.6 bits (58), Expect = 4.5
Identities = 12/43 (27%), Positives = 18/43 (41%)
Query: 151 LGGIVTAALVAPGERIKCLLQVQEGGLSNVYSGPVDVIRKLIQ 193
L G A+ G + CL Q + L ++ G V KL +
Sbjct: 12 LRGAKVASFTVEGCELICLPQAFDLFLKHLVGGLHTVYTKLKR 54
>1pp9_G Ubiquinol-cytochrome C reductase complex ubiquino protein QP-C;
cytochrome BC1, membrane protein, heme protein, rieske
iron protein, cytochrome B, complex III; HET: BHG HEM
HEC SMA UQ CDL PEE; 2.10A {Bos taurus} SCOP: f.23.13.1
PDB: 1bgy_G* 1be3_G* 1l0n_G* 1ntk_G* 1ntm_G* 1ntz_G*
1nu1_G* 1l0l_G* 1ppj_G* 1sqb_G* 1sqp_G* 1sqq_G* 1sqv_G*
1sqx_G* 2a06_G* 2fyu_G* 2ybb_G* 1bcc_G* 2bcc_G* 3bcc_G*
...
Length = 81
Score = 26.0 bits (57), Expect = 4.9
Identities = 11/35 (31%), Positives = 17/35 (48%)
Query: 195 HGLGSVFKGFSATLLRDVPAFGAYYAMYETVKHVF 229
G+ +V + A +LR P F A+Y +Y F
Sbjct: 32 KGIPNVLRRTRACILRVAPPFVAFYLVYTWGTQEF 66
>4fqd_A NIKO protein; beta/alpha inverse barrel, enolpyruvyl transferase,
fosfomyc binding, transferase; 2.50A {Streptomyces
tendae}
Length = 479
Score = 27.6 bits (62), Expect = 5.4
Identities = 13/77 (16%), Positives = 22/77 (28%), Gaps = 17/77 (22%)
Query: 154 IVTAALVAPGERIKCLLQVQEGGLSNVYSGP----VDVIRKLIQQHGLGSVFKGFSATLL 209
V AA A + N P V+ ++ + G + + G T
Sbjct: 40 TVAAAATASAPVR----------IENC---PDIVETAVLGEIFRAAGAHAHYDGADETFT 86
Query: 210 RDVPAFGAYYAMYETVK 226
D A+ + V
Sbjct: 87 VDASAWDRAELPADLVG 103
>1q5f_A PILS, type IVB pilin; alpha-beta roll, monomer, cell adhesion; NMR
{Salmonella typhi} SCOP: d.24.1.1 PDB: 3fhu_A 3fhv_A*
Length = 156
Score = 26.9 bits (58), Expect = 6.3
Identities = 15/71 (21%), Positives = 22/71 (30%), Gaps = 1/71 (1%)
Query: 132 TNEKNMGQLELWQYFLSG-SLGGIVTAALVAPGERIKCLLQVQEGGLSNVYSGPVDVIRK 190
TN M + F SG + + A A G + L N + G + V
Sbjct: 19 TNTIGMMKGVDGYAFTSGAKMTDTLIQAGAAKGMTVSGDPASGSATLWNSWGGQIVVAPD 78
Query: 191 LIQQHGLGSVF 201
G + F
Sbjct: 79 TAGGTGFNNGF 89
>2po1_B Probable exosome complex exonuclease 2; RNAse PH,
hydrolase/hydrolase/RNA complex; 1.94A {Pyrococcus
abyssi} PDB: 2po0_B* 2pnz_B 2po2_B*
Length = 277
Score = 27.0 bits (60), Expect = 6.6
Identities = 10/60 (16%), Positives = 18/60 (30%)
Query: 209 LRDVPAFGAYYAMYETVKHVFSGQGDSVIEVSDQTRKTTPLVGTITAGSMAGISYWIVVD 268
L D A A+ ++ + + P+ + A I +VVD
Sbjct: 152 LMDAIGIAAIAALLNARVPKVRYNEETGEVETLDETEPLPVEKIPVPVTFAKIGNILVVD 211
>1dnp_A DNA photolyase; DNA repair, electron transfer, excitation energy
transfer, carbon-carbon, lyase (carbon-carbon); HET: DNA
FAD MHF; 2.30A {Escherichia coli} SCOP: a.99.1.1
c.28.1.1
Length = 471
Score = 27.1 bits (61), Expect = 7.9
Identities = 4/32 (12%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 170 LQVQEGGLSNVYSGPVDVIRKLIQQHGLGSVF 201
L +E + + V++++++ ++ + +F
Sbjct: 72 LLFREV---DDFVASVEIVKQVCAENSVTHLF 100
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
0.323 0.141 0.440
Gapped
Lambda K H
0.267 0.0781 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,385,744
Number of extensions: 256768
Number of successful extensions: 482
Number of sequences better than 10.0: 1
Number of HSP's gapped: 469
Number of HSP's successfully gapped: 27
Length of query: 283
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 191
Effective length of database: 4,133,061
Effective search space: 789414651
Effective search space used: 789414651
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 (21.9 bits)
S2: 57 (25.6 bits)