BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy9406
(312 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1EFV|A Chain A, Three-Dimensional Structure Of Human Electron Transfer
Flavoprotein To 2.1 A Resolution
Length = 315
Score = 305 bits (782), Expect = 2e-83, Method: Compositional matrix adjust.
Identities = 159/311 (51%), Positives = 211/311 (67%), Gaps = 4/311 (1%)
Query: 4 LVIAEHDNSYLKTSTLNTITAATLCSDEIHILIIGYNIEKVILDAKKVNNIKKILLVDSL 63
LVIAEH N L TLNTITAAT E+ L+ G +KV D KV I K+L+
Sbjct: 5 LVIAEHANDSLAPITLNTITAATRLGGEVSCLVAGTKCDKVAQDLCKVAGIAKVLVAQHD 64
Query: 64 YFSNNLPENIAAQISVIAS--NYSHILAPATIYGKNILPRVAALLNVMQISEITKVCNPS 121
+ LPE + I NY+HI A A+ +GKN+LPRVAA L V IS+I + +P
Sbjct: 65 VYKGLLPEELTPLILATQKQFNYTHICAGASAFGKNLLPRVAAKLEVAPISDIIAIKSPD 124
Query: 122 TFERPIYSGRIIATVQSTDIIKVITVRATNFISAKKEGNKAIIHIISKINYFSNTASIFI 181
TF R IY+G + TV+ + +KV +VR T+F +A G A S + S ++
Sbjct: 125 TFVRTIYAGNALCTVKCDEKVKVFSVRGTSFDAAATSGGSASSEKASSTSPVE--ISEWL 182
Query: 182 SRELIKSKRPELTSAKIVVAGGRGLGSSKNFKILEGLADKLNAAIGASRAAVDAGYISNN 241
++L KS RPELT AK+VV+GGRGL S +NFK+L LAD+L+AA+GASRAAVDAG++ N+
Sbjct: 183 DQKLTKSDRPELTGAKVVVSGGRGLKSGENFKLLYDLADQLHAAVGASRAAVDAGFVPND 242
Query: 242 LQIGQTGKIVAPQLYIAIGISGAIQHLSGMKDSKIIVAINQDEDAPIFDISDYGLVGDLF 301
+Q+GQTGKIVAP+LYIA+GISGAIQHL+GMKDSK IVAIN+D +APIF ++DYG+V DLF
Sbjct: 243 MQVGQTGKIVAPELYIAVGISGAIQHLAGMKDSKTIVAINKDPEAPIFQVADYGIVADLF 302
Query: 302 EIIPKFIKYLN 312
+++P+ + L
Sbjct: 303 KVVPEMTEILK 313
>pdb|1T9G|R Chain R, Structure Of The Human Mcad:etf Complex
pdb|2A1T|R Chain R, Structure Of The Human Mcad:etf E165betaa Complex
pdb|2A1U|A Chain A, Crystal Structure Of The Human Etf E165betaa Mutant
Length = 333
Score = 305 bits (781), Expect = 2e-83, Method: Compositional matrix adjust.
Identities = 159/311 (51%), Positives = 211/311 (67%), Gaps = 4/311 (1%)
Query: 4 LVIAEHDNSYLKTSTLNTITAATLCSDEIHILIIGYNIEKVILDAKKVNNIKKILLVDSL 63
LVIAEH N L TLNTITAAT E+ L+ G +KV D KV I K+L+
Sbjct: 23 LVIAEHANDSLAPITLNTITAATRLGGEVSCLVAGTKCDKVAQDLCKVAGIAKVLVAQHD 82
Query: 64 YFSNNLPENIAAQISVIAS--NYSHILAPATIYGKNILPRVAALLNVMQISEITKVCNPS 121
+ LPE + I NY+HI A A+ +GKN+LPRVAA L V IS+I + +P
Sbjct: 83 VYKGLLPEELTPLILATQKQFNYTHICAGASAFGKNLLPRVAAKLEVAPISDIIAIKSPD 142
Query: 122 TFERPIYSGRIIATVQSTDIIKVITVRATNFISAKKEGNKAIIHIISKINYFSNTASIFI 181
TF R IY+G + TV+ + +KV +VR T+F +A G A S + S ++
Sbjct: 143 TFVRTIYAGNALCTVKCDEKVKVFSVRGTSFDAAATSGGSASSEKASSTSPVE--ISEWL 200
Query: 182 SRELIKSKRPELTSAKIVVAGGRGLGSSKNFKILEGLADKLNAAIGASRAAVDAGYISNN 241
++L KS RPELT AK+VV+GGRGL S +NFK+L LAD+L+AA+GASRAAVDAG++ N+
Sbjct: 201 DQKLTKSDRPELTGAKVVVSGGRGLKSGENFKLLYDLADQLHAAVGASRAAVDAGFVPND 260
Query: 242 LQIGQTGKIVAPQLYIAIGISGAIQHLSGMKDSKIIVAINQDEDAPIFDISDYGLVGDLF 301
+Q+GQTGKIVAP+LYIA+GISGAIQHL+GMKDSK IVAIN+D +APIF ++DYG+V DLF
Sbjct: 261 MQVGQTGKIVAPELYIAVGISGAIQHLAGMKDSKTIVAINKDPEAPIFQVADYGIVADLF 320
Query: 302 EIIPKFIKYLN 312
+++P+ + L
Sbjct: 321 KVVPEMTEILK 331
>pdb|1EFP|A Chain A, Electron Transfer Flavoprotein (Etf) From Paracoccus
Denitrificans
pdb|1EFP|C Chain C, Electron Transfer Flavoprotein (Etf) From Paracoccus
Denitrificans
Length = 307
Score = 289 bits (739), Expect = 2e-78, Method: Compositional matrix adjust.
Identities = 137/258 (53%), Positives = 189/258 (73%), Gaps = 3/258 (1%)
Query: 54 IKKILLVDSLYFSNNLPENIAAQISVIASNYSHILAPATIYGKNILPRVAALLNVMQISE 113
+ K+L+ + + + L E AA I +A +YSHI APAT KN++PRVAALL+VM +S+
Sbjct: 53 VAKVLVAEDALYGHRLAEPTAALIVGLAGDYSHIAAPATTDAKNVMPRVAALLDVMVLSD 112
Query: 114 ITKVCNPSTFERPIYSGRIIATVQSTDIIKVITVRATNFISAKKEGNKAIIHIISKINYF 173
++ + + TFERPIY+G I V+S D KV T+R +F +A + G + + +
Sbjct: 113 VSAILDADTFERPIYAGNAIQVVKSKDAKKVFTIRTASFDAAGEGGTAPVTETAAAAD-- 170
Query: 174 SNTASIFISRELIKSKRPELTSAKIVVAGGRGLGSSKNFKILEGLADKLNAAIGASRAAV 233
S +++ E+ +S RPELTSA+ VV+GGRGLGS ++F I+E LADKL AA+GASRAAV
Sbjct: 171 -PGLSSWVADEVAESDRPELTSARRVVSGGRGLGSKESFAIIEELADKLGAAVGASRAAV 229
Query: 234 DAGYISNNLQIGQTGKIVAPQLYIAIGISGAIQHLSGMKDSKIIVAINQDEDAPIFDISD 293
D+GY N+ Q+GQTGK+VAP+LY+A+GISGAIQHL+GMKDSK+IVAIN+DE+APIF I+D
Sbjct: 230 DSGYAPNDWQVGQTGKVVAPELYVAVGISGAIQHLAGMKDSKVIVAINKDEEAPIFQIAD 289
Query: 294 YGLVGDLFEIIPKFIKYL 311
YGLVGDLF ++P+ L
Sbjct: 290 YGLVGDLFSVVPELTGKL 307
>pdb|1O94|D Chain D, Ternary Complex Between Trimethylamine Dehydrogenase And
Electron Transferring Flavoprotein
pdb|1O94|F Chain F, Ternary Complex Between Trimethylamine Dehydrogenase And
Electron Transferring Flavoprotein
pdb|1O95|D Chain D, Ternary Complex Between Trimethylamine Dehydrogenase And
Electron Transferring Flavoprotein
pdb|1O95|F Chain F, Ternary Complex Between Trimethylamine Dehydrogenase And
Electron Transferring Flavoprotein
pdb|1O96|B Chain B, Structure Of Electron Transferring Flavoprotein For
Methylophilus Methylotrophus.
pdb|1O96|D Chain D, Structure Of Electron Transferring Flavoprotein For
Methylophilus Methylotrophus.
pdb|1O96|F Chain F, Structure Of Electron Transferring Flavoprotein For
Methylophilus Methylotrophus.
pdb|1O96|Z Chain Z, Structure Of Electron Transferring Flavoprotein For
Methylophilus Methylotrophus.
pdb|1O97|D Chain D, Structure Of Electron Transferring Flavoprotein From
Methylophilus Methylotrophus, Recognition Loop Removed
By Limited Proteolysis
Length = 320
Score = 103 bits (256), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 88/322 (27%), Positives = 163/322 (50%), Gaps = 37/322 (11%)
Query: 4 LVIAEHDNSYLKTSTLNTITAAT----LCSDEIHILIIGYNIEKVILDAKKVNNIKKILL 59
LVIAEH + L+ +L I AA D++ + +IG + + A VN + ++++
Sbjct: 4 LVIAEHRRNDLRPVSLELIGAANGLKKSGEDKVVVAVIGSQADAFV-PALSVNGVDELVV 62
Query: 60 V--DSLYFSNNLPENIAAQISVI--ASNYSHILAPATI----YGKNILPRV----AALLN 107
V S+ F P+ A +S + A N S +L P ++ Y ++ + A +
Sbjct: 63 VKGSSIDFD---PDVFEASVSALIAAHNPSVVLLPHSVDSLGYASSLASKTGYGFATDVY 119
Query: 108 VMQISEITKVCNPSTFERPI-----YSGRIIATVQSTDIIKVITVRATNFISAKKEGNKA 162
+++ V + + + + G+ +TV V+T+R + F + G+
Sbjct: 120 IVEYQGDELVATRGGYNQKVNVEVDFPGK--STV-------VLTIRPSVFKPLEGAGSPV 170
Query: 163 IIHIISKINYFSNTASIFISRELIKSKRPELTSAKIVVAGGRGLGSSKNFKILEGLADKL 222
+ ++ + + ++ E+ ++T+ +++ GRG+G N + LAD+
Sbjct: 171 VSNVDAPSVQSRSQNKDYV--EVGGGNDIDITTVDFIMSIGRGIGEETNVEQFRELADEA 228
Query: 223 NAAIGASRAAVDAGYISNNLQIGQTGKIVAP-QLYIAIGISGAIQHLSGMKDSKIIVAIN 281
A + SR DAG++ + Q+GQ+GK+V +LY+A+GISG+IQH++GMK I+A+N
Sbjct: 229 GATLCCSRPIADAGWLPKSRQVGQSGKVVGSCKLYVAMGISGSIQHMAGMKHVPTIIAVN 288
Query: 282 QDEDAPIFDISDYGLVGDLFEI 303
D A IF I+ YG+V D+F+I
Sbjct: 289 TDPGASIFTIAKYGIVADIFDI 310
>pdb|3CLU|D Chain D, Crystal Structure Of The R236k Mutant From Methylophilus
Methylotrophus Etf
Length = 321
Score = 101 bits (252), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 87/322 (27%), Positives = 163/322 (50%), Gaps = 37/322 (11%)
Query: 4 LVIAEHDNSYLKTSTLNTITAAT----LCSDEIHILIIGYNIEKVILDAKKVNNIKKILL 59
LVIAEH + L+ +L I AA D++ + +IG + + A VN + ++++
Sbjct: 5 LVIAEHRRNDLRPVSLELIGAANGLKKSGEDKVVVAVIGSQADAFV-PALSVNGVDELVV 63
Query: 60 V--DSLYFSNNLPENIAAQISVI--ASNYSHILAPATI----YGKNILPRV----AALLN 107
V S+ F P+ A +S + A N S +L P ++ Y ++ + A +
Sbjct: 64 VKGSSIDFD---PDVFEASVSALIAAHNPSVVLLPHSVDSLGYASSLASKTGYGFATDVY 120
Query: 108 VMQISEITKVCNPSTFERPI-----YSGRIIATVQSTDIIKVITVRATNFISAKKEGNKA 162
+++ V + + + + G+ +TV V+T+R + F + G+
Sbjct: 121 IVEYQGDELVATRGGYNQKVNVEVDFPGK--STV-------VLTIRPSVFKPLEGAGSPV 171
Query: 163 IIHIISKINYFSNTASIFISRELIKSKRPELTSAKIVVAGGRGLGSSKNFKILEGLADKL 222
+ ++ + + ++ E+ ++T+ +++ GRG+G N + LAD+
Sbjct: 172 VSNVDAPSVQSRSQNKDYV--EVGGGNDIDITTVDFIMSIGRGIGEETNVEQFRELADEA 229
Query: 223 NAAIGASRAAVDAGYISNNLQIGQTGKIVAP-QLYIAIGISGAIQHLSGMKDSKIIVAIN 281
A + S+ DAG++ + Q+GQ+GK+V +LY+A+GISG+IQH++GMK I+A+N
Sbjct: 230 GATLCCSKPIADAGWLPKSRQVGQSGKVVGSCKLYVAMGISGSIQHMAGMKHVPTIIAVN 289
Query: 282 QDEDAPIFDISDYGLVGDLFEI 303
D A IF I+ YG+V D+F+I
Sbjct: 290 TDPGASIFTIAKYGIVADIFDI 311
>pdb|3CLT|D Chain D, Crystal Structure Of The R236e Mutant Of Methylophilus
Methylotrophus Etf
Length = 321
Score = 100 bits (250), Expect = 8e-22, Method: Compositional matrix adjust.
Identities = 87/322 (27%), Positives = 162/322 (50%), Gaps = 37/322 (11%)
Query: 4 LVIAEHDNSYLKTSTLNTITAAT----LCSDEIHILIIGYNIEKVILDAKKVNNIKKILL 59
LVIAEH + L+ +L I AA D++ + +IG + + A VN + ++++
Sbjct: 5 LVIAEHRRNDLRPVSLELIGAANGLKKSGEDKVVVAVIGSQADAFV-PALSVNGVDELVV 63
Query: 60 V--DSLYFSNNLPENIAAQISVI--ASNYSHILAPATI----YGKNILPRV----AALLN 107
V S+ F P+ A +S + A N S +L P ++ Y ++ + A +
Sbjct: 64 VKGSSIDFD---PDVFEASVSALIAAHNPSVVLLPHSVDSLGYASSLASKTGYGFATDVY 120
Query: 108 VMQISEITKVCNPSTFERPI-----YSGRIIATVQSTDIIKVITVRATNFISAKKEGNKA 162
+++ V + + + + G+ +TV V+T+R + F + G+
Sbjct: 121 IVEYQGDELVATRGGYNQKVNVEVDFPGK--STV-------VLTIRPSVFKPLEGAGSPV 171
Query: 163 IIHIISKINYFSNTASIFISRELIKSKRPELTSAKIVVAGGRGLGSSKNFKILEGLADKL 222
+ ++ + + ++ E+ ++T+ +++ GRG+G N + LAD+
Sbjct: 172 VSNVDAPSVQSRSQNKDYV--EVGGGNDIDITTVDFIMSIGRGIGEETNVEQFRELADEA 229
Query: 223 NAAIGASRAAVDAGYISNNLQIGQTGKIVAP-QLYIAIGISGAIQHLSGMKDSKIIVAIN 281
A + S DAG++ + Q+GQ+GK+V +LY+A+GISG+IQH++GMK I+A+N
Sbjct: 230 GATLCCSEPIADAGWLPKSRQVGQSGKVVGSCKLYVAMGISGSIQHMAGMKHVPTIIAVN 289
Query: 282 QDEDAPIFDISDYGLVGDLFEI 303
D A IF I+ YG+V D+F+I
Sbjct: 290 TDPGASIFTIAKYGIVADIFDI 311
>pdb|3CLR|D Chain D, Crystal Structure Of The R236a Etf Mutant From M.
Methylotrophus
Length = 321
Score = 99.8 bits (247), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 87/322 (27%), Positives = 162/322 (50%), Gaps = 37/322 (11%)
Query: 4 LVIAEHDNSYLKTSTLNTITAAT----LCSDEIHILIIGYNIEKVILDAKKVNNIKKILL 59
LVIAEH + L+ +L I AA D++ + +IG + + A VN + ++++
Sbjct: 5 LVIAEHRRNDLRPVSLELIGAANGLKKSGEDKVVVAVIGSQADAFV-PALSVNGVDELVV 63
Query: 60 V--DSLYFSNNLPENIAAQISVI--ASNYSHILAPATI----YGKNILPRV----AALLN 107
V S+ F P+ A +S + A N S +L P ++ Y ++ + A +
Sbjct: 64 VKGSSIDFD---PDVFEASVSALIAAHNPSVVLLPHSVDSLGYASSLASKTGYGFATDVY 120
Query: 108 VMQISEITKVCNPSTFERPI-----YSGRIIATVQSTDIIKVITVRATNFISAKKEGNKA 162
+++ V + + + + G+ +TV V+T+R + F + G+
Sbjct: 121 IVEYQGDELVATRGGYNQKVNVEVDFPGK--STV-------VLTIRPSVFKPLEGAGSPV 171
Query: 163 IIHIISKINYFSNTASIFISRELIKSKRPELTSAKIVVAGGRGLGSSKNFKILEGLADKL 222
+ ++ + + ++ E+ ++T+ +++ GRG+G N + LAD+
Sbjct: 172 VSNVDAPSVQSRSQNKDYV--EVGGGNDIDITTVDFIMSIGRGIGEETNVEQFRELADEA 229
Query: 223 NAAIGASRAAVDAGYISNNLQIGQTGKIVAP-QLYIAIGISGAIQHLSGMKDSKIIVAIN 281
A + S DAG++ + Q+GQ+GK+V +LY+A+GISG+IQH++GMK I+A+N
Sbjct: 230 GATLCCSAPIADAGWLPKSRQVGQSGKVVGSCKLYVAMGISGSIQHMAGMKHVPTIIAVN 289
Query: 282 QDEDAPIFDISDYGLVGDLFEI 303
D A IF I+ YG+V D+F+I
Sbjct: 290 TDPGASIFTIAKYGIVADIFDI 311
>pdb|3CLS|D Chain D, Crystal Structure Of The R236c Mutant Of Etf From
Methylophilus Methylotrophus
Length = 321
Score = 99.8 bits (247), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 87/322 (27%), Positives = 162/322 (50%), Gaps = 37/322 (11%)
Query: 4 LVIAEHDNSYLKTSTLNTITAAT----LCSDEIHILIIGYNIEKVILDAKKVNNIKKILL 59
LVIAEH + L+ +L I AA D++ + +IG + + A VN + ++++
Sbjct: 5 LVIAEHRRNDLRPVSLELIGAANGLKKSGEDKVVVAVIGSQADAFV-PALSVNGVDELVV 63
Query: 60 V--DSLYFSNNLPENIAAQISVI--ASNYSHILAPATI----YGKNILPRV----AALLN 107
V S+ F P+ A +S + A N S +L P ++ Y ++ + A +
Sbjct: 64 VKGSSIDFD---PDVFEASVSALIAAHNPSVVLLPHSVDSLGYASSLASKTGYGFATDVY 120
Query: 108 VMQISEITKVCNPSTFERPI-----YSGRIIATVQSTDIIKVITVRATNFISAKKEGNKA 162
+++ V + + + + G+ +TV V+T+R + F + G+
Sbjct: 121 IVEYQGDELVATRGGYNQKVNVEVDFPGK--STV-------VLTIRPSVFKPLEGAGSPV 171
Query: 163 IIHIISKINYFSNTASIFISRELIKSKRPELTSAKIVVAGGRGLGSSKNFKILEGLADKL 222
+ ++ + + ++ E+ ++T+ +++ GRG+G N + LAD+
Sbjct: 172 VSNVDAPSVQSRSQNKDYV--EVGGGNDIDITTVDFIMSIGRGIGEETNVEQFRELADEA 229
Query: 223 NAAIGASRAAVDAGYISNNLQIGQTGKIVAP-QLYIAIGISGAIQHLSGMKDSKIIVAIN 281
A + S DAG++ + Q+GQ+GK+V +LY+A+GISG+IQH++GMK I+A+N
Sbjct: 230 GATLCCSCPIADAGWLPKSRQVGQSGKVVGSCKLYVAMGISGSIQHMAGMKHVPTIIAVN 289
Query: 282 QDEDAPIFDISDYGLVGDLFEI 303
D A IF I+ YG+V D+F+I
Sbjct: 290 TDPGASIFTIAKYGIVADIFDI 311
>pdb|3VKW|A Chain A, Crystal Structure Of The Superfamily 1 Helicase From
Tomato Mosaic Virus
Length = 446
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 173 FSNTASIFISRELIKSKRPELTSAKIVVAGG-RGLGSSKN 211
+S+ A + R L+K P ++SAK+V+ G G G +K
Sbjct: 138 YSDMAKLRTLRRLLKDGEPHVSSAKVVLVDGVPGCGKTKE 177
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.136 0.368
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,232,398
Number of Sequences: 62578
Number of extensions: 320185
Number of successful extensions: 1010
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 985
Number of HSP's gapped (non-prelim): 23
length of query: 312
length of database: 14,973,337
effective HSP length: 99
effective length of query: 213
effective length of database: 8,778,115
effective search space: 1869738495
effective search space used: 1869738495
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)