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= psy1294
(105 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1N7D|A Chain A, Extracellular Domain Of The Ldl Receptor
Length = 699
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 34/69 (49%), Gaps = 5/69 (7%)
Query: 39 DVQCYDNR----TQACDSVADCDNMKDEKHCHTGTL-PVVLSLQCGSGETYTKEQHCNGV 93
+ QC D ++ CD DC +M DE C TL +C SGE T ++ CN
Sbjct: 219 EFQCSDGNCIHGSRQCDREYDCKDMSDEVGCVNVTLCEGPNKFKCHSGECITLDKVCNMA 278
Query: 94 LDCKDGSDE 102
DC+D SDE
Sbjct: 279 RDCRDWSDE 287
Score = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 50 CDSVADCDNMKDEKHCHTGTLPVVLSLQCGSGETYTKEQHCNGVLDCKDGSDEMHC 105
CD DCDN DE+ C T +C G+ +++ C+ DC DGSDE C
Sbjct: 68 CDGQVDCDNGSDEQGCPPKTCSQD-EFRCHDGKCISRQFVCDSDRDCLDGSDEASC 122
Score = 32.3 bits (72), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 50 CDSVADCDNMKDEKHCHTGTLPVVLSLQCGSGETYTKEQHCNGVLDCKDGSDEMHC 105
CD DC + DE++C T QC G + C+ DCKD SDE+ C
Sbjct: 195 CDGGPDCKDKSDEENCAVATCRPD-EFQCSDGNCIHGSRQCDREYDCKDMSDEVGC 249
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 28/66 (42%), Gaps = 9/66 (13%)
Query: 49 ACDSVADCDNMKDEKHCHTGTLPV---------VLSLQCGSGETYTKEQHCNGVLDCKDG 99
ACD+ DC++ DE L V C SGE C+G DCKD
Sbjct: 145 ACDNDPDCEDGSDEWPQRCRGLYVFQGDSSPCSAFEFHCLSGECIHSSWRCDGGPDCKDK 204
Query: 100 SDEMHC 105
SDE +C
Sbjct: 205 SDEENC 210
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 32/69 (46%), Gaps = 5/69 (7%)
Query: 39 DVQCYD----NRTQACDSVADCDNMKDEKHCHTGTLPVVLSLQCGSGETYTKEQHCNGVL 94
+ +C+D +R CDS DC + DE C T S QC S + C+
Sbjct: 92 EFRCHDGKCISRQFVCDSDRDCLDGSDEASCPVLTCGPA-SFQCNSSTCIPQLWACDNDP 150
Query: 95 DCKDGSDEM 103
DC+DGSDE
Sbjct: 151 DCEDGSDEW 159
Score = 25.4 bits (54), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 76 LQCGSGETYTKEQHCNGVLDCKDGSDE 102
QC G+ + + C+G +C+DGSDE
Sbjct: 11 FQCQDGKCISYKWVCDGSAECQDGSDE 37
>pdb|3M0C|C Chain C, The X-Ray Crystal Structure Of Pcsk9 In Complex With The
Ldl Receptor
Length = 791
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 34/69 (49%), Gaps = 5/69 (7%)
Query: 39 DVQCYDNR----TQACDSVADCDNMKDEKHCHTGTL-PVVLSLQCGSGETYTKEQHCNGV 93
+ QC D ++ CD DC +M DE C TL +C SGE T ++ CN
Sbjct: 237 EFQCSDGNCIHGSRQCDREYDCKDMSDEVGCVNVTLCEGPNKFKCHSGECITLDKVCNMA 296
Query: 94 LDCKDGSDE 102
DC+D SDE
Sbjct: 297 RDCRDWSDE 305
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 50 CDSVADCDNMKDEKHCHTGTLPVVLSLQCGSGETYTKEQHCNGVLDCKDGSDEMHC 105
CD DCDN DE+ C T +C G+ +++ C+ DC DGSDE C
Sbjct: 86 CDGQVDCDNGSDEQGCPPKTCSQD-EFRCHDGKCISRQFVCDSDRDCLDGSDEASC 140
Score = 32.3 bits (72), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 50 CDSVADCDNMKDEKHCHTGTLPVVLSLQCGSGETYTKEQHCNGVLDCKDGSDEMHC 105
CD DC + DE++C T QC G + C+ DCKD SDE+ C
Sbjct: 213 CDGGPDCKDKSDEENCAVATC-RPDEFQCSDGNCIHGSRQCDREYDCKDMSDEVGC 267
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 28/66 (42%), Gaps = 9/66 (13%)
Query: 49 ACDSVADCDNMKDEKHCHTGTLPV---------VLSLQCGSGETYTKEQHCNGVLDCKDG 99
ACD+ DC++ DE L V C SGE C+G DCKD
Sbjct: 163 ACDNDPDCEDGSDEWPQRCRGLYVFQGDSSPCSAFEFHCLSGECIHSSWRCDGGPDCKDK 222
Query: 100 SDEMHC 105
SDE +C
Sbjct: 223 SDEENC 228
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 32/69 (46%), Gaps = 5/69 (7%)
Query: 39 DVQCYD----NRTQACDSVADCDNMKDEKHCHTGTLPVVLSLQCGSGETYTKEQHCNGVL 94
+ +C+D +R CDS DC + DE C T S QC S + C+
Sbjct: 110 EFRCHDGKCISRQFVCDSDRDCLDGSDEASCPVLTCGPA-SFQCNSSTCIPQLWACDNDP 168
Query: 95 DCKDGSDEM 103
DC+DGSDE
Sbjct: 169 DCEDGSDEW 177
Score = 25.4 bits (54), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 76 LQCGSGETYTKEQHCNGVLDCKDGSDE 102
QC G+ + + C+G +C+DGSDE
Sbjct: 29 FQCQDGKCISYKWVCDGSAECQDGSDE 55
>pdb|2XRC|A Chain A, Human Complement Factor I
pdb|2XRC|B Chain B, Human Complement Factor I
pdb|2XRC|C Chain C, Human Complement Factor I
pdb|2XRC|D Chain D, Human Complement Factor I
Length = 565
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 30/66 (45%), Gaps = 9/66 (13%)
Query: 43 YDNRTQACDSVADCDNMKDE---KHCHTGTLPVVLSLQCGSGETYTKEQHCNGVLDCKDG 99
Y ++ +ACD + DC + DE K C C SG + CNG +DC G
Sbjct: 216 YISQMKACDGINDCGDQSDELCCKACQGK------GFHCKSGVCIPSQYQCNGEVDCITG 269
Query: 100 SDEMHC 105
DE+ C
Sbjct: 270 EDEVGC 275
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 76 LQCGSGETYTKEQHCNGVLDCKDGSDEMHC 105
QC +G+ ++ + C+G+ DC D SDE+ C
Sbjct: 209 FQCVNGKYISQMKACDGINDCGDQSDELCC 238
>pdb|2LGP|A Chain A, Solution Structure Of La45 From Ldlr
Length = 94
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 28/66 (42%), Gaps = 9/66 (13%)
Query: 49 ACDSVADCDNMKDEKHCHTGTLPV---------VLSLQCGSGETYTKEQHCNGVLDCKDG 99
ACD+ DC++ DE L V C SGE C+G DCKD
Sbjct: 25 ACDNDPDCEDGSDEWPQRCRGLYVFQGDSSPCSAFEFHCLSGECIHSSWRCDGGPDCKDK 84
Query: 100 SDEMHC 105
SDE +C
Sbjct: 85 SDEENC 90
>pdb|2FCW|B Chain B, Structure Of A Complex Between The Pair Of The Ldl
Receptor Ligand-Binding Modules 3-4 And The Receptor
Associated Protein (Rap)
Length = 80
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 32/69 (46%), Gaps = 5/69 (7%)
Query: 39 DVQCYD----NRTQACDSVADCDNMKDEKHCHTGTLPVVLSLQCGSGETYTKEQHCNGVL 94
+ +C+D +R CDS DC + DE C T S QC S + C+
Sbjct: 7 EFRCHDGKCISRQFVCDSDRDCLDGSDEASCPVLTCGPA-SFQCNSSTCIPQLWACDNDP 65
Query: 95 DCKDGSDEM 103
DC+DGSDE
Sbjct: 66 DCEDGSDEW 74
>pdb|2V4C|A Chain A, Structure Of Sialic Acid Binding Protein (Siap) In The
Presence Of Kdn
Length = 309
Score = 29.3 bits (64), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 10 NDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNR 46
N+ K+A FA E +SQGK+ +YP Q D+R
Sbjct: 16 NEYKAAEMFAKEVKE--KSQGKIEISLYPSSQLGDDR 50
>pdb|2P1B|A Chain A, Crystal Structure Of Human Nucleophosmin-Core
pdb|2P1B|B Chain B, Crystal Structure Of Human Nucleophosmin-Core
pdb|2P1B|C Chain C, Crystal Structure Of Human Nucleophosmin-Core
pdb|2P1B|D Chain D, Crystal Structure Of Human Nucleophosmin-Core
pdb|2P1B|E Chain E, Crystal Structure Of Human Nucleophosmin-Core
pdb|2P1B|F Chain F, Crystal Structure Of Human Nucleophosmin-Core
pdb|2P1B|G Chain G, Crystal Structure Of Human Nucleophosmin-Core
pdb|2P1B|H Chain H, Crystal Structure Of Human Nucleophosmin-Core
pdb|2P1B|I Chain I, Crystal Structure Of Human Nucleophosmin-Core
pdb|2P1B|J Chain J, Crystal Structure Of Human Nucleophosmin-Core
Length = 122
Score = 29.3 bits (64), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 15/25 (60%)
Query: 69 TLPVVLSLQCGSGETYTKEQHCNGV 93
T PVVL L+CGSG + QH V
Sbjct: 87 TPPVVLRLKCGSGPVHISGQHLVAV 111
>pdb|2XWI|A Chain A, Siap R147k Mutant In Complex With Neu5ac
Length = 308
Score = 29.3 bits (64), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 10 NDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNR 46
N+ K+A FA E +SQGK+ +YP Q D+R
Sbjct: 16 NEYKAAEMFAKEVKE--KSQGKIEISLYPSSQLGDDR 50
>pdb|2WYK|A Chain A, Siap In Complex With Neu5gc
Length = 308
Score = 29.3 bits (64), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 10 NDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNR 46
N+ K+A FA E +SQGK+ +YP Q D+R
Sbjct: 16 NEYKAAEMFAKEVKE--KSQGKIEISLYPSSQLGDDR 50
>pdb|2XWO|A Chain A, Siap R147e Mutant In Complex With Sialylamide
Length = 312
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 10 NDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNR 46
N+ K+A FA E +SQGK+ +YP Q D+R
Sbjct: 16 NEYKAAEMFAKEVKE--KSQGKIEISLYPSSQLGDDR 50
>pdb|2XWV|A Chain A, Siap Complex
Length = 312
Score = 29.3 bits (64), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 10 NDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNR 46
N+ K+A FA E +SQGK+ +YP Q D+R
Sbjct: 16 NEYKAAEMFAKEVKE--KSQGKIEISLYPSSQLGDDR 50
>pdb|2CEX|A Chain A, Structure Of A Sialic Acid Binding Protein (Siap) In The
Presence Of The Sialic Acid Acid Analogue Neu5ac2en
pdb|2CEX|B Chain B, Structure Of A Sialic Acid Binding Protein (Siap) In The
Presence Of The Sialic Acid Acid Analogue Neu5ac2en
pdb|2CEX|C Chain C, Structure Of A Sialic Acid Binding Protein (Siap) In The
Presence Of The Sialic Acid Acid Analogue Neu5ac2en
pdb|2CEX|D Chain D, Structure Of A Sialic Acid Binding Protein (Siap) In The
Presence Of The Sialic Acid Acid Analogue Neu5ac2en
pdb|2CEY|A Chain A, Apo Structure Of Siap
Length = 306
Score = 29.3 bits (64), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 10 NDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNR 46
N+ K+A FA E +SQGK+ +YP Q D+R
Sbjct: 16 NEYKAAEMFAKEVKE--KSQGKIEISLYPSSQLGDDR 50
>pdb|2XXK|A Chain A, Siap Complex
Length = 312
Score = 29.3 bits (64), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 10 NDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNR 46
N+ K+A FA E +SQGK+ +YP Q D+R
Sbjct: 16 NEYKAAEMFAKEVKE--KSQGKIEISLYPSSQLGDDR 50
>pdb|2WX9|A Chain A, Crystal Structure Of The Sialic Acid Binding Periplasmic
Protein Siap
pdb|2WYP|A Chain A, Crystal Structure Of Sialic Acid Binding Protein
pdb|2XA5|A Chain A, Structure Of Substrate Binding Protein Siap (A11n) In
Complex With Neu5ac
Length = 312
Score = 29.3 bits (64), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 10 NDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNR 46
N+ K+A FA E +SQGK+ +YP Q D+R
Sbjct: 16 NEYKAAEMFAKEVKE--KSQGKIEISLYPSSQLGDDR 50
>pdb|3B50|A Chain A, Structure Of H. Influenzae Sialic Acid Binding Protein
Bound To Neu5ac
Length = 310
Score = 29.3 bits (64), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 10 NDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNR 46
N+ K+A FA E +SQGK+ +YP Q D+R
Sbjct: 16 NEYKAAEMFAKEVKE--KSQGKIEISLYPSSQLGDDR 50
>pdb|2XWK|A Chain A, Siap R147a Mutant In Complex With Neu5ac
Length = 312
Score = 29.3 bits (64), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 10 NDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNR 46
N+ K+A FA E +SQGK+ +YP Q D+R
Sbjct: 16 NEYKAAEMFAKEVKE--KSQGKIEISLYPSSQLGDDR 50
>pdb|1XB9|A Chain A, The Structure And Function Of Xenopus No38-Core, A Histone
Chaperone In The Nucleolus
pdb|1XB9|B Chain B, The Structure And Function Of Xenopus No38-Core, A Histone
Chaperone In The Nucleolus
pdb|1XB9|C Chain C, The Structure And Function Of Xenopus No38-Core, A Histone
Chaperone In The Nucleolus
pdb|1XB9|D Chain D, The Structure And Function Of Xenopus No38-Core, A Histone
Chaperone In The Nucleolus
pdb|1XB9|E Chain E, The Structure And Function Of Xenopus No38-Core, A Histone
Chaperone In The Nucleolus
pdb|1XB9|F Chain F, The Structure And Function Of Xenopus No38-Core, A Histone
Chaperone In The Nucleolus
pdb|1XB9|G Chain G, The Structure And Function Of Xenopus No38-Core, A Histone
Chaperone In The Nucleolus
pdb|1XB9|H Chain H, The Structure And Function Of Xenopus No38-Core, A Histone
Chaperone In The Nucleolus
pdb|1XB9|I Chain I, The Structure And Function Of Xenopus No38-Core, A Histone
Chaperone In The Nucleolus
pdb|1XB9|J Chain J, The Structure And Function Of Xenopus No38-Core, A Histone
Chaperone In The Nucleolus
pdb|1XE0|A Chain A, The Structure And Function Of Xenopus No38-Core, A Histone
Binding Chaperone In The Nucleolus
pdb|1XE0|B Chain B, The Structure And Function Of Xenopus No38-Core, A Histone
Binding Chaperone In The Nucleolus
pdb|1XE0|C Chain C, The Structure And Function Of Xenopus No38-Core, A Histone
Binding Chaperone In The Nucleolus
pdb|1XE0|D Chain D, The Structure And Function Of Xenopus No38-Core, A Histone
Binding Chaperone In The Nucleolus
pdb|1XE0|E Chain E, The Structure And Function Of Xenopus No38-Core, A Histone
Binding Chaperone In The Nucleolus
pdb|1XE0|F Chain F, The Structure And Function Of Xenopus No38-Core, A Histone
Binding Chaperone In The Nucleolus
pdb|1XE0|G Chain G, The Structure And Function Of Xenopus No38-Core, A Histone
Binding Chaperone In The Nucleolus
pdb|1XE0|H Chain H, The Structure And Function Of Xenopus No38-Core, A Histone
Binding Chaperone In The Nucleolus
pdb|1XE0|I Chain I, The Structure And Function Of Xenopus No38-Core, A Histone
Binding Chaperone In The Nucleolus
pdb|1XE0|J Chain J, The Structure And Function Of Xenopus No38-Core, A Histone
Binding Chaperone In The Nucleolus
Length = 114
Score = 28.9 bits (63), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 69 TLPVVLSLQCGSGETYTKEQHCNGVLDC 96
T PV+L L+ GSG Y QH + D
Sbjct: 87 TPPVILRLKSGSGPVYVSGQHLVALEDL 114
>pdb|1AJJ|A Chain A, Ldl Receptor Ligand-Binding Module 5, Calcium-Coordinating
Length = 37
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 16/33 (48%)
Query: 73 VLSLQCGSGETYTKEQHCNGVLDCKDGSDEMHC 105
C SGE C+G DCKD SDE +C
Sbjct: 4 AFEFHCLSGECIHSSWRCDGGPDCKDKSDEENC 36
>pdb|3T5O|A Chain A, Crystal Structure Of Human Complement Component C6
pdb|4A5W|B Chain B, Crystal Structure Of C5b6
pdb|4E0S|B Chain B, Crystal Structure Of C5b-6
Length = 913
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 76 LQCGSGETYTKEQHCNGVLDCKDGSDEMHC 105
+C SG ++ CNG DC D SDE C
Sbjct: 123 FRCDSGRCIARKLECNGENDCGDNSDERDC 152
>pdb|3P5C|L Chain L, The Structure Of The LdlrPCSK9 COMPLEX REVEALS THE
RECEPTOR IN AN Extended Conformation
Length = 440
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 76 LQCGSGETYTKEQHCNGVLDCKDGSDE 102
+C SGE T ++ CN DC+D SDE
Sbjct: 7 FKCHSGECITLDKVCNMARDCRDWSDE 33
>pdb|2XOK|D Chain D, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A
Resolution
pdb|2XOK|E Chain E, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A
Resolution
pdb|2XOK|F Chain F, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A
Resolution
Length = 511
Score = 27.3 bits (59), Expect = 2.0, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 7 DLFNDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNRTQACDS 52
D D A+TFA S+G GIYP V D++++ D+
Sbjct: 348 DDLTDPAPATTFAHLDATTVLSRGISELGIYPAVDPLDSKSRLLDA 393
>pdb|4B2Q|E Chain E, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|F Chain F, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|EE Chain e, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|FF Chain f, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
Length = 473
Score = 27.3 bits (59), Expect = 2.0, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 7 DLFNDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNRTQACDS 52
D D A+TFA S+G GIYP V D++++ D+
Sbjct: 310 DDLTDPAPATTFAHLDATTVLSRGISELGIYPAVDPLDSKSRLLDA 355
>pdb|4B2Q|D Chain D, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|DD Chain d, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
Length = 470
Score = 27.3 bits (59), Expect = 2.0, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 7 DLFNDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNRTQACDS 52
D D A+TFA S+G GIYP V D++++ D+
Sbjct: 310 DDLTDPAPATTFAHLDATTVLSRGISELGIYPAVDPLDSKSRLLDA 355
>pdb|3OEH|D Chain D, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|E Chain E, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|F Chain F, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|M Chain M, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|N Chain N, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|O Chain O, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|V Chain V, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|W Chain W, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|X Chain X, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
Length = 484
Score = 27.3 bits (59), Expect = 2.0, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 7 DLFNDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNRTQACDS 52
D D A+TFA S+G GIYP V D++++ D+
Sbjct: 321 DDLTDPAPATTFAHLDATTVLSRGISELGIYPAVDPLDSKSRLLDA 366
>pdb|3FKS|D Chain D, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|E Chain E, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|F Chain F, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|M Chain M, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|N Chain N, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|O Chain O, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|V Chain V, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|W Chain W, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|X Chain X, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3OE7|D Chain D, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|E Chain E, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|F Chain F, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|M Chain M, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|N Chain N, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|O Chain O, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|V Chain V, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|W Chain W, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|X Chain X, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OEE|D Chain D, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|E Chain E, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|F Chain F, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|M Chain M, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|N Chain N, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|O Chain O, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|V Chain V, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|W Chain W, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|X Chain X, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OFN|D Chain D, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|E Chain E, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|F Chain F, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|M Chain M, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|N Chain N, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|O Chain O, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|V Chain V, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|W Chain W, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|X Chain X, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
Length = 484
Score = 27.3 bits (59), Expect = 2.0, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 7 DLFNDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNRTQACDS 52
D D A+TFA S+G GIYP V D++++ D+
Sbjct: 321 DDLTDPAPATTFAHLDATTVLSRGISELGIYPAVDPLDSKSRLLDA 366
>pdb|2HLD|D Chain D, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|E Chain E, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|F Chain F, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|M Chain M, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|N Chain N, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|O Chain O, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|V Chain V, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|W Chain W, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|X Chain X, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2WPD|D Chain D, The Mg.Adp Inhibited State Of The Yeast F1c10 Atp Synthase
pdb|2WPD|E Chain E, The Mg.Adp Inhibited State Of The Yeast F1c10 Atp Synthase
pdb|2WPD|F Chain F, The Mg.Adp Inhibited State Of The Yeast F1c10 Atp Synthase
pdb|3ZRY|D Chain D, Rotor Architecture In The F(1)-C(10)-Ring Complex Of The
Yeast F-Atp Synthase
pdb|3ZRY|E Chain E, Rotor Architecture In The F(1)-C(10)-Ring Complex Of The
Yeast F-Atp Synthase
pdb|3ZRY|F Chain F, Rotor Architecture In The F(1)-C(10)-Ring Complex Of The
Yeast F-Atp Synthase
pdb|3ZIA|D Chain D, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
pdb|3ZIA|E Chain E, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
pdb|3ZIA|F Chain F, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
pdb|3ZIA|N Chain N, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
pdb|3ZIA|O Chain O, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
pdb|3ZIA|P Chain P, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
Length = 478
Score = 27.3 bits (59), Expect = 2.0, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 7 DLFNDSKSASTFATTGVEWCQSQGKVMCGIYPDVQCYDNRTQACDS 52
D D A+TFA S+G GIYP V D++++ D+
Sbjct: 315 DDLTDPAPATTFAHLDATTVLSRGISELGIYPAVDPLDSKSRLLDA 360
>pdb|1JRF|A Chain A, Nmr Solution Structure Of The Viral Receptor Domain Of Tva
Length = 47
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 81 GETYTKEQHCNGVLDCKDGSDEMHC 105
GE Y ++ C+G DC DG DE C
Sbjct: 20 GECYPQDWLCDGHPDCDDGRDEWGC 44
>pdb|1K7B|A Chain A, Nmr Solution Structure Of Stva47, The Viral-Binding Domain
Of Tva
Length = 47
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 81 GETYTKEQHCNGVLDCKDGSDEMHC 105
GE Y ++ C+G DC DG DE C
Sbjct: 22 GECYPQDWLCDGHPDCDDGRDEWGC 46
>pdb|1XFE|A Chain A, Solution Structure Of The La7-Egfa Pair From The Ldl
Receptor
Length = 83
Score = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 76 LQCGSGETYTKEQHCNGVLDCKDGSDE 102
+C SGE T ++ CN DC+D SDE
Sbjct: 12 FKCHSGECITLDKVCNMARDCRDWSDE 38
>pdb|2I1P|A Chain A, Solution Structure Of The Twelfth Cysteine-Rich Ligand-
Binding Repeat In Rat Megalin
Length = 48
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 76 LQCGSGETYTKEQH-CNGVLDCKDGSDEMHC 105
+C G + ++ C+GV DC+D SDE C
Sbjct: 12 FKCADGSSCINSRYRCDGVYDCRDNSDEAGC 42
>pdb|1F5Y|A Chain A, Nmr Structure Of A Concatemer Of The First And Second
Ligand-Binding Modules Of The Human Ldl Receptor
Length = 85
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 33/80 (41%), Gaps = 19/80 (23%)
Query: 39 DVQCYDNR----TQACDSVADCDNMKDEKHCHTGTLPVVLSLQCGSGET---------YT 85
+ QC D + CD A+C + DE LS+ C SG+
Sbjct: 12 EFQCQDGKCISYKWVCDGSAECQDGSDESQ------ETCLSVTCKSGDFSCGGRVNRCIP 65
Query: 86 KEQHCNGVLDCKDGSDEMHC 105
+ C+G +DC +GSDE C
Sbjct: 66 QFWRCDGQVDCDNGSDEQGC 85
>pdb|4H6W|A Chain A, Structure Of Prenylagaramide Maturation Protease Paga
pdb|4H6W|B Chain B, Structure Of Prenylagaramide Maturation Protease Paga
Length = 306
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 38/83 (45%), Gaps = 3/83 (3%)
Query: 14 SASTFAT---TGVEWCQSQGKVMCGIYPDVQCYDNRTQACDSVADCDNMKDEKHCHTGTL 70
S ++FAT +GV ++ G PD Q N A + + + D+ C G L
Sbjct: 221 SGTSFATPIVSGVAALLLSLQIKRGEKPDPQKVKNALLASATPCNPKDTDDQSRCLMGKL 280
Query: 71 PVVLSLQCGSGETYTKEQHCNGV 93
++ +++ +GET +++ V
Sbjct: 281 NILDAIEHLTGETMSEDLELESV 303
>pdb|2FYJ|A Chain A, Nmr Solution Structure Of Calcium-Loaded Lrp Double Module
pdb|2FYL|B Chain B, Haddock Model Of The Complex Between Double Module Of Lrp,
Cr56, And First Domain Of Receptor Associated Protein,
Rap- D1
Length = 82
Score = 25.4 bits (54), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 23/60 (38%), Gaps = 1/60 (1%)
Query: 47 TQACDSVADCDNMKDEK-HCHTGTLPVVLSLQCGSGETYTKEQHCNGVLDCKDGSDEMHC 105
+ CD DC + DE C T + C +G C+ DC D SDE C
Sbjct: 21 SWTCDLDDDCGDRSDESASCAYPTCFPLTQFTCNNGRCININWRCDNDNDCGDNSDEAGC 80
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 0.132 0.436
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,287,310
Number of Sequences: 62578
Number of extensions: 119732
Number of successful extensions: 327
Number of sequences better than 100.0: 53
Number of HSP's better than 100.0 without gapping: 36
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 241
Number of HSP's gapped (non-prelim): 85
length of query: 105
length of database: 14,973,337
effective HSP length: 70
effective length of query: 35
effective length of database: 10,592,877
effective search space: 370750695
effective search space used: 370750695
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)