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= 033214
(125 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KWC|A Chain A, The Nmr Structure Of The Autophagy-Related Protein Atg8
Length = 116
Score = 137 bits (346), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 58/113 (51%), Positives = 87/113 (76%)
Query: 6 SFKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMSVGQFIHI 65
+FK E+ FE+R ES I ++P+R+PVI E+ K+D+P+++K+K+LVP D++VGQF+++
Sbjct: 4 TFKSEYPFEKRKAESERIADRFPNRIPVICEKAEKSDIPEIDKRKYLVPADLTVGQFVYV 63
Query: 66 LSSRLHLTPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
+ R+ L P KA+F+FV DTLP TA LM ++Y+ KD+DGFLY+ YS E TFG
Sbjct: 64 IRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 116
>pdb|2LI5|A Chain A, Nmr Structure Of Atg8-Atg7c30 Complex
Length = 117
Score = 137 bits (346), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 58/113 (51%), Positives = 87/113 (76%)
Query: 6 SFKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMSVGQFIHI 65
+FK E+ FE+R ES I ++P+R+PVI E+ K+D+P+++K+K+LVP D++VGQF+++
Sbjct: 5 TFKSEYPFEKRKAESERIADRFPNRIPVICEKAEKSDIPEIDKRKYLVPADLTVGQFVYV 64
Query: 66 LSSRLHLTPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
+ R+ L P KA+F+FV DTLP TA LM ++Y+ KD+DGFLY+ YS E TFG
Sbjct: 65 IRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 117
>pdb|3VH3|B Chain B, Crystal Structure Of Atg7ctd-Atg8 Complex
pdb|3VH4|B Chain B, Crystal Structure Of Atg7ctd-Atg8-Mgatp Complex
Length = 119
Score = 137 bits (346), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 58/113 (51%), Positives = 87/113 (76%)
Query: 6 SFKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMSVGQFIHI 65
+FK E+ FE+R ES I ++P+R+PVI E+ K+D+P+++K+K+LVP D++VGQF+++
Sbjct: 7 TFKSEYPFEKRKAESERIADRFPNRIPVICEKAEKSDIPEIDKRKYLVPADLTVGQFVYV 66
Query: 66 LSSRLHLTPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
+ R+ L P KA+F+FV DTLP TA LM ++Y+ KD+DGFLY+ YS E TFG
Sbjct: 67 IRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 119
>pdb|2KQ7|A Chain A, Solution Structure Of The Autophagy-Related Protein Atg8
Length = 119
Score = 135 bits (341), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 60/118 (50%), Positives = 89/118 (75%), Gaps = 1/118 (0%)
Query: 2 GKMQS-FKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMSVG 60
G M+S FK E+ FE+R ES I ++ +R+PVI E+ K+D+P+++K+K+LVP D++VG
Sbjct: 1 GSMKSTFKSEYPFEKRKAESERIADRFKNRIPVICEKAEKSDIPEIDKRKYLVPADLTVG 60
Query: 61 QFIHILSSRLHLTPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
QF++++ R+ L P KA+F+FV DTLP TA LM ++Y+ KD+DGFLY+ YS E TFG
Sbjct: 61 QFVYVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 118
>pdb|3RUI|B Chain B, Crystal Structure Of Atg7c-Atg8 Complex
Length = 118
Score = 135 bits (341), Expect = 5e-33, Method: Compositional matrix adjust.
Identities = 60/118 (50%), Positives = 89/118 (75%), Gaps = 1/118 (0%)
Query: 2 GKMQS-FKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMSVG 60
G M+S FK E+ FE+R ES I ++ +R+PVI E+ K+D+P+++K+K+LVP D++VG
Sbjct: 1 GSMKSTFKSEYPFEKRKAESERIADRFKNRIPVICEKAEKSDIPEIDKRKYLVPADLTVG 60
Query: 61 QFIHILSSRLHLTPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
QF++++ R+ L P KA+F+FV DTLP TA LM ++Y+ KD+DGFLY+ YS E TFG
Sbjct: 61 QFVYVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 118
>pdb|2ZPN|A Chain A, The Crystal Structure Of Saccharomyces Cerevisiae Atg8-
Atg19(412-415) Complex
pdb|2ZPN|B Chain B, The Crystal Structure Of Saccharomyces Cerevisiae Atg8-
Atg19(412-415) Complex
pdb|2ZPN|C Chain C, The Crystal Structure Of Saccharomyces Cerevisiae Atg8-
Atg19(412-415) Complex
pdb|2ZPN|D Chain D, The Crystal Structure Of Saccharomyces Cerevisiae Atg8-
Atg19(412-415) Complex
pdb|3VXW|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Atg8
Complexed With Atg32 Aim
Length = 119
Score = 134 bits (337), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 57/113 (50%), Positives = 86/113 (76%)
Query: 6 SFKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMSVGQFIHI 65
+FK E+ FE+R ES I ++ +R+PVI E+ K+D+P+++K+K+LVP D++VGQF+++
Sbjct: 7 TFKSEYPFEKRKAESERIADRFKNRIPVICEKAEKSDIPEIDKRKYLVPADLTVGQFVYV 66
Query: 66 LSSRLHLTPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
+ R+ L P KA+F+FV DTLP TA LM ++Y+ KD+DGFLY+ YS E TFG
Sbjct: 67 IRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 119
>pdb|1EO6|A Chain A, Crystal Structure Of Gate-16
pdb|1EO6|B Chain B, Crystal Structure Of Gate-16
Length = 117
Score = 123 bits (308), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 57/113 (50%), Positives = 81/113 (71%)
Query: 7 FKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMSVGQFIHIL 66
FK++ + E R ES +I AKYPDRVPVI E+ S + + D++K+K+LVP D++V QF+ I+
Sbjct: 5 FKEDHSLEHRCVESAKIRAKYPDRVPVIVEKVSGSQIVDIDKRKYLVPSDITVAQFMWII 64
Query: 67 SSRLHLTPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFGY 119
R+ L KA+F+FV T+PQ++ M +YE KDEDGFLY+ YS E TFG+
Sbjct: 65 RKRIQLPSEKAIFLFVDKTVPQSSLTMGQLYEKEKDEDGFLYVAYSGENTFGF 117
>pdb|4EOY|A Chain A, Plasmodium Falciparum Atg8 In Complex With Plasmodium
Falciparum Atg3 Peptide
pdb|4EOY|B Chain B, Plasmodium Falciparum Atg8 In Complex With Plasmodium
Falciparum Atg3 Peptide
pdb|4EOY|C Chain C, Plasmodium Falciparum Atg8 In Complex With Plasmodium
Falciparum Atg3 Peptide
Length = 128
Score = 119 bits (299), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 59/127 (46%), Positives = 86/127 (67%), Gaps = 10/127 (7%)
Query: 1 MGKMQSFKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMSVG 60
MG M S KDE +FE R+ E+ +I +KYP+R+PV+ ER ++++LP +EKKKFLVP +M VG
Sbjct: 3 MG-MPSLKDEVSFENRVAETHKIRSKYPNRIPVVIERANRSNLPIIEKKKFLVPMNMLVG 61
Query: 61 QFIHIL---------SSRLHLTPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLYMCY 111
+F IL S + L + +++FV + +P+T LM +YE +KDEDG+LYM Y
Sbjct: 62 EFKFILHQHINQSAYGSNMKLFRERTIYLFVNNIVPKTGLLMQDLYEMYKDEDGYLYMEY 121
Query: 112 SSEKTFG 118
SSE + G
Sbjct: 122 SSESSLG 128
>pdb|3M95|A Chain A, Crystal Structure Of Autophagy-Related Protein Atg8 From
The Silkworm Bombyx Mori
pdb|3M95|B Chain B, Crystal Structure Of Autophagy-Related Protein Atg8 From
The Silkworm Bombyx Mori
Length = 125
Score = 118 bits (296), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 55/112 (49%), Positives = 77/112 (68%)
Query: 7 FKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMSVGQFIHIL 66
+K+E +FE+R E +I KYPDRVPVI E+ KA L D++KKK+LVP D++VGQF ++
Sbjct: 13 YKEEHSFEKRKAEGEKIRRKYPDRVPVIVEKAPKARLGDLDKKKYLVPSDLTVGQFYFLI 72
Query: 67 SSRLHLTPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
R+HL P ALF FV + +P T+ M S+Y+ DED FLY+ +S E +G
Sbjct: 73 RKRIHLRPEDALFFFVNNVIPPTSATMGSLYQEHHDEDFFLYIAFSDENVYG 124
>pdb|2L8J|A Chain A, Gabarapl-1 Nbr1-Lir Complex Structure
Length = 119
Score = 114 bits (284), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 53/108 (49%), Positives = 75/108 (69%)
Query: 7 FKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMSVGQFIHIL 66
+K++ FE R +E +I KYPDRVPVI E+ KA +PD++K+K+LVP D++VGQF ++
Sbjct: 9 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLI 68
Query: 67 SSRLHLTPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLYMCYSSE 114
R+HL P ALF FV +T+P T+ M +YE +ED FLY+ YS E
Sbjct: 69 RKRIHLRPEDALFFFVNNTIPPTSATMGQLYEDNHEEDYFLYVAYSDE 116
>pdb|2R2Q|A Chain A, Crystal Structure Of Human Gamma-Aminobutyric Acid
Receptor- Associated Protein-Like 1 (Gabarap1), Isoform
Cra_a
pdb|2R2Q|B Chain B, Crystal Structure Of Human Gamma-Aminobutyric Acid
Receptor- Associated Protein-Like 1 (Gabarap1), Isoform
Cra_a
Length = 110
Score = 112 bits (280), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 52/107 (48%), Positives = 74/107 (69%)
Query: 6 SFKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMSVGQFIHI 65
+K++ FE R +E +I KYPDRVPVI E+ KA +PD++K+K+LVP D++VGQF +
Sbjct: 3 QYKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFL 62
Query: 66 LSSRLHLTPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLYMCYS 112
+ R+HL P ALF FV +T+P T+ M +YE +ED FLY+ YS
Sbjct: 63 IRKRIHLRPEDALFFFVNNTIPPTSATMGQLYEDNHEEDYFLYVAYS 109
>pdb|1KJT|A Chain A, Crystal Structure Of The Gaba(A) Receptor Associated
Protein, Gabarap
Length = 119
Score = 112 bits (279), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 52/112 (46%), Positives = 74/112 (66%)
Query: 7 FKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMSVGQFIHIL 66
+K+E FE+R E +I KYPDRVPVI E+ KA + D++KKK+LVP D++VGQF ++
Sbjct: 7 YKEEHPFEKRRSEGEKIRKKYPDRVPVIVEKAPKARIGDLDKKKYLVPSDLTVGQFYFLI 66
Query: 67 SSRLHLTPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
R+HL ALF FV + +P T+ M +Y+ +ED FLY+ YS E +G
Sbjct: 67 RKRIHLRAEDALFFFVNNVIPPTSATMGQLYQEHHEEDFFLYIAYSDESVYG 118
>pdb|1KOT|A Chain A, Solution Structure Of Human Gaba Receptor Associated
Protein Gabarap
pdb|3D32|A Chain A, Complex Of Gaba(a) Receptor-associated Protein (gabarap)
With A Synthetic Peptide
pdb|3D32|B Chain B, Complex Of Gaba(a) Receptor-associated Protein (gabarap)
With A Synthetic Peptide
pdb|3DOW|A Chain A, Complex Structure Of Gaba Type A Receptor Associated
Protein And Its Binding Epitope On Calreticulin
Length = 119
Score = 112 bits (279), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 52/112 (46%), Positives = 74/112 (66%)
Query: 7 FKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMSVGQFIHIL 66
+K+E FE+R E +I KYPDRVPVI E+ KA + D++KKK+LVP D++VGQF ++
Sbjct: 7 YKEEHPFEKRRSEGEKIRKKYPDRVPVIVEKAPKARIGDLDKKKYLVPSDLTVGQFYFLI 66
Query: 67 SSRLHLTPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
R+HL ALF FV + +P T+ M +Y+ +ED FLY+ YS E +G
Sbjct: 67 RKRIHLRAEDALFFFVNNVIPPTSATMGQLYQEHHEEDFFLYIAYSDESVYG 118
>pdb|1GNU|A Chain A, Gaba(a) Receptor Associated Protein Gabarap
pdb|1KLV|A Chain A, Solution Structure And Backbone Dynamics Of Gabarap, Gabaa
Receptor Associated Protein
pdb|1KM7|A Chain A, Solution Structure And Backbone Dynamics Of Gabarap, Gabaa
Receptor Associated Protein
Length = 117
Score = 111 bits (278), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 52/112 (46%), Positives = 74/112 (66%)
Query: 7 FKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMSVGQFIHIL 66
+K+E FE+R E +I KYPDRVPVI E+ KA + D++KKK+LVP D++VGQF ++
Sbjct: 5 YKEEHPFEKRRSEGEKIRKKYPDRVPVIVEKAPKARIGDLDKKKYLVPSDLTVGQFYFLI 64
Query: 67 SSRLHLTPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
R+HL ALF FV + +P T+ M +Y+ +ED FLY+ YS E +G
Sbjct: 65 RKRIHLRAEDALFFFVNNVIPPTSATMGQLYQEHHEEDFFLYIAYSDESVYG 116
>pdb|3H9D|A Chain A, Crystal Structure Of Trypanosoma Brucei Atg8
pdb|3H9D|B Chain B, Crystal Structure Of Trypanosoma Brucei Atg8
Length = 119
Score = 108 bits (271), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 52/117 (44%), Positives = 78/117 (66%), Gaps = 2/117 (1%)
Query: 3 KMQSFKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMSVGQF 62
K +K TFE R ++ ++ ++PDR+P+I E+ +D+ ++++ KFLVP D++VGQF
Sbjct: 4 KDSKYKMSHTFESRQSDAAKVRERHPDRLPIICEKVYNSDIGELDRCKFLVPSDLTVGQF 63
Query: 63 IHILSSRLHLTPGKALFVFVKDT-LPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
+ +L R+ L ALFV+ DT LP +A + D +Y +KDEDGFLYM YS E TFG
Sbjct: 64 VSVLRKRVQLEAESALFVYTNDTVLPSSAQMAD-IYSKYKDEDGFLYMKYSGEATFG 119
>pdb|1V49|A Chain A, Solution Structure Of Microtubule-Associated Protein Light
Chain-3
Length = 120
Score = 102 bits (254), Expect = 6e-23, Method: Compositional matrix adjust.
Identities = 53/120 (44%), Positives = 78/120 (65%), Gaps = 2/120 (1%)
Query: 1 MGKMQSFKDEFTFEQRLEESREIIAKYPDRVPVIAERY-SKADLPDMEKKKFLVPRDMSV 59
M ++FK TFEQR+E+ R I ++P ++PVI ERY + LP ++K KFLVP +++
Sbjct: 1 MPSEKTFKQRRTFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHVNM 60
Query: 60 GQFIHILSSRLHLTPGKALFVFVK-DTLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
+ I I+ RL L +A F+ V ++ +T + VYES KDEDGFLYM Y+S++TFG
Sbjct: 61 SELIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESEKDEDGFLYMVYASQETFG 120
>pdb|2ZJD|A Chain A, Crystal Structure Of Lc3-P62 Complex
pdb|2ZJD|C Chain C, Crystal Structure Of Lc3-P62 Complex
Length = 130
Score = 102 bits (253), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 53/120 (44%), Positives = 78/120 (65%), Gaps = 2/120 (1%)
Query: 1 MGKMQSFKDEFTFEQRLEESREIIAKYPDRVPVIAERY-SKADLPDMEKKKFLVPRDMSV 59
M ++FK TFEQR+E+ R I ++P ++PVI ERY + LP ++K KFLVP +++
Sbjct: 6 MPSEKTFKQRRTFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHVNM 65
Query: 60 GQFIHILSSRLHLTPGKALFVFVKD-TLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
+ I I+ RL L +A F+ V ++ +T + VYES KDEDGFLYM Y+S++TFG
Sbjct: 66 SELIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESEKDEDGFLYMVYASQETFG 125
>pdb|2K6Q|A Chain A, Lc3 P62 Complex Structure
Length = 121
Score = 100 bits (248), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 51/120 (42%), Positives = 78/120 (65%), Gaps = 2/120 (1%)
Query: 1 MGKMQSFKDEFTFEQRLEESREIIAKYPDRVPVIAERY-SKADLPDMEKKKFLVPRDMSV 59
M ++FK +FEQR+E+ R I ++P ++PVI ERY + LP ++K KFLVP +++
Sbjct: 2 MPSEKTFKQRRSFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHVNM 61
Query: 60 GQFIHILSSRLHLTPGKALFVFVK-DTLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
+ I I+ RL L +A F+ V ++ +T + VYES +DEDGFLYM Y+S++TFG
Sbjct: 62 SELIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESERDEDGFLYMVYASQETFG 121
>pdb|2Z0E|B Chain B, The Crystal Structure Of Human Atg4b- Lc3(1-124) Complex
pdb|2ZZP|B Chain B, The Crystal Structure Of Human Atg4b(C74s)- Lc3(1-124)
Complex
Length = 129
Score = 99.8 bits (247), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 53/123 (43%), Positives = 79/123 (64%), Gaps = 5/123 (4%)
Query: 1 MGKMQS---FKDEFTFEQRLEESREIIAKYPDRVPVIAERY-SKADLPDMEKKKFLVPRD 56
+G M S FK +FEQR+E+ R I ++P ++PVI ERY + LP ++K KFLVP
Sbjct: 3 LGSMPSEKTFKQRRSFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDH 62
Query: 57 MSVGQFIHILSSRLHLTPGKALFVFVKD-TLPQTATLMDSVYESFKDEDGFLYMCYSSEK 115
+++ + I I+ RL L +A F+ V ++ +T + VYES +DEDGFLYM Y+S++
Sbjct: 63 VNMSELIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESERDEDGFLYMVYASQE 122
Query: 116 TFG 118
TFG
Sbjct: 123 TFG 125
>pdb|1UGM|A Chain A, Crystal Structure Of Lc3
pdb|2Z0D|B Chain B, The Crystal Structure Of Human Atg4b- Lc3(1-120) Complex
Length = 125
Score = 99.8 bits (247), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 51/120 (42%), Positives = 78/120 (65%), Gaps = 2/120 (1%)
Query: 1 MGKMQSFKDEFTFEQRLEESREIIAKYPDRVPVIAERY-SKADLPDMEKKKFLVPRDMSV 59
M ++FK +FEQR+E+ R I ++P ++PVI ERY + LP ++K KFLVP +++
Sbjct: 6 MPSEKTFKQRRSFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHVNM 65
Query: 60 GQFIHILSSRLHLTPGKALFVFVKD-TLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
+ I I+ RL L +A F+ V ++ +T + VYES +DEDGFLYM Y+S++TFG
Sbjct: 66 SELIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESERDEDGFLYMVYASQETFG 125
>pdb|3VVW|B Chain B, Ndp52 In Complex With Lc3c
Length = 128
Score = 95.1 bits (235), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 46/117 (39%), Positives = 77/117 (65%), Gaps = 2/117 (1%)
Query: 4 MQSFKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKAD-LPDMEKKKFLVPRDMSVGQF 62
++ FK + R EE I AK+P+++PV+ ERY + LP ++K KFLVP+++++ QF
Sbjct: 12 VRPFKQRKSLAIRQEEVAGIRAKFPNKIPVVVERYPRETFLPPLDKTKFLVPQELTMTQF 71
Query: 63 IHILSSRLHLTPGKALFVFVKD-TLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFG 118
+ I+ SR+ L +A ++ V + +L + M +Y +KDEDGF+YM Y+S++TFG
Sbjct: 72 LSIIRSRMVLRATEAFYLLVNNKSLVSMSATMAEIYRDYKDEDGFVYMTYASQETFG 128
>pdb|3ECI|A Chain A, Microtubule-Associated Protein 1 Light Chain 3 Alpha
Isoform A (Map1alc3)
pdb|3ECI|B Chain B, Microtubule-Associated Protein 1 Light Chain 3 Alpha
Isoform A (Map1alc3)
Length = 122
Score = 93.6 bits (231), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 46/115 (40%), Positives = 75/115 (65%), Gaps = 2/115 (1%)
Query: 7 FKDEFTFEQRLEESREIIAKYPDRVPVIAERY-SKADLPDMEKKKFLVPRDMSVGQFIHI 65
FK +F R +E ++I ++P ++PVI ERY + LP ++K KFLVP +++ + + I
Sbjct: 8 FKQRRSFADRCKEVQQIRDQHPSKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMSELVKI 67
Query: 66 LSSRLHLTPGKALFVFV-KDTLPQTATLMDSVYESFKDEDGFLYMCYSSEKTFGY 119
+ RL L P +A F+ V + ++ +T + +YE KDEDGFLYM Y+S++TFG+
Sbjct: 68 IRRRLQLNPTQAFFLLVNQHSMVSVSTPIADIYEQEKDEDGFLYMVYASQETFGF 122
>pdb|4GDK|A Chain A, Crystal Structure Of Human Atg12~atg5 Conjugate In Complex
With An N- Terminal Fragment Of Atg16l1
pdb|4GDK|D Chain D, Crystal Structure Of Human Atg12~atg5 Conjugate In Complex
With An N- Terminal Fragment Of Atg16l1
pdb|4GDL|A Chain A, Crystal Structure Of Human Atg12~atg5 Conjugate In Complex
With An N- Terminal Fragment Of Atg16l1
Length = 91
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 37/79 (46%), Gaps = 2/79 (2%)
Query: 41 ADLPDMEKKKFLVPRDMSVGQFIHILSSRLHLTPGKALFVFVKDTL-PQTATLMDSVYES 99
D P M+ KK+ V R ++ I + L L + LF++V + P + ++YE
Sbjct: 14 GDTPIMKTKKWAVERTRTIQGLIDFIKKFLKLVASEQLFIYVNQSFAPSPDQEVGTLYEC 73
Query: 100 FKDEDGFLYMCYSSEKTFG 118
F DG L + Y + +G
Sbjct: 74 F-GSDGKLVLHYCKSQAWG 91
>pdb|3EFY|A Chain A, Structure Of The Cyclomodulin Cif From Pathogenic
Escherichia Coli
pdb|3EFY|B Chain B, Structure Of The Cyclomodulin Cif From Pathogenic
Escherichia Coli
Length = 195
Score = 29.6 bits (65), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 87 PQTATLMDSVYESFKDEDGFLYMCYSSEKTFGYERIQ 123
P +++ + F D+DGF Y C+ +E+T E++Q
Sbjct: 8 PSCGVTANAIMKLFLDKDGFSY-CFENEQTLSLEQLQ 43
>pdb|1SXJ|B Chain B, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 323
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 26/65 (40%), Gaps = 3/65 (4%)
Query: 56 DMSVGQFIHILSSRLHLTPGKALFVFVKDTLPQTATLMDSV---YESFKDEDGFLYMCYS 112
D+ Q H +LHL PGK V + + TA ++ E + + F + C
Sbjct: 87 DVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQ 146
Query: 113 SEKTF 117
S K
Sbjct: 147 SNKII 151
>pdb|1TLL|A Chain A, Crystal Structure Of Rat Neuronal Nitric-Oxide Synthase
Reductase Module At 2.3 A Resolution.
pdb|1TLL|B Chain B, Crystal Structure Of Rat Neuronal Nitric-Oxide Synthase
Reductase Module At 2.3 A Resolution
Length = 688
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 20/30 (66%), Gaps = 2/30 (6%)
Query: 81 FVKDTLPQTATLMDSVYESFKDEDGFLYMC 110
+V+D L + L +SVY + K++ G +Y+C
Sbjct: 581 YVQDVLQEQ--LAESVYRALKEQGGHIYVC 608
>pdb|3VP7|A Chain A, Crystal Structure Of The Beta-Alpha Repeated,
Autophagy-Specific (Bara) Domain Of Vps30ATG6
Length = 220
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 7 FKDEFTFEQRLEESREIIAKYPDRVPVIAERYSKADL 43
F+ E F++ LE + EII++ ++ IA YS L
Sbjct: 111 FRKETKFDKSLETTLEIISEITRQLSTIASSYSSQTL 147
>pdb|1J8C|A Chain A, Solution Structure Of The Ubiquitin-Like Domain Of
Hplic-2
Length = 125
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%)
Query: 47 EKKKFLVPRDMSVGQFIHILSSRLHLTPGKALFVFVKDTLPQTATLM 93
EK++F VP + SV QF +S R + + +F L TL+
Sbjct: 42 EKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLI 88
>pdb|1K1D|A Chain A, Crystal Structure Of D-Hydantoinase
pdb|1K1D|B Chain B, Crystal Structure Of D-Hydantoinase
pdb|1K1D|C Chain C, Crystal Structure Of D-Hydantoinase
pdb|1K1D|D Chain D, Crystal Structure Of D-Hydantoinase
pdb|1K1D|E Chain E, Crystal Structure Of D-Hydantoinase
pdb|1K1D|F Chain F, Crystal Structure Of D-Hydantoinase
pdb|1K1D|G Chain G, Crystal Structure Of D-Hydantoinase
pdb|1K1D|H Chain H, Crystal Structure Of D-Hydantoinase
Length = 460
Score = 27.3 bits (59), Expect = 2.5, Method: Composition-based stats.
Identities = 23/90 (25%), Positives = 42/90 (46%), Gaps = 13/90 (14%)
Query: 2 GKMQSFKDE---FTFEQRLEESREIIAKYPDRVPVIAERYSKADLPDMEKKKFLVPRDMS 58
G++Q+ + F F+ + E R K P+ P+I +R S ++K + ++
Sbjct: 307 GQLQTLGSDQCSFDFKGQKELGRGDFTKIPNGGPIIEDRVSILFSEGVKKGR------IT 360
Query: 59 VGQFIHILSSRLH----LTPGKALFVFVKD 84
+ QF+ I+S+R+ L P K V D
Sbjct: 361 LNQFVDIVSTRIAKLFGLFPKKGTIVVGSD 390
>pdb|1F20|A Chain A, Crystal Structure Of Rat Neuronal Nitric-Oxide Synthase
FadNADP+ Domain At 1.9a Resolution
Length = 435
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 23/80 (28%), Positives = 41/80 (51%), Gaps = 8/80 (10%)
Query: 31 VPVIAERYSKADLPDMEKKKFLVPRDMSVGQFIHILSSRLHLTPGKALFVFVKDTLPQTA 90
V V R SK D + +++ L ++ V + ++ SR P K +V+D L +
Sbjct: 316 VLVFGCRQSKID--HIYREETLQAKNKGVFRELYTAYSREPDRPKK----YVQDVLQEQ- 368
Query: 91 TLMDSVYESFKDEDGFLYMC 110
L +SVY + K++ G +Y+C
Sbjct: 369 -LAESVYRALKEQGGHIYVC 387
>pdb|4A4A|A Chain A, Cpgh89 (E483q, E601q), From Clostridium Perfringens, In
Complex With Its Substrate Glcnac-Alpha-1,4-Galactose
Length = 914
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 12/36 (33%), Positives = 17/36 (47%)
Query: 73 TPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLY 108
T G + V+ K + + Y+ FKD D FLY
Sbjct: 682 TWGHSKIVYDKSEFEKAIEIFAKNYDEFKDSDAFLY 717
>pdb|2VC9|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
In Complex With 2-Acetamido-1,2-Dideoxynojirmycin
pdb|2VCA|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
In Complex With Beta-N-Acetyl-D-Glucosamine
pdb|2VCB|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
In Complex With Pugnac
pdb|2VCC|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
Length = 891
Score = 26.6 bits (57), Expect = 3.8, Method: Composition-based stats.
Identities = 12/36 (33%), Positives = 17/36 (47%)
Query: 73 TPGKALFVFVKDTLPQTATLMDSVYESFKDEDGFLY 108
T G + V+ K + + Y+ FKD D FLY
Sbjct: 659 TWGHSKIVYDKSEFEKAIEIFAKNYDEFKDSDAFLY 694
>pdb|3K4H|A Chain A, Crystal Structure Of Putative Transcriptional Regulator
Laci From Bacillus Cereus Subsp. Cytotoxis Nvh 391-98
pdb|3K4H|B Chain B, Crystal Structure Of Putative Transcriptional Regulator
Laci From Bacillus Cereus Subsp. Cytotoxis Nvh 391-98
Length = 292
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 43 LPDMEKKKFLVPRDMSVGQFIHILSSRLHLTP 74
L + KK F+VP+D+S+ F + L S + P
Sbjct: 208 LSALSKKGFVVPKDVSIVSFNNALLSEIASPP 239
>pdb|4GQO|A Chain A, 2.1 Angstrom Resolution Crystal Structure Of
Uncharacterized Protein Lmo0859 From Listeria
Monocytogenes Egd-E
pdb|4GQO|B Chain B, 2.1 Angstrom Resolution Crystal Structure Of
Uncharacterized Protein Lmo0859 From Listeria
Monocytogenes Egd-E
pdb|4GQO|C Chain C, 2.1 Angstrom Resolution Crystal Structure Of
Uncharacterized Protein Lmo0859 From Listeria
Monocytogenes Egd-E
Length = 433
Score = 26.6 bits (57), Expect = 4.1, Method: Composition-based stats.
Identities = 13/34 (38%), Positives = 21/34 (61%), Gaps = 5/34 (14%)
Query: 12 TFEQRLEESREIIAKYPDRVPVIAERYSKADLPD 45
T+ + LE +++ AKYPD+V ++K DL D
Sbjct: 169 TYSEALEVGKKLKAKYPDKV-----LWAKGDLSD 197
>pdb|2QJO|A Chain A, Crystal Structure Of A Bifunctional Nmn
AdenylyltransferaseADP RIBOSE Pyrophosphatase (Nadm)
Complexed With Adprp And Nad From Synechocystis Sp.
pdb|2QJO|B Chain B, Crystal Structure Of A Bifunctional Nmn
AdenylyltransferaseADP RIBOSE Pyrophosphatase (Nadm)
Complexed With Adprp And Nad From Synechocystis Sp.
pdb|2QJO|C Chain C, Crystal Structure Of A Bifunctional Nmn
AdenylyltransferaseADP RIBOSE Pyrophosphatase (Nadm)
Complexed With Adprp And Nad From Synechocystis Sp
Length = 341
Score = 25.4 bits (54), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 21/51 (41%)
Query: 53 VPRDMSVGQFIHILSSRLHLTPGKALFVFVKDTLPQTATLMDSVYESFKDE 103
+ D V Q H+L R PG L + Q TL++ + K+E
Sbjct: 204 ITTDAVVVQAGHVLMVRRQAKPGLGLIALPGGFIKQNETLVEGMLRELKEE 254
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
0.322 0.137 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,613,626
Number of Sequences: 62578
Number of extensions: 136201
Number of successful extensions: 400
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 354
Number of HSP's gapped (non-prelim): 38
length of query: 125
length of database: 14,973,337
effective HSP length: 86
effective length of query: 39
effective length of database: 9,591,629
effective search space: 374073531
effective search space used: 374073531
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)