RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12247
(119 letters)
>3rui_B Autophagy-related protein 8; autophagosome formation, non-canonical
E1, ATP BI UBL, ATG8, ATG12, ATG10, ATG3, UBL
activation, thiolation; 1.91A {Saccharomyces cerevisiae}
PDB: 2kq7_A 2zpn_A 2kwc_A 2li5_A 3vh3_B 3vh4_B*
Length = 118
Score = 90.8 bits (225), Expect = 3e-25
Identities = 39/116 (33%), Positives = 64/116 (55%), Gaps = 1/116 (0%)
Query: 1 MKFQYTEKYSLEERIKIGENLARNHPNCAFVILERSPSALLPQMPRSNYVVAYEMTVGHF 60
MK + +Y E+R E +A N VI E++ + +P++ + Y+V ++TVG F
Sbjct: 3 MKSTFKSEYPFEKRKAESERIADRFKNRIPVICEKAEKSDIPEIDKRKYLVPADLTVGQF 62
Query: 61 FYLLRKKMALRPEEACFFFIESMIVPADSTRMETLSQRFADKDGLIYMVYSDVNIF 116
Y++RK++ L PE+A F F+ + P + M + Q DKDG +Y+ YS N F
Sbjct: 63 VYVIRKRIMLPPEKAIFIFVNDTLPPTAAL-MSAIYQEHKDKDGFLYVTYSGENTF 117
>3m95_A Autophagy related protein ATG8; alpha slash beta, receptor,
transport protein; 2.40A {Bombyx mori}
Length = 125
Score = 89.7 bits (222), Expect = 1e-24
Identities = 48/116 (41%), Positives = 78/116 (67%), Gaps = 1/116 (0%)
Query: 1 MKFQYTEKYSLEERIKIGENLARNHPNCAFVILERSPSALLPQMPRSNYVVAYEMTVGHF 60
MKFQY E++S E+R GE + R +P+ VI+E++P A L + + Y+V ++TVG F
Sbjct: 9 MKFQYKEEHSFEKRKAEGEKIRRKYPDRVPVIVEKAPKARLGDLDKKKYLVPSDLTVGQF 68
Query: 61 FYLLRKKMALRPEEACFFFIESMIVPADSTRMETLSQRFADKDGLIYMVYSDVNIF 116
++L+RK++ LRPE+A FFF+ ++I P S M +L Q D+D +Y+ +SD N++
Sbjct: 69 YFLIRKRIHLRPEDALFFFVNNVIPP-TSATMGSLYQEHHDEDFFLYIAFSDENVY 123
>1eo6_A GATE-16, golgi-associated ATPase enhancer of 16 KD; ubiquitin fold,
protein binding; 1.80A {Bos taurus} SCOP: d.15.1.3
Length = 117
Score = 88.5 bits (219), Expect = 3e-24
Identities = 34/116 (29%), Positives = 64/116 (55%), Gaps = 1/116 (0%)
Query: 1 MKFQYTEKYSLEERIKIGENLARNHPNCAFVILERSPSALLPQMPRSNYVVAYEMTVGHF 60
MK+ + E +SLE R + +P+ VI+E+ + + + + Y+V ++TV F
Sbjct: 1 MKWMFKEDHSLEHRCVESAKIRAKYPDRVPVIVEKVSGSQIVDIDKRKYLVPSDITVAQF 60
Query: 61 FYLLRKKMALRPEEACFFFIESMIVPADSTRMETLSQRFADKDGLIYMVYSDVNIF 116
+++RK++ L E+A F F++ + + T M L ++ D+DG +Y+ YS N F
Sbjct: 61 MWIIRKRIQLPSEKAIFLFVDKTVPQSSLT-MGQLYEKEKDEDGFLYVAYSGENTF 115
>2r2q_A Gamma-aminobutyric acid receptor-associated protein-like 1;
autophagy, ubiquitin homolog, structural genomics
consortium, SGC, microtubule; 1.65A {Homo sapiens} PDB:
2l8j_A 1kjt_A 1kot_A 3d32_A 3dow_A 1gnu_A 1klv_A 1km7_A
Length = 110
Score = 85.8 bits (212), Expect = 3e-23
Identities = 43/110 (39%), Positives = 71/110 (64%), Gaps = 1/110 (0%)
Query: 3 FQYTEKYSLEERIKIGENLARNHPNCAFVILERSPSALLPQMPRSNYVVAYEMTVGHFFY 62
FQY E + E R K GE + + +P+ VI+E++P A +P + + Y+V ++TVG F++
Sbjct: 2 FQYKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYF 61
Query: 63 LLRKKMALRPEEACFFFIESMIVPADSTRMETLSQRFADKDGLIYMVYSD 112
L+RK++ LRPE+A FFF+ + I P +T M L + ++D +Y+ YSD
Sbjct: 62 LIRKRIHLRPEDALFFFVNNTIPPTSAT-MGQLYEDNHEEDYFLYVAYSD 110
>2zjd_A Microtubule-associated proteins 1A/1B light chain 3B precursor;
autophagy, LC3, microtubule-associated protein 1 light
chain 3, cytoplasm, cytoplasmic vesicle, lipoprotein;
1.56A {Homo sapiens} SCOP: d.15.1.3 PDB: 2z0e_B 2zzp_B
2z0d_B 1ugm_A 1v49_A 2k6q_A 3eci_A
Length = 130
Score = 85.1 bits (210), Expect = 7e-23
Identities = 25/117 (21%), Positives = 57/117 (48%), Gaps = 1/117 (0%)
Query: 1 MKFQYTEKYSLEERIKIGENLARNHPNCAFVILERSPSA-LLPQMPRSNYVVAYEMTVGH 59
+ + ++ + E+R++ + HP VI+ER LP + ++ ++V + +
Sbjct: 8 SEKTFKQRRTFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMSE 67
Query: 60 FFYLLRKKMALRPEEACFFFIESMIVPADSTRMETLSQRFADKDGLIYMVYSDVNIF 116
++R+++ L +A F + + + ST + + + D+DG +YMVY+ F
Sbjct: 68 LIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESEKDEDGFLYMVYASQETF 124
>3h9d_A ATG8, microtubule-associated protein 1A/1B, light chain putative;
autophagy, lipidation, ubiquitin-like, S protein; 2.30A
{Trypanosoma brucei}
Length = 119
Score = 84.7 bits (209), Expect = 9e-23
Identities = 31/116 (26%), Positives = 57/116 (49%), Gaps = 1/116 (0%)
Query: 1 MKFQYTEKYSLEERIKIGENLARNHPNCAFVILERSPSALLPQMPRSNYVVAYEMTVGHF 60
+Y ++ E R + HP+ +I E+ ++ + ++ R ++V ++TVG F
Sbjct: 4 KDSKYKMSHTFESRQSDAAKVRERHPDRLPIICEKVYNSDIGELDRCKFLVPSDLTVGQF 63
Query: 61 FYLLRKKMALRPEEACFFFIESMIVPADSTRMETLSQRFADKDGLIYMVYSDVNIF 116
+LRK++ L E A F + V S +M + ++ D+DG +YM YS F
Sbjct: 64 VSVLRKRVQLEAESALFVYTND-TVLPSSAQMADIYSKYKDEDGFLYMKYSGEATF 118
>1wz3_A Autophagy 12B, ATG12B, APG12B; ubiquitin-fold, plant protein; 1.80A
{Arabidopsis thaliana} SCOP: d.15.1.7
Length = 96
Score = 33.0 bits (75), Expect = 0.006
Identities = 12/70 (17%), Positives = 28/70 (40%), Gaps = 4/70 (5%)
Query: 42 PQMPRSNYVVAYEMTVGHFFYLLRKKMALRPEEACFFFIESMIVPADSTRMETLSQRFAD 101
P + +S + V+ + LR+++ ++ F ++ S P + L F
Sbjct: 25 PILKQSKFKVSGSDKFANVIDFLRRQL---HSDSLFVYVNSAFSPNPDESVIDLYNNFGF 81
Query: 102 KDGLIYMVYS 111
L+ + Y+
Sbjct: 82 DGKLV-VNYA 90
>3nvz_B Xanthine dehydrogenase/oxidase; hydroxylase, homodimer, xanthine
oxidase, indole-3-aldehyde, oxidoreductase; HET: FAD MTE
I3A; 1.60A {Bos taurus} PDB: 3eub_B* 3etr_B* 3ns1_B*
3nrz_B* 3rca_B* 3sr6_B* 3nvw_B* 3nvv_B* 3nvy_B*
Length = 305
Score = 28.4 bits (64), Expect = 0.52
Identities = 11/52 (21%), Positives = 20/52 (38%), Gaps = 8/52 (15%)
Query: 54 EMTVGHFFYLLRKKMALRPEEACFFFIESMIVP----ADSTRMETLSQRFAD 101
+ + H F+ +K L PEE + S+ +P + + R D
Sbjct: 159 TVPMDHTFFPSYRKTLLGPEE----ILLSIEIPYSREDEFFSAFKQASRRED 206
>1r0v_A ENDA, tRNA-intron endonuclease, intron endonuclease; RNA splicing,
X-RAY crystallography, translati hydrolase; 2.00A
{Archaeoglobus fulgidus} SCOP: c.52.2.1 c.52.2.1
d.75.1.1 PDB: 1r11_A 1rlv_A 2gjw_A* 3p1y_A
Length = 305
Score = 25.8 bits (56), Expect = 4.0
Identities = 10/56 (17%), Positives = 21/56 (37%)
Query: 58 GHFFYLLRKKMALRPEEACFFFIESMIVPADSTRMETLSQRFADKDGLIYMVYSDV 113
F K+ L P E + I+ + + + + ++ + Y VY D+
Sbjct: 18 RGFGVKRGDKIYLHPLEVVYLQIKGIESFGELEDVLSWAESRMEDFSTYYFVYEDL 73
>1y6u_A XIS, excisionase from transposon TN916; structure, DNA
architectural protein, tyrosine recombinase,
winged-helix protein; NMR {Enterococcus faecalis}
Length = 70
Score = 24.4 bits (53), Expect = 5.2
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 9/35 (25%)
Query: 7 EKYSL--EERIK---IGEN----LARNHPNCAFVI 32
E+Y+L EE K IGEN LA + N ++I
Sbjct: 13 ERYTLTIEEASKYFRIGENKLRRLAEENKNANWLI 47
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
0.325 0.138 0.403
Gapped
Lambda K H
0.267 0.0812 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,820,901
Number of extensions: 98972
Number of successful extensions: 393
Number of sequences better than 10.0: 1
Number of HSP's gapped: 387
Number of HSP's successfully gapped: 21
Length of query: 119
Length of database: 6,701,793
Length adjustment: 81
Effective length of query: 38
Effective length of database: 4,440,192
Effective search space: 168727296
Effective search space used: 168727296
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.3 bits)