RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7717
(113 letters)
>1wz3_A Autophagy 12B, ATG12B, APG12B; ubiquitin-fold, plant protein; 1.80A
{Arabidopsis thaliana} SCOP: d.15.1.7
Length = 96
Score = 108 bits (270), Expect = 3e-32
Identities = 37/98 (37%), Positives = 60/98 (61%), Gaps = 3/98 (3%)
Query: 16 SSPSIGAEAKVKVPILLRATGDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFI 75
+ + K+ + LRATG APIL + K+ V A++I F ++ + S+SLF+
Sbjct: 2 PMATESPNSVQKIVVHLRATGGAPILKQSKFKVSGSDKFANVIDFLRRQLH---SDSLFV 58
Query: 76 YVNQSFAPSPDTTIRALYDSFATNGSLVLNYCKTQAWG 113
YVN +F+P+PD ++ LY++F +G LV+NY + AWG
Sbjct: 59 YVNSAFSPNPDESVIDLYNNFGFDGKLVVNYACSMAWG 96
>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 = 65.1 bits (158), Expect = 4e-15
Identities = 20/80 (25%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 35 TGDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYD 94
P+L K K+LV N++ +I ++ ++++ +++ F+ VN S T I +Y+
Sbjct: 46 EKQLPVLDKTKFLVPDHVNMSELIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYE 105
Query: 95 SFATN-GSLVLNYCKTQAWG 113
S G L + Y + +G
Sbjct: 106 SEKDEDGFLYMVYASQETFG 125
>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 = 46.9 bits (111), Expect = 4e-08
Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 37 DAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSF 96
P L K+K+LV D V +K I + P ++LF +VN + P T+ LY+
Sbjct: 39 RVPDLDKRKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNTI-PPTSATMGQLYEDN 97
>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 = 46.9 bits (111), Expect = 4e-08
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 2/78 (2%)
Query: 37 DAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSF 96
+ K+K+LV D VA + +K I++ +++F++V+++ P T+ LY+
Sbjct: 40 QIVDIDKRKYLVPSDITVAQFMWIIRKRIQLPSEKAIFLFVDKTV-PQSSLTMGQLYEKE 98
Query: 97 ATN-GSLVLNYCKTQAWG 113
G L + Y +G
Sbjct: 99 KDEDGFLYVAYSGENTFG 116
>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 = 46.5 bits (110), Expect = 6e-08
Identities = 22/78 (28%), Positives = 38/78 (48%), Gaps = 2/78 (2%)
Query: 37 DAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSF 96
D P + K+K+LV D V + +K I + P +++FI+VN + P + A+Y
Sbjct: 42 DIPEIDKRKYLVPADLTVGQFVYVIRKRIMLPPEKAIFIFVNDTL-PPTAALMSAIYQEH 100
Query: 97 A-TNGSLVLNYCKTQAWG 113
+G L + Y +G
Sbjct: 101 KDKDGFLYVTYSGENTFG 118
>3m95_A Autophagy related protein ATG8; alpha slash beta, receptor,
transport protein; 2.40A {Bombyx mori}
Length = 125
Score = 45.8 bits (108), Expect = 1e-07
Identities = 21/78 (26%), Positives = 33/78 (42%), Gaps = 2/78 (2%)
Query: 37 DAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSF 96
L KKK+LV D V +K I + P ++LF +VN P T+ +LY
Sbjct: 48 RLGDLDKKKYLVPSDLTVGQFYFLIRKRIHLRPEDALFFFVNNVI-PPTSATMGSLYQEH 106
Query: 97 A-TNGSLVLNYCKTQAWG 113
+ L + + +G
Sbjct: 107 HDEDFFLYIAFSDENVYG 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 = 42.3 bits (99), Expect = 2e-06
Identities = 18/78 (23%), Positives = 34/78 (43%), Gaps = 2/78 (2%)
Query: 37 DAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSF 96
D L + K+LV D V +S +K ++++ +LF+Y N + + +Y +
Sbjct: 43 DIGELDRCKFLVPSDLTVGQFVSVLRKRVQLEAESALFVYTNDTV-LPSSAQMADIYSKY 101
Query: 97 ATN-GSLVLNYCKTQAWG 113
G L + Y +G
Sbjct: 102 KDEDGFLYMKYSGEATFG 119
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.4 bits (62), Expect = 0.36
Identities = 5/22 (22%), Positives = 12/22 (54%), Gaps = 5/22 (22%)
Query: 11 EGS----AP-SSPSIGAEAKVK 27
+ S A S+P++ +A ++
Sbjct: 26 QASLKLYADDSAPALAIKATME 47
Score = 24.9 bits (53), Expect = 6.9
Identities = 8/22 (36%), Positives = 10/22 (45%), Gaps = 4/22 (18%)
Query: 23 EAKVKVPILLRATGDAPILTKK 44
+A +K L A AP L K
Sbjct: 26 QASLK----LYADDSAPALAIK 43
>3ues_A Alpha-1,3/4-fucosidase; TIM barrel, hydrolase-hydrolase inhibitor
complex; HET: DFU; 1.60A {Bifidobacterium longum subsp}
PDB: 3mo4_A* 3uet_A*
Length = 478
Score = 26.1 bits (57), Expect = 3.1
Identities = 7/22 (31%), Positives = 9/22 (40%)
Query: 84 SPDTTIRALYDSFATNGSLVLN 105
S D + N SL+LN
Sbjct: 302 SADQLFDLWLSAVGGNSSLLLN 323
>1vyr_A Pentaerythritol tetranitrate reductase; oxidoreductase,
flavoenzyme, explosive degradation, steroid binding;
HET: FMN TNF; 0.9A {Enterobacter cloacae} SCOP: c.1.4.1
PDB: 1gvq_A* 1gvr_A* 1gvs_A* 1h50_A* 1h51_A* 1h60_A*
1h61_A* 1h62_A* 1h63_A* 1gvo_A* 2aba_A* 3f03_K* 3kft_A*
3p7y_A* 3p80_A* 3p81_A* 3p62_A* 3p8i_A* 2abb_A* 3p67_A*
...
Length = 364
Score = 25.9 bits (58), Expect = 3.3
Identities = 7/25 (28%), Positives = 11/25 (44%), Gaps = 1/25 (4%)
Query: 6 TDNTPEGSAPSSPS-IGAEAKVKVP 29
+ P G AP S S + A + +
Sbjct: 110 SSIQPGGQAPVSASALNANTRTSLR 134
>3gza_A Putative alpha-L-fucosidase; NP_812709.1, structural genomic center
for structural genomics, JCSG; HET: MSE EPE; 1.60A
{Bacteroides thetaiotaomicron vpi-5482}
Length = 443
Score = 26.0 bits (57), Expect = 3.4
Identities = 5/22 (22%), Positives = 9/22 (40%)
Query: 84 SPDTTIRALYDSFATNGSLVLN 105
+T + S N +L+L
Sbjct: 295 PLNTLMDKYEKSVGRNATLILG 316
>3cf4_A Acetyl-COA decarboxylase/synthase alpha subunit; methanomicrobia,
iron-nikel-sulfur, 4Fe-NI-4S, oxidoreductas; 2.00A
{Methanosarcina barkeri}
Length = 807
Score = 25.5 bits (55), Expect = 5.2
Identities = 12/57 (21%), Positives = 23/57 (40%), Gaps = 4/57 (7%)
Query: 28 VPILLRATGDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPS 84
+R D P+ T++ L +++ I + +K I P I + S P+
Sbjct: 746 WWKFVRTEADLPLATREALLKELEKEHGWEIDWKRKKIISGPK----IKFDVSAQPT 798
>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 386
Score = 24.6 bits (53), Expect = 9.0
Identities = 7/30 (23%), Positives = 13/30 (43%)
Query: 47 LVHVDQNVASIISFTKKSIKMDPSESLFIY 76
L H + + I S + + ++FIY
Sbjct: 22 LPHREDQIRKIASILAPLYREEKPNNIFIY 51
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
0.313 0.128 0.368
Gapped
Lambda K H
0.267 0.0563 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,596,277
Number of extensions: 76989
Number of successful extensions: 133
Number of sequences better than 10.0: 1
Number of HSP's gapped: 132
Number of HSP's successfully gapped: 20
Length of query: 113
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 36
Effective length of database: 4,551,876
Effective search space: 163867536
Effective search space used: 163867536
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (23.8 bits)