RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3814
(69 letters)
>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA
ATPase, ATP-binding, coiled coil, membrane,
nucleotide-binding, phosphorylation; HET: ATP; 3.00A
{Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A
2jq9_A 2k3w_A 1yxr_A
Length = 444
Score = 54.6 bits (131), Expect = 7e-11
Identities = 29/58 (50%), Positives = 41/58 (70%)
Query: 5 VQSSEVGFQNRDDKKESDEDDSEDPDKKKMQANLEGAIVMEKPNVKWTDVAGLEAAKK 62
V+ + G + E +S+DP+KKK+Q L+GAIV+E+PNVKW+DVAGLE AK+
Sbjct: 87 VKEEQSGPVDEKGNDSDGEAESDDPEKKKLQNQLQGAIVIERPNVKWSDVAGLEGAKE 144
>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain,
beta domain, C-terminal helix, ATP-binding, E
nucleotide-binding; 2.90A {Saccharomyces cerevisiae}
PDB: 2qpa_A*
Length = 355
Score = 54.1 bits (130), Expect = 1e-10
Identities = 22/48 (45%), Positives = 30/48 (62%)
Query: 16 DDKKESDEDDSEDPDKKKMQANLEGAIVMEKPNVKWTDVAGLEAAKKQ 63
+ + +D+ D KK++ L AI+ EKPNVKW DVAGLE AK+
Sbjct: 15 KKISQEEGEDNGGEDNKKLRGALSSAILSEKPNVKWEDVAGLEGAKEA 62
>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural
genomics consortium, ATP- hydrolase, magnesium,
metal-binding, nucleotide-binding; HET: ADP; 2.00A
{Homo sapiens}
Length = 357
Score = 47.5 bits (113), Expect = 2e-08
Identities = 13/49 (26%), Positives = 20/49 (40%)
Query: 14 NRDDKKESDEDDSEDPDKKKMQANLEGAIVMEKPNVKWTDVAGLEAAKK 62
+ D+ + KM + I+ P V W D+AG+E AK
Sbjct: 46 AGPTEPAHPVDERLKNLEPKMIELIMNEIMDHGPPVNWEDIAGVEFAKA 94
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding,
nucleotide-binding, hydrolase; 2.70A {Drosophila
melanogaster}
Length = 297
Score = 46.5 bits (111), Expect = 4e-08
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 32 KKMQANLEGAIVMEKPNVKWTDVAGLEAAKK 62
+K+ + IV V+WTD+AG + AK+
Sbjct: 1 QKLVQLILDEIVEGGAKVEWTDIAGQDVAKQ 31
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 46.4 bits (110), Expect = 6e-08
Identities = 9/50 (18%), Positives = 19/50 (38%)
Query: 13 QNRDDKKESDEDDSEDPDKKKMQANLEGAIVMEKPNVKWTDVAGLEAAKK 62
++ + + + + IV VK+ D+AG + AK+
Sbjct: 76 TPTTATRKKKDLKNFRNVDSNLANLIMNEIVDNGTAVKFDDIAGQDLAKQ 125
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 44.7 bits (106), Expect = 2e-07
Identities = 17/23 (73%), Positives = 21/23 (91%)
Query: 41 AIVMEKPNVKWTDVAGLEAAKKQ 63
AIV+E+PNVKW+DVAGLE AK+
Sbjct: 1 AIVIERPNVKWSDVAGLEGAKEA 23
>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase,
ATP-binding cassette, ATP-binding, endosome, MEM
nucleotide-binding; 2.70A {Saccharomyces cerevisiae}
PDB: 3eih_A* 2rko_A 3mhv_C
Length = 322
Score = 43.9 bits (104), Expect = 5e-07
Identities = 17/23 (73%), Positives = 19/23 (82%)
Query: 41 AIVMEKPNVKWTDVAGLEAAKKQ 63
AI+ EKPNVKW DVAGLE AK+
Sbjct: 7 AILSEKPNVKWEDVAGLEGAKEA 29
>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein;
HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A*
1e32_A* 1s3s_A* 2pjh_B
Length = 489
Score = 33.6 bits (77), Expect = 0.002
Identities = 7/22 (31%), Positives = 9/22 (40%)
Query: 42 IVMEKPNVKWTDVAGLEAAKKQ 63
V+E P V W D+ G
Sbjct: 467 TVVEVPQVTWEDIGGRSHHHHH 488
>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48, ATP-binding, lipid-binding, nucle binding,
nucleus, phosphoprotein, transport; HET: ADP; 3.00A
{Mus musculus}
Length = 301
Score = 33.4 bits (77), Expect = 0.002
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 42 IVMEKPNVKWTDVAGLEAAKKQ 63
V+E P V W D+ GLE K++
Sbjct: 5 TVVEVPQVTWEDIGGLEDVKRE 26
>1ypw_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48; HET: ADP ANP; 3.50A {Mus musculus} PDB: 1oz4_A*
1yq0_A* 1yqi_A* 1r7r_A* 3cf2_A* 3cf1_A* 3cf3_A*
Length = 806
Score = 32.8 bits (75), Expect = 0.003
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 32 KKMQANLEGAIVMEKPNVKWTDVAGLEAAKKQ 63
+ + V+E P V W D+ GLE K++
Sbjct: 457 SQSNPSALRETVVEVPQVTWEDIGGLEDVKRE 488
Score = 26.3 bits (58), Expect = 0.83
Identities = 5/19 (26%), Positives = 6/19 (31%)
Query: 45 EKPNVKWTDVAGLEAAKKQ 63
V + DV G Q
Sbjct: 197 SLNEVGYDDVGGCRKQLAQ 215
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 31.8 bits (73), Expect = 0.007
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 44 MEKPNVKWTDVAGLEAAKKQ 63
M PNV W D+ LE +++
Sbjct: 2 MTVPNVTWADIGALEDIREE 21
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 26.2 bits (57), Expect = 0.86
Identities = 12/76 (15%), Positives = 29/76 (38%), Gaps = 10/76 (13%)
Query: 1 MREVVQSSEVGFQNR----DD------KKESDEDDSEDPDKKKMQANLEGAIVMEKPNVK 50
+V+ F+N +D K + D + K+ ++ + I+ ++P K
Sbjct: 80 FDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDK 139
Query: 51 WTDVAGLEAAKKQKKK 66
++ A A + +
Sbjct: 140 KSNSALFRAVGEGNAQ 155
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 25.3 bits (56), Expect = 1.6
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 43 VMEKPNVKWTDVAGLEAAKKQ 63
V E+PNV++ D+ GLE ++
Sbjct: 8 VDERPNVRYEDIGGLEKQMQE 28
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 24.5 bits (54), Expect = 3.0
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 42 IVMEKPNVKWTDVAGLEAAK 61
++ E P V + DVAG E AK
Sbjct: 21 VLTEAPKVTFKDVAGAEEAK 40
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 24.2 bits (53), Expect = 3.6
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 42 IVMEKPNVKWTDVAGLEAAKKQ 63
++ E P V + DVAG E AK++
Sbjct: 30 VLTEAPKVTFKDVAGAEEAKEE 51
>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase,
ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET:
ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*
Length = 773
Score = 24.2 bits (53), Expect = 4.6
Identities = 6/47 (12%), Positives = 16/47 (34%)
Query: 22 DEDDSEDPDKKKMQANLEGAIVMEKPNVKWTDVAGLEAAKKQKKKNH 68
D + + D K ++ + + + + +KK +H
Sbjct: 727 DLSNFQKGDVKLSLERIKEKVDRLNELKQGKNKKKSKHSKKHHHHHH 773
>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding,
cell CELL division, hydrolase, membrane, metal-binding;
3.30A {Helicobacter pylori} PDB: 2r65_A*
Length = 268
Score = 23.8 bits (52), Expect = 5.5
Identities = 11/17 (64%), Positives = 14/17 (82%)
Query: 45 EKPNVKWTDVAGLEAAK 61
EKPNV++ D+AG E AK
Sbjct: 4 EKPNVRFKDMAGNEEAK 20
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
0.302 0.122 0.331
Gapped
Lambda K H
0.267 0.0499 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 957,331
Number of extensions: 42374
Number of successful extensions: 53
Number of sequences better than 10.0: 1
Number of HSP's gapped: 53
Number of HSP's successfully gapped: 23
Length of query: 69
Length of database: 6,701,793
Length adjustment: 39
Effective length of query: 30
Effective length of database: 5,612,874
Effective search space: 168386220
Effective search space used: 168386220
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 17 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.8 bits)
S2: 51 (24.0 bits)