RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8938
(75 letters)
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 52.5 bits (126), Expect = 5e-10
Identities = 14/74 (18%), Positives = 29/74 (39%), Gaps = 2/74 (2%)
Query: 2 EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
+ K N + + ++ + + V ++ IAG D + L++ VI P
Sbjct: 78 TTATRKKKDLKNFRNVDSNLANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLR 137
Query: 62 KEMFAKSKLTKAPK 75
E+F + L +
Sbjct: 138 PELF--TGLRAPAR 149
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding,
nucleotide-binding, hydrolase; 2.70A {Drosophila
melanogaster}
Length = 297
Score = 50.8 bits (122), Expect = 2e-09
Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 2/53 (3%)
Query: 23 SIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK 75
+ + V W IAG D + L++ VI P E+F + L K
Sbjct: 5 QLILDEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELF--TGLRAPAK 55
>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 = 50.1 bits (120), Expect = 3e-09
Identities = 13/74 (17%), Positives = 31/74 (41%), Gaps = 2/74 (2%)
Query: 2 EAERKLKTLKINMDSFTDHEMSIASHLVDPADINVSWEHIAGLDGTIKDLKQTVIFPIKH 61
+ + + + + + + V+WE IAG++ +K+ V++P+
Sbjct: 47 GPTEPAHPVDERLKNLEPKMIELIMNEIMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLR 106
Query: 62 KEMFAKSKLTKAPK 75
++F + L PK
Sbjct: 107 PDIF--TGLRGPPK 118
>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 = 47.6 bits (114), Expect = 2e-08
Identities = 13/41 (31%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK 75
V+WE I GL+ ++L++ V +P++H + F K + K
Sbjct: 11 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGM-TPSK 50
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 47.2 bits (113), Expect = 3e-08
Identities = 10/41 (24%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK 75
NV+W I L+ ++L ++ P+++ + F L P
Sbjct: 6 NVTWADIGALEDIREELTMAILAPVRNPDQFKALGL-VTPA 45
>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 = 45.2 bits (107), Expect = 2e-07
Identities = 13/41 (31%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK 75
V+WE I GL+ ++L++ V +P++H + F K + K
Sbjct: 473 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGM-TPSK 512
Score = 39.8 bits (93), Expect = 1e-05
Identities = 7/39 (17%), Positives = 18/39 (46%)
Query: 29 VDPADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK 67
+ + V ++ + G + +K+ V P++H +F
Sbjct: 194 EEESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKA 232
Score = 30.9 bits (70), Expect = 0.020
Identities = 6/36 (16%), Positives = 11/36 (30%)
Query: 36 VSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLT 71
VS I + + L+Q+ F +
Sbjct: 747 VSDNDIRKYEMFAQTLQQSRGFGSFRFPSGNQGGAG 782
>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 = 44.3 bits (105), Expect = 3e-07
Identities = 15/31 (48%), Positives = 21/31 (67%)
Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMF 65
NV WE +AGL+G + LK+ VI P+K +F
Sbjct: 14 NVKWEDVAGLEGAKEALKEAVILPVKFPHLF 44
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 44.3 bits (105), Expect = 3e-07
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 33 DINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAKSKLTKAPK 75
NV W +AGL+G + LK+ VI PIK +F + +
Sbjct: 6 RPNVKWSDVAGLEGAKEALKEAVILPIKFPHLF--TGKRTPWR 46
>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 = 42.9 bits (101), Expect = 1e-06
Identities = 15/31 (48%), Positives = 21/31 (67%)
Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMF 65
NV WE +AGL+G + LK+ VI P+K +F
Sbjct: 47 NVKWEDVAGLEGAKEALKEAVILPVKFPHLF 77
>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 = 41.1 bits (96), Expect = 6e-06
Identities = 15/35 (42%), Positives = 20/35 (57%)
Query: 31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEMF 65
NV W +AGL+G + LK+ VI PIK +F
Sbjct: 126 IERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLF 160
>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 = 38.6 bits (90), Expect = 4e-05
Identities = 8/33 (24%), Positives = 16/33 (48%)
Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK 67
V ++ I G + +K+ V P++H +F
Sbjct: 200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKA 232
Score = 25.5 bits (56), Expect = 1.9
Identities = 11/55 (20%), Positives = 18/55 (32%), Gaps = 17/55 (30%)
Query: 7 LKTLKINMDSFTDHEMSIASHLVDPADI--------NVSWEHIAGLDGTIKDLKQ 53
+ +L + MD F A +P+ + V+WE I G
Sbjct: 442 MNSLAVTMDDFRW-----ALSQSNPSALRETVVEVPQVTWEDIGGRS----HHHH 487
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 37.2 bits (87), Expect = 1e-04
Identities = 13/33 (39%), Positives = 23/33 (69%)
Query: 35 NVSWEHIAGLDGTIKDLKQTVIFPIKHKEMFAK 67
NV +E I GL+ ++++++ V P+KH E+F K
Sbjct: 13 NVRYEDIGGLEKQMQEIREVVELPLKHPELFEK 45
>2wqr_A IG epsilon chain C region; immune system, immunoglobulin domain,
glycoprotein; HET: NAG BMA MAN PG4; 1.90A {Homo sapiens}
PDB: 2y7q_B* 1o0v_A* 3h9y_A* 3h9z_A* 3ha0_A* 1fp5_A
1f6a_B 1g84_A
Length = 323
Score = 25.4 bits (55), Expect = 2.0
Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 5/43 (11%)
Query: 31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEM--FAKSKLT 71
P DI+V W H + + D + + P K K F S+L
Sbjct: 248 PEDISVQWLH---NEVQLPDARHSTTQPRKTKGSGFFVFSRLE 287
>1iqc_A DI-heme peroxidase; proteobacteria, B subdivision,
ammonia-oxidizing bacteria, oxidoreductase; HET: HEM;
1.80A {Nitrosomonas europaea} SCOP: a.3.1.5 a.3.1.5
Length = 308
Score = 25.3 bits (56), Expect = 2.0
Identities = 14/35 (40%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 31 PADINVSWEHIAGLDGTIKDLKQTVIFPIK-HKEM 64
P +N S DG KDLK+ PI KEM
Sbjct: 69 PTVLNSSMNLAQFWDGRAKDLKEQAAGPIANPKEM 103
>1nml_A DI-HAEM cytochrome C peroxidase; oxidoreductase, electron
transport; HET: HEM CIT; 2.20A {Marinobacter
hydrocarbonoclasticus} SCOP: a.3.1.5 a.3.1.5 PDB:
1rz5_A* 1rz6_A*
Length = 326
Score = 25.3 bits (56), Expect = 2.2
Identities = 9/35 (25%), Positives = 13/35 (37%), Gaps = 1/35 (2%)
Query: 31 PADINVSWEHIAGLDGTIKDLKQTVIFPIK-HKEM 64
P N + DG DL + P++ EM
Sbjct: 81 PTVFNAVFNAAQFWDGRAADLAEQAKGPVQAGVEM 115
>3o5c_A Cytochrome C551 peroxidase; diheme cytochrome, hydrogen peroxide,
oxidoreductase; HET: HEM; 1.80A {Shewanella oneidensis}
Length = 320
Score = 25.3 bits (56), Expect = 2.2
Identities = 11/35 (31%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 31 PADINVSWEHIAGLDGTIKDLKQTVIFPIK-HKEM 64
P +N + DG +LK+ PI KEM
Sbjct: 77 PTVLNADFMLAQFWDGRASNLKEQAAGPIANPKEM 111
>2rgs_A I, IG gamma-2B heavy chain; FC-fragment, immunoglobulin,
glycosylation, immune system; HET: NAG FUC MAN GAL;
2.13A {Mus musculus}
Length = 218
Score = 25.3 bits (55), Expect = 2.2
Identities = 11/43 (25%), Positives = 18/43 (41%), Gaps = 7/43 (16%)
Query: 31 PADINVSWEHIAGLDGTIKDLKQTVIFPIKHKEM--FAKSKLT 71
P DI+V W +G ++ + P+ + F SKL
Sbjct: 146 PGDISVEWTS----NGHTEENYKD-TAPVLDSDGSYFIYSKLN 183
>1zzh_A Cytochrome C peroxidase; heme groups, oxidoreductase; HET: HEC;
2.70A {Rhodobacter capsulatus}
Length = 328
Score = 24.6 bits (54), Expect = 3.3
Identities = 9/35 (25%), Positives = 13/35 (37%), Gaps = 1/35 (2%)
Query: 31 PADINVSWEHIAGLDGTIKDLKQTVIFPIK-HKEM 64
P +N + DG DL P++ EM
Sbjct: 84 PTALNAVFNVAQFWDGRAPDLAAQAKGPVQAGVEM 118
>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA;
metallochaperone, metal-binding, metal- binding
protein; NMR {Helicobacter pylori}
Length = 119
Score = 24.4 bits (53), Expect = 3.4
Identities = 5/11 (45%), Positives = 7/11 (63%)
Query: 20 HEMSIASHLVD 30
HE S+ S L+
Sbjct: 4 HEYSVVSSLIA 14
>2c1v_A DI-HAEM cytochrome C peroxidase; electron transport, heme,
oxidoreductase, periplasmic; HET: HEC; 1.2A {Paracoccus
pantotrophus} PDB: 2c1u_A*
Length = 338
Score = 24.6 bits (54), Expect = 3.4
Identities = 9/35 (25%), Positives = 14/35 (40%), Gaps = 1/35 (2%)
Query: 31 PADINVSWEHIAGLDGTIKDLKQTVIFPIK-HKEM 64
P +N + DG DL + P++ EM
Sbjct: 95 PTMLNAIFNAAQFWDGRAADLAEQAKGPVQAGVEM 129
>3a43_A HYPD, hydrogenase nickel incorporation protein HYPA; [NIFE]
hydrogenase maturation, zinc-finger, nickel binding,
metal-binding; HET: FME; 2.30A {Pyrococcus
kodakaraensis} PDB: 3a44_A*
Length = 139
Score = 24.6 bits (53), Expect = 3.5
Identities = 4/11 (36%), Positives = 7/11 (63%)
Query: 20 HEMSIASHLVD 30
HE ++A +V
Sbjct: 2 HEWALADAIVR 12
>2vhd_A Cytochrome C551 peroxidase; iron, heme, transport, metal-binding,
oxidoreduc electron transport; HET: HEC; 2.3A
{Pseudomonas aeruginosa} SCOP: a.3.1.5 a.3.1.5 PDB:
1eb7_A*
Length = 323
Score = 24.6 bits (54), Expect = 3.7
Identities = 11/35 (31%), Positives = 14/35 (40%), Gaps = 1/35 (2%)
Query: 31 PADINVSWEHIAGLDGTIKDLKQTVIFPIK-HKEM 64
P N + DG KDL + PI+ EM
Sbjct: 81 PTVFNAVFNAAQFWDGRAKDLGEQAKGPIQNSVEM 115
>3hq9_A Cytochrome C551 peroxidase; oxidoreductase; HET: HEM; 1.52A
{Geobacter sulfurreducens} PDB: 3hq6_A* 3hq8_A* 3hq7_A*
Length = 345
Score = 24.2 bits (53), Expect = 4.1
Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 31 PADINVSWEHIAGLDGTIKDLKQTVIFPIK-HKEM 64
P +N + DG KDL + P++ EM
Sbjct: 103 PTVLNSVFNTAQFWDGRAKDLAEQAKGPVQAPVEM 137
>4dkw_A Large terminase protein; DNA-packaging, small terminase, nuclease
FO endonuclease, DNA, DNA-packaging motor, hydrolase;
2.02A {Enterobacteria phage P22}
Length = 211
Score = 24.0 bits (51), Expect = 5.4
Identities = 3/25 (12%), Positives = 8/25 (32%)
Query: 21 EMSIASHLVDPADINVSWEHIAGLD 45
++ + P + + I D
Sbjct: 9 QIPEETIKCQPFECPDHFYVIDAQD 33
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 24.1 bits (52), Expect = 6.9
Identities = 5/25 (20%), Positives = 11/25 (44%), Gaps = 1/25 (4%)
Query: 1 MEAERKLKTLKINMDSFTDH-EMSI 24
A++K+ SF + E ++
Sbjct: 2203 QYADKKITKTSFLDSSFMKNLESAL 2227
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
0.316 0.130 0.369
Gapped
Lambda K H
0.267 0.0505 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,087,678
Number of extensions: 50777
Number of successful extensions: 161
Number of sequences better than 10.0: 1
Number of HSP's gapped: 161
Number of HSP's successfully gapped: 31
Length of query: 75
Length of database: 6,701,793
Length adjustment: 44
Effective length of query: 31
Effective length of database: 5,473,269
Effective search space: 169671339
Effective search space used: 169671339
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.0 bits)