RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16020
(151 letters)
>3nol_A Glutamine cyclotransferase; beta-propeller, glutaminyl cyclase,
pyrogl transferase; 1.70A {Zymomonas mobilis} PDB:
3nom_A
Length = 262
Score = 31.4 bits (70), Expect = 0.077
Identities = 13/83 (15%), Positives = 27/83 (32%), Gaps = 2/83 (2%)
Query: 33 ADGSVAIFRRGPDGQWDLSKYHTVTLGLPHHSVRSLAAVYNKVWCG--YKNKIHVVDPKS 90
+DG+ + P+ + G + L V +++ NKI +DP++
Sbjct: 142 SDGTPVLRFLDPESLTPVRTITVTAHGEELPELNELEWVDGEIFANVWQTNKIVRIDPET 201
Query: 91 LVVLKSFDAHPRRESQVRQMTWA 113
V D + +
Sbjct: 202 GKVTGIIDLNGILAEAGPLPSPI 224
>1pby_B Quinohemoprotein amine dehydrogenase 40 kDa subunit;
oxidoreductase; HET: TRW HEM; 1.70A {Paracoccus
denitrificans} SCOP: b.69.2.2 PDB: 1jju_B*
Length = 337
Score = 29.0 bits (64), Expect = 0.56
Identities = 11/69 (15%), Positives = 24/69 (34%), Gaps = 3/69 (4%)
Query: 77 CGYKNKIHVVDPKSLVVLKSFDAHPRRESQVRQMTWAGDG--VWVSIRLDSTLRMYNAHT 134
+K+ V+D + + V K A G + ++ +L + T
Sbjct: 7 PARPDKLVVIDTEKMAVDKVITI-ADAGPTPMVPMVAPGGRIAYATVNKSESLVKIDLVT 65
Query: 135 YQHLQDVDI 143
+ L +D+
Sbjct: 66 GETLGRIDL 74
>3vgz_A Uncharacterized protein YNCE; beta-propeller, protein binding;
1.70A {Escherichia coli} PDB: 3vh0_A*
Length = 353
Score = 28.2 bits (63), Expect = 0.97
Identities = 17/87 (19%), Positives = 32/87 (36%), Gaps = 10/87 (11%)
Query: 54 HTVTLGLPHHSVRSLAAVYNKVW--CGYKNKIHVVDPKSLVVLKSFDAHPRRESQVRQMT 111
V + + N+ + K+ V+D KS V+K+FD +
Sbjct: 267 AKVAAPESLAVLFN--PARNEAYVTHRQAGKVSVIDAKSYKVVKTFDTPTH----PNSLA 320
Query: 112 WAGDG--VWVSIRLDSTLRMYNAHTYQ 136
+ DG ++VS++ ST +
Sbjct: 321 LSADGKTLYVSVKQKSTKQQEATQPDD 347
>3rob_A Uncharacterized conserved protein; structural genomics,
PSI-biology, protein structure initiati midwest center
for structural genomics; 1.48A {Planctomyces
limnophilus}
Length = 139
Score = 27.4 bits (60), Expect = 1.5
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 26 GRVVCALADGSVAIFRRGPDGQWDLSKYH 54
G V LA +++IFRR G+W L++
Sbjct: 105 GGAVRELAGHAMSIFRRSMFGEWQLARDA 133
>3ott_A Two-component system sensor histidine kinase; beta-propeller,
beta-sandwich, transcription; HET: TBR; 2.30A
{Bacteroides thetaiotaomicron}
Length = 758
Score = 28.1 bits (63), Expect = 1.5
Identities = 11/68 (16%), Positives = 22/68 (32%), Gaps = 2/68 (2%)
Query: 25 QGRVVCALADGSVAIF-RRGPDGQWDLSKYHTVTLGLPHHSVRSLAAVY-NKVWCGYKNK 82
+G A+G + G + T L H+ +R + ++W
Sbjct: 334 KGFYWFGGANGLIRFTDPAGERHDAIWYRMGDKTYPLSHNRIRHIYEDKEQQLWIATDGS 393
Query: 83 IHVVDPKS 90
I+ D +
Sbjct: 394 INRYDYAT 401
>3lrv_A PRE-mRNA-splicing factor 19; PRP19, WD40, E3 ubiquitin ligase,
spliceosome, DNA damage, D repair, mRNA processing,
nucleus; 2.60A {Saccharomyces cerevisiae}
Length = 343
Score = 27.8 bits (61), Expect = 1.6
Identities = 14/125 (11%), Positives = 37/125 (29%), Gaps = 14/125 (11%)
Query: 12 NKILDTALPPVHVQGRVVCALADGSVAIFRRGPDGQWDLSKYHTVTLGLPHH--SVRSLA 69
N+I+ + A G++ + S
Sbjct: 126 NEIIYMYGHNEVNTEYFIWADNRGTIGF--------QSYEDDSQYIVHSAKSDVEYSSGV 177
Query: 70 AVYNKVWC---GYKNKIHVVDPKSLVVLKSFDAHPRRESQVRQMTWAGDGVWVSIRLDST 126
+ + + V + S S E++++++ +A +G W+ + D T
Sbjct: 178 LHKDSLLLALYSPDGILDVYNLSSPDQASSRFPVDE-EAKIKEVKFADNGYWMVVECDQT 236
Query: 127 LRMYN 131
+ ++
Sbjct: 237 VVCFD 241
>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 = 27.2 bits (59), Expect = 1.6
Identities = 3/12 (25%), Positives = 10/12 (83%), Gaps = 1/12 (8%)
Query: 120 SIR-LDSTLRMY 130
+++ L ++L++Y
Sbjct: 21 ALKKLQASLKLY 32
>3d9r_A Ketosteroid isomerase-like protein; YP_049581.1, structural joint
center for structural genomics, JCSG, protein structu
initiative; HET: MSE; 2.40A {Pectobacterium
atrosepticum} SCOP: d.17.4.27
Length = 135
Score = 27.0 bits (59), Expect = 1.8
Identities = 8/34 (23%), Positives = 14/34 (41%)
Query: 22 VHVQGRVVCALADGSVAIFRRGPDGQWDLSKYHT 55
+ VV A + + R+ G W ++Y T
Sbjct: 97 TNKATGVVTPAAYQELFLLRKSATGSWQTARYCT 130
>3bws_A Protein LP49; two-domain, immunoglobulin-like, 7-bladed beta
propeller, unknown function; 1.99A {Leptospira
interrogans}
Length = 433
Score = 27.6 bits (61), Expect = 1.8
Identities = 5/68 (7%), Positives = 21/68 (30%), Gaps = 6/68 (8%)
Query: 81 NKIHVVDPKSLVVLKSFDAHPRRESQVRQMTWAGDG--VWVSIRLDSTLRMYNAHTYQHL 138
++ + ++ + R + ++VS S + +Y+ +
Sbjct: 283 GRLGIYSMDKEKLIDTIGPPGN----KRHIVSGNTENKIYVSDMCCSKIEVYDLKEKKVQ 338
Query: 139 QDVDIEPY 146
+ + +
Sbjct: 339 KSIPVFDK 346
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 27.5 bits (61), Expect = 2.1
Identities = 6/26 (23%), Positives = 13/26 (50%), Gaps = 1/26 (3%)
Query: 66 RSLAAVYNKVWCGYKNKIHVVDPKSL 91
+++ G+ N ++V+D K L
Sbjct: 941 KTVIDAMAIF-DGHANVVYVIDTKVL 965
>2jo6_A Nitrite reductase [NAD(P)H] small subunit; all beta, ISP domain,
rieske iron-sulfur protein, 3-layer sandwich,
structural genomics, PSI-2; NMR {Escherichia coli}
SCOP: b.33.1.3
Length = 113
Score = 26.2 bits (58), Expect = 2.3
Identities = 11/31 (35%), Positives = 12/31 (38%), Gaps = 5/31 (16%)
Query: 19 LPPVHVQGRVVCALADG-SVAIFRRGPDGQW 48
+ P VCAL VAIFR Q
Sbjct: 16 ILP----ETGVCALLGDEQVAIFRPYHSDQV 42
>1vbk_A Hypothetical protein PH1313; structural genomics, riken structural
genomics/proteomics initiative, RSGI, NPPSFA; 1.90A
{Pyrococcus horikoshii} SCOP: c.26.2.6 d.308.1.1
Length = 307
Score = 27.1 bits (60), Expect = 2.3
Identities = 19/76 (25%), Positives = 33/76 (43%), Gaps = 15/76 (19%)
Query: 21 PVHVQGRVVCALADG--SVAIF---RRGPDGQWDLSKYHTVTLGLPHHS---VRSLAAVY 72
P+ +GR++ L D ++AIF +RG + V +G + VRSL +
Sbjct: 175 PIGTEGRMIGILHDELSALAIFLMMKRG-------VEVIPVYIGKDDKNLEKVRSLWNLL 227
Query: 73 NKVWCGYKNKIHVVDP 88
+ G K + V +
Sbjct: 228 KRYSYGSKGFLVVAES 243
>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport
protein; 2.50A {Saccharomyces cerevisiae}
Length = 814
Score = 27.4 bits (61), Expect = 2.5
Identities = 10/60 (16%), Positives = 27/60 (45%), Gaps = 4/60 (6%)
Query: 81 NKIHVVDPKSLVVLKSFDAHPRRESQVRQMTWAGDGVW-VSIRLDSTLRMYNAHTYQHLQ 139
++ + + ++ V ++S E+ VR + W + D +R++N +T + +
Sbjct: 35 GRVEIWNYETQVEVRSIQVT---ETPVRAGKFIARKNWIIVGSDDFRIRVFNYNTGEKVV 91
>1lu9_A Methylene tetrahydromethanopterin dehydrogenase; alpha/beta
twisted open sheet structure, oxidoreductase; 1.90A
{Methylobacterium extorquens} SCOP: c.2.1.7 c.58.1.4
PDB: 1lua_A*
Length = 287
Score = 27.2 bits (60), Expect = 2.5
Identities = 10/47 (21%), Positives = 15/47 (31%), Gaps = 6/47 (12%)
Query: 4 PHPTPYPLNKILD----TALPPVHVQGRVVCALADGSVAIFRRGPDG 46
P+ + + D +V V A DG I+ RG
Sbjct: 12 ATPSVFDVVVGYDGGADHITGYGNVTPDNVGAYVDG--TIYTRGGKE 56
>2jza_A Nitrite reductase [NAD(P)H] small subunit; ISP domain, rieske
iron-sulfur protein, 3-layer beta- sandwich; NMR
{Pectobacterium atrosepticum SCRI1043} SCOP: b.33.1.3
Length = 130
Score = 25.9 bits (57), Expect = 4.4
Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 24 VQGRVVCALADG-SVAIFRRGPDGQW 48
+ G VCAL + +A+FR D Q
Sbjct: 14 LPGTGVCALVEQQQIAVFRPRNDEQV 39
>4aez_A CDC20, WD repeat-containing protein SLP1; cell cycle, KEN-BOX,
D-BOX, APC/C; 2.30A {Schizosaccharomyces pombe}
Length = 401
Score = 26.0 bits (58), Expect = 5.1
Identities = 12/66 (18%), Positives = 25/66 (37%), Gaps = 7/66 (10%)
Query: 81 NKIHVVDPKSLVVLKSFDAHPRRESQVRQMTWAGDGVWV----SIRLDSTLRMYNAHTYQ 136
N + + D +S + + H + V+ + W + +D + +NA T
Sbjct: 239 NVVQIWDARSSIPKFTKTNH---NAAVKAVAWCPWQSNLLATGGGTMDKQIHFWNAATGA 295
Query: 137 HLQDVD 142
+ VD
Sbjct: 296 RVNTVD 301
>1nr0_A Actin interacting protein 1; beta propeller, WD40 repeat, ADF,
cofilin, structural genomics, PSI, protein structure
initiative; 1.70A {Caenorhabditis elegans} SCOP:
b.69.4.1 b.69.4.1 PDB: 1pev_A
Length = 611
Score = 26.4 bits (59), Expect = 5.1
Identities = 15/113 (13%), Positives = 34/113 (30%), Gaps = 20/113 (17%)
Query: 36 SVAIFRRGPDGQ-------------WDLSKYHTVTLGLPHHS--VRSLAAVYN--KVWCG 78
+++ DG+ WD+S + + H+ + +
Sbjct: 329 ALSSS---ADGKTLFSADAEGHINSWDISTGISNRVFPDVHATMITGIKTTSKGDLFTVS 385
Query: 79 YKNKIHVVDPKSLVVLKSFDAHPRRESQVRQMTWAGDGVWVSIRLDSTLRMYN 131
+ + + VV V S + SQ + + DG + +Y+
Sbjct: 386 WDDHLKVVPAGGSGVDSSKAVANKLSSQPLGLAVSADGDIAVAACYKHIAIYS 438
>4a2l_A BT_4663, two-component system sensor histidine kinase/RESP;
transcription, beta-propeller; HET: PGE PG4 MES 2PE;
2.60A {Bacteroides thetaiotaomicron} PDB: 4a2m_A*
Length = 795
Score = 26.1 bits (58), Expect = 5.8
Identities = 9/96 (9%), Positives = 30/96 (31%), Gaps = 4/96 (4%)
Query: 59 GLPHHSVRSLAAVYN-KVWCGYKNKIHVVDPKSLVVLKSFDAHPRRESQVRQMTWAGDGV 117
H V + + ++ + + D K + + ++ + GD +
Sbjct: 127 NGKHLQVNGIEEISPEQLLISTPEGLIMFDIKESKFIDDSFSTAMHKTIASTLYRQGDQI 186
Query: 118 WVSIRLDSTLRMYNAHT--YQHLQDVDIEPYVSKML 151
++ L Y+ ++ + + + +L
Sbjct: 187 YIGTS-TDGLYTYSITQKTFEKVIPILGTKQIQAIL 221
>2jae_A L-amino acid oxidase; oxidoreductase, dimerisation mode, hydride
transfer mechanism, GR2-family, flavoenzyme, FAD
containing; HET: FAD; 1.25A {Rhodococcus opacus} PDB:
2jb1_A* 2jb2_A* 2jb3_A*
Length = 489
Score = 26.0 bits (57), Expect = 6.1
Identities = 6/31 (19%), Positives = 11/31 (35%)
Query: 102 RRESQVRQMTWAGDGVWVSIRLDSTLRMYNA 132
++V M +GV V + + A
Sbjct: 255 VFGAEVTSMKNVSEGVTVEYTAGGSKKSITA 285
>2gxf_A Hypothetical protein YYBH; alpha-beta protein., structural
genomics, PSI, protein structure initiative; HET: MES;
3.10A {Bacillus subtilis} SCOP: d.17.4.22
Length = 142
Score = 25.5 bits (55), Expect = 6.5
Identities = 3/13 (23%), Positives = 8/13 (61%)
Query: 36 SVAIFRRGPDGQW 48
+ +F++ G+W
Sbjct: 102 ATYVFKKNAQGEW 114
>1omh_A TRWC protein; protein-DNA complex, bacterial conjugation, relaxase,
DNA replication, transferase/DNA complex; HET: DNA;
1.95A {Escherichia coli} SCOP: d.89.1.5 PDB: 1osb_A*
1qx0_A* 1s6m_A* 1zm5_A* 2cdm_A
Length = 293
Score = 25.8 bits (56), Expect = 6.6
Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 7/50 (14%)
Query: 98 DAHPRRESQVRQMTWAGDGVWVSIRLDSTLR-------MYNAHTYQHLQD 140
D + + MT DG W +++ D ++ +YNA LQ
Sbjct: 157 DPQLHTHAVILNMTKRSDGQWRALKNDEIVKATRYLGAVYNAELAHELQK 206
>1l0q_A Surface layer protein; SLP, S-layer, 7-bladed beta-propeller
superfamily, protein binding; HET: YCM; 2.40A
{Methanosarcina mazei} SCOP: b.1.3.1 b.69.2.3
Length = 391
Score = 25.5 bits (56), Expect = 7.5
Identities = 9/67 (13%), Positives = 25/67 (37%), Gaps = 6/67 (8%)
Query: 81 NKIHVVDPKSLVVLKSFDAHPRRESQVRQMTWAGDG--VWVSIRLDSTLRMYNAHTYQHL 138
+ V++ + V+ + + + DG V+V+ ++ + + T +
Sbjct: 138 KTVSVINTVTKAVINTVSVGRS----PKGIAVTPDGTKVYVANFDSMSISVIDTVTNSVI 193
Query: 139 QDVDIEP 145
V +E
Sbjct: 194 DTVKVEA 200
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
0.322 0.136 0.440
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,478,778
Number of extensions: 137170
Number of successful extensions: 338
Number of sequences better than 10.0: 1
Number of HSP's gapped: 337
Number of HSP's successfully gapped: 42
Length of query: 151
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 66
Effective length of database: 4,328,508
Effective search space: 285681528
Effective search space used: 285681528
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.4 bits)