RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4795
(285 letters)
>3m9d_G Prokaryotic ubiquitin-like protein PUP; alpha helix coil COIL, 5
beta-strand barrel, ATP-binding, CH nucleotide-binding,
proteasome; 4.50A {Mycobacterium tuberculosis}
Length = 68
Score = 36.1 bits (82), Expect = 9e-04
Identities = 18/47 (38%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 236 HMMKARRQKRLA----EDPKAAAIAAAEAKAAQVVEETDDERDDIDD 278
HMM + KR +D A + AA + + ++ EETDD D+IDD
Sbjct: 3 HMMAQEQTKRGGGGGDDDDIAGSTAAGQERREKLTEETDDLLDEIDD 49
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 36.3 bits (83), Expect = 0.006
Identities = 8/38 (21%), Positives = 18/38 (47%), Gaps = 7/38 (18%)
Query: 239 KARRQKRLAE-DPKAAAIAAAEAKAAQVVEETDDERDD 275
+ ++KRL E D AA++ + E+ + ++
Sbjct: 91 REEQRKRLQELD------AASKVMEQEWREKAKKDLEE 122
>1mhs_A Proton pump, plasma membrane ATPase; ION transport, membrane
protein, P-type ATPase, active transport, cryo-electron
microscopy; 8.00A {Neurospora crassa} SCOP: i.18.1.1
Length = 920
Score = 33.1 bits (76), Expect = 0.11
Identities = 20/171 (11%), Positives = 54/171 (31%), Gaps = 30/171 (17%)
Query: 94 SSVGYVMICFGVVNAICSLLFGTLMKFIGRSPLMALGFIVHCCLIWILVVWRPHPN---- 149
+ + + GVV A+ + + T M G + + F ++++ + +
Sbjct: 753 PKLWGMSVLLGVVLAVGTWITVTTMYAQGENGGIVQNFGNMDEVLFLQISLTENWLIFIT 812
Query: 150 -NPKIFFTISGLWGVGDAVWQTQVNGLYGTLFRRNKEAAFSNFRL----WESVGFVIAYA 204
F++ W + A++ + T F + F +V + ++
Sbjct: 813 RANGPFWSSIPSWQLSGAIFLVDI---LATCF-----TIWGWFEHSDTSIVAVVRIWIFS 864
Query: 205 YSTHLCARMKLYVMGVVLVTGFCGYVIVEVRHMMKARRQKRLAEDPKAAAI 255
+ G+ + G Y++ + K + K ++
Sbjct: 865 F-------------GIFCIMGGVYYILQDSVGFDNLMHGKSPKGNQKQRSL 902
Score = 32.7 bits (75), Expect = 0.13
Identities = 15/132 (11%), Positives = 41/132 (31%), Gaps = 11/132 (8%)
Query: 16 SSVGYVMICFGVVNAICSLLFGTLMKFIGRSPLMALGFIVHCCLIWILVVWRPHPN---- 71
+ + + GVV A+ + + T M G + + F ++++ + +
Sbjct: 753 PKLWGMSVLLGVVLAVGTWITVTTMYAQGENGGIVQNFGNMDEVLFLQISLTENWLIFIT 812
Query: 72 -NPKIFFTISGLWGAYISCALGVSSVGYVMICFGVVNAICSLLFGTLMKFIGRSPLMALG 130
F++ W V + +G T + + R + + G
Sbjct: 813 RANGPFWSSIPSW-QLSGAIFLVDILATCFTIWGWF-----EHSDTSIVAVVRIWIFSFG 866
Query: 131 FIVHCCLIWILV 142
++ ++
Sbjct: 867 IFCIMGGVYYIL 878
>2jln_A MHP1; hydantoin, transporter, membrane protein,
nucleobase-cation-symport-1 family; 2.85A
{Microbacterium liquefaciens} PDB: 2jlo_A* 2x79_A
Length = 501
Score = 32.1 bits (73), Expect = 0.21
Identities = 9/80 (11%), Positives = 27/80 (33%), Gaps = 7/80 (8%)
Query: 81 GLWGAYI-SCALGVSSVGYVMICFGVVNAICSLLFGTLMKFIGRSPLMALGFIVHCCLIW 139
G+ G+ I + S+ + FG + +L + + + + L ++ I
Sbjct: 99 GIRGSLIPITLKALLSLFW----FGFQTWLGALALDEITRLLTGFTNLPLWIVI-FGAIQ 153
Query: 140 ILVVWRPHPNNPKIFFTISG 159
++ + + +
Sbjct: 154 VVTTFY-GITFIRWMNVFAS 172
>2cfq_A Lactose permease; transport, transport mechanism, lactose/H+
symport, sugar transport, transmembrane, formylation;
2.95A {Escherichia coli} SCOP: f.38.1.2 PDB: 1pv7_A*
1pv6_A 2cfp_A 2v8n_A 2y5y_A*
Length = 417
Score = 31.8 bits (72), Expect = 0.25
Identities = 18/137 (13%), Positives = 39/137 (28%), Gaps = 9/137 (6%)
Query: 75 IFFTISGLW----GAYISCALGVSS--VGYVMICFGVVNAICSLLFGTLMKFIGRSPLMA 128
+F I G + ++ +S G + + + + LFG L +G +
Sbjct: 18 FYFFIMGAYFPFFPIWLHDINHISKSDTGIIFAAISLFSLLFQPLFGLLSDKLGLRKYLL 77
Query: 129 LGFIVHCCLIWILVVWRPHPNNPKIFFTISGLWGVGDAVWQTQVNGL---YGTLFRRNKE 185
+ ++ P S + G+ + R
Sbjct: 78 WIITGMLVMFAPFFIFIFGPLLQYNILVGSIVGGIYLGFCFNAGAPAVEAFIEKVSRRSN 137
Query: 186 AAFSNFRLWESVGFVIA 202
F R++ VG+ +
Sbjct: 138 FEFGRARMFGCVGWALG 154
Score = 28.0 bits (62), Expect = 3.7
Identities = 25/160 (15%), Positives = 46/160 (28%), Gaps = 16/160 (10%)
Query: 4 FTQAYISCALGVSSVGYVMICFGVVNAICSLLFGTLMKFIGRSPLMALGFIVHCCLIWIL 63
FT + + G GYV ++NA ++ IG + L + + I
Sbjct: 247 FTSFFATGEQGTRVFGYVTTMGELLNASIMFFAPLIINRIGGKNALLLAGTI-MSVRIIG 305
Query: 64 VVWRPHPNNPKIFFTISGL-WGAYISCAL---------GVSSVG---YVMICFGVVNAIC 110
+ I T+ + S+ +
Sbjct: 306 SSFATSALEVVILKTLHMFEVPFLLVGCFKYITSQFEVRFSATIYLVCFCFFKQLAMIFM 365
Query: 111 SLLFGTLMKFIGRSP--LMALGFIVHCCLIWILVVWRPHP 148
S+L G + + IG L+ + LI + + P P
Sbjct: 366 SVLAGNMYESIGFQGAYLVLGLVALGFTLISVFTLSGPGP 405
>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 = 30.4 bits (68), Expect = 0.88
Identities = 20/101 (19%), Positives = 33/101 (32%), Gaps = 19/101 (18%)
Query: 191 FRLWESVGFVI---AYA------YSTHLCARMKLYVM----GVVLVT--GFCGYVIVEVR 235
F +S G + +A Y+ L + VM V +V G V V R
Sbjct: 1744 FEDLKSKGLIPADATFAGHSLGEYAA-LASLAD--VMSIESLVEVVFYRGMTMQVAVP-R 1799
Query: 236 HMMKARRQKRLAEDPKAAAIAAAEAKAAQVVEETDDERDDI 276
+ +A +P A + ++ VVE +
Sbjct: 1800 DELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWL 1840
>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP,
cyclic peptide, membrane protein; 3.80A {Mus musculus}
PDB: 3g61_A* 3g60_A*
Length = 1284
Score = 29.6 bits (67), Expect = 1.3
Identities = 13/73 (17%), Positives = 23/73 (31%), Gaps = 17/73 (23%)
Query: 197 VGFVIAYAYSTHLCARMKLYVMGVVLVTGFCGYVIVEVRHMMKARRQKRLAEDPKAAAIA 256
GF+I + ++ L ++ + V G + + +
Sbjct: 198 GGFIIGFTRG----WKLTLVILAISPVLGLSAGIWA--KILSSF-----------TDKEL 240
Query: 257 AAEAKAAQVVEET 269
A AKA V EE
Sbjct: 241 HAYAKAGAVAEEV 253
>1tzs_A Cathepsin E; hydrolase, aspartic protease, activation intermediate;
2.35A {Homo sapiens}
Length = 351
Score = 29.2 bits (66), Expect = 1.4
Identities = 33/131 (25%), Positives = 44/131 (33%), Gaps = 29/131 (22%)
Query: 14 GVSSVGYVMICFGVVNAIC----SLLFG------TLMKFIGRSPLMALGFIVHCCLIWIL 63
+ G VM C AI SL+ G L IG +P+ + V C
Sbjct: 209 NIQVGGTVMFCSEGCQAIVDTGTSLITGPSDKIKQLQNAIGAAPVDGE-YAVECA----- 262
Query: 64 VVWRPHPNNPKIFFTISGLWGAYISCALGVSSVGYVMICFGVVNAICSLLFGTLMKFIGR 123
P + FTI+G+ +S Y ++ F CS F L
Sbjct: 263 ----NLNVMPDVTFTINGV-------PYTLSPTAYTLLDFVDGMQFCSSGFQGLDIHPPA 311
Query: 124 SPLMALG--FI 132
PL LG FI
Sbjct: 312 GPLWILGDVFI 322
>1rq8_A Conserved hypothetical protein; structural genomics, SAV1595,
YHBY, UPF0044, unknown function; NMR {Staphylococcus
aureus} SCOP: d.68.4.1
Length = 104
Score = 28.1 bits (63), Expect = 1.4
Identities = 7/49 (14%), Positives = 16/49 (32%), Gaps = 16/49 (32%)
Query: 27 VVNAICSLLFGTLMKFIGRSPLMALGFIVHCCLIWILVVWRPHPNNPKI 75
+ + L++ IG ++V++R N +I
Sbjct: 61 LAETLSEATRSELVQVIGS----------------MIVIYRESKENKEI 93
Score = 28.1 bits (63), Expect = 1.4
Identities = 7/49 (14%), Positives = 16/49 (32%), Gaps = 16/49 (32%)
Query: 105 VVNAICSLLFGTLMKFIGRSPLMALGFIVHCCLIWILVVWRPHPNNPKI 153
+ + L++ IG ++V++R N +I
Sbjct: 61 LAETLSEATRSELVQVIGS----------------MIVIYRESKENKEI 93
>3r3p_A MobIle intron protein; homing endonuclease, hydrolase; 2.20A
{Bacillus phage 0305phi8-36}
Length = 105
Score = 27.4 bits (60), Expect = 2.1
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 226 FCGY-VIVEVRHMMKARRQKRLAEDPKAAAIAAAEAKAAQVVEETDDERDDID 277
+ G + +EV + A +QK + +D + ++ +K +V+ DDE +DID
Sbjct: 37 YLGKKLAIEVNGVYWASKQKNVNKDKRK--LSELHSKGYRVLTIEDDELNDID 87
>1lya_B Cathepsin D; lysosomal aspartic protease; HET: NAG BMA MAN; 2.50A
{Homo sapiens} SCOP: b.50.1.2 PDB: 1lyb_B* 1lyw_B*
Length = 241
Score = 28.5 bits (64), Expect = 2.4
Identities = 27/131 (20%), Positives = 40/131 (30%), Gaps = 28/131 (21%)
Query: 14 GVSSVGYVMICFGVVNAI----CSLLFG------TLMKFIGRSPLMALGFIVHCCLIWIL 63
V + +C AI SL+ G L K IG PL+ +++ C +
Sbjct: 107 QVEVASGLTLCKEGCEAIVDTGTSLMVGPVDEVRELQKAIGAVPLIQGEYMIPCEKV--- 163
Query: 64 VVWRPHPNNPKIFFTISGLWGAYISCALGVSSVGYVMICFGVVNAICSLLFGTLMKFIGR 123
P I + G +S Y + +C F +
Sbjct: 164 ------STLPAITLKLGGK-------GYKLSPEDYTLKVSQAGKTLCLSGFMGMDIPPPS 210
Query: 124 SPLMALG--FI 132
PL LG FI
Sbjct: 211 GPLWILGDVFI 221
Score = 27.7 bits (62), Expect = 4.5
Identities = 17/78 (21%), Positives = 26/78 (33%), Gaps = 19/78 (24%)
Query: 92 GVSSVGYVMICFGVVNAI----CSLLFG------TLMKFIGRSPLMALGFIVHCCLIWIL 141
V + +C AI SL+ G L K IG PL+ +++ C +
Sbjct: 107 QVEVASGLTLCKEGCEAIVDTGTSLMVGPVDEVRELQKAIGAVPLIQGEYMIPCEKV--- 163
Query: 142 VVWRPHPNNPKIFFTISG 159
P I + G
Sbjct: 164 ------STLPAITLKLGG 175
>3u5i_q A0, L10E, 60S acidic ribosomal protein P0; translation, ribosome,
ribosomal R ribosomal protein, STM1; 3.00A
{Saccharomyces cerevisiae} PDB: 3izc_s 3izs_s 3j16_G*
3o5h_M 3jyw_8
Length = 312
Score = 28.2 bits (62), Expect = 3.4
Identities = 12/58 (20%), Positives = 21/58 (36%), Gaps = 7/58 (12%)
Query: 230 VIVEVRHMMKARRQKRLA-EDPKAAAIAAA------EAKAAQVVEETDDERDDIDDEI 280
V + + E+P+ A AA AA E +E ++ DD++
Sbjct: 249 VAIAASYHYPEIEDLVDRIENPEKYAAAAPAATSAASGDAAPAEEAAAEEEEESDDDM 306
>1miq_A Plasmepsin; aspartic proteinase zymogen, domain opening, hydrolase;
2.50A {Plasmodium vivax} SCOP: b.50.1.2 PDB: 1ls5_A*
Length = 375
Score = 27.8 bits (62), Expect = 4.5
Identities = 13/99 (13%), Positives = 22/99 (22%), Gaps = 34/99 (34%)
Query: 2 GDFTQAYISCALGVSSVGYVMI---------CFGVVNAIC----SLLFG------TLMKF 42
G+ T Y ++ Y I N I + +
Sbjct: 228 GNIT--YEK----LNHDLYWQIDLDVHFGKQTMEKANVIVDSGTTTITAPSEFLNKFFAN 281
Query: 43 IGRSPLMALGFIVHCCLIWILVVWRPHPNNPKIFFTISG 81
+ + L F V C P + F +
Sbjct: 282 LNVIKVPFLPFYVTTCDN---------KEMPTLEFKSAN 311
Score = 27.4 bits (61), Expect = 5.8
Identities = 10/86 (11%), Positives = 18/86 (20%), Gaps = 28/86 (32%)
Query: 93 VSSVGYVMI---------CFGVVNAIC----SLLFG------TLMKFIGRSPLMALGFIV 133
++ Y I N I + + + + L F V
Sbjct: 235 LNHDLYWQIDLDVHFGKQTMEKANVIVDSGTTTITAPSEFLNKFFANLNVIKVPFLPFYV 294
Query: 134 HCCLIWILVVWRPHPNNPKIFFTISG 159
C P + F +
Sbjct: 295 TTCDN---------KEMPTLEFKSAN 311
>1htr_B Gastricsin; aspartyl protease; 1.62A {Homo sapiens} SCOP: b.50.1.2
PDB: 1avf_A
Length = 329
Score = 27.3 bits (61), Expect = 6.5
Identities = 17/71 (23%), Positives = 23/71 (32%), Gaps = 19/71 (26%)
Query: 21 VMICFGVVNAIC----SLLFG------TLMKFIGRSPLMALGFIVHCCLIWILVVWRPHP 70
C AI SLL L++ G F+V+C I
Sbjct: 205 SGWCSEGCQAIVDTGTSLLTVPQQYMSALLQATGAQEDEYGQFLVNCNSI---------Q 255
Query: 71 NNPKIFFTISG 81
N P + F I+G
Sbjct: 256 NLPSLTFIING 266
Score = 27.3 bits (61), Expect = 6.5
Identities = 17/71 (23%), Positives = 23/71 (32%), Gaps = 19/71 (26%)
Query: 99 VMICFGVVNAIC----SLLFG------TLMKFIGRSPLMALGFIVHCCLIWILVVWRPHP 148
C AI SLL L++ G F+V+C I
Sbjct: 205 SGWCSEGCQAIVDTGTSLLTVPQQYMSALLQATGAQEDEYGQFLVNCNSI---------Q 255
Query: 149 NNPKIFFTISG 159
N P + F I+G
Sbjct: 256 NLPSLTFIING 266
>1dpj_A Proteinase A; proteinase A, hydrolase-hydrolase inhibitor COM; HET:
BMA MAN NAG; 1.80A {Saccharomyces cerevisiae} SCOP:
b.50.1.2 PDB: 1dp5_A* 1fmu_A* 1fmx_A* 1fq5_A* 1fq4_A*
1fq6_A* 1fq7_A* 1fq8_A* 2jxr_A* 1g0v_A*
Length = 329
Score = 27.2 bits (61), Expect = 7.0
Identities = 11/75 (14%), Positives = 18/75 (24%), Gaps = 19/75 (25%)
Query: 17 SVGYVMICFGVVNAIC----SLLFG------TLMKFIGRSPLMALGFIVHCCLIWILVVW 66
+G A SL+ + IG + + C
Sbjct: 202 GLGDEYAELESHGAAIDTGTSLITLPSGLAEMINAEIGAKKGWTGQYTLDCN-------- 253
Query: 67 RPHPNNPKIFFTISG 81
N P + F +G
Sbjct: 254 -TRDNLPDLIFNFNG 267
Score = 27.2 bits (61), Expect = 7.0
Identities = 11/75 (14%), Positives = 18/75 (24%), Gaps = 19/75 (25%)
Query: 95 SVGYVMICFGVVNAIC----SLLFG------TLMKFIGRSPLMALGFIVHCCLIWILVVW 144
+G A SL+ + IG + + C
Sbjct: 202 GLGDEYAELESHGAAIDTGTSLITLPSGLAEMINAEIGAKKGWTGQYTLDCN-------- 253
Query: 145 RPHPNNPKIFFTISG 159
N P + F +G
Sbjct: 254 -TRDNLPDLIFNFNG 267
>2amh_A Septum formation protein MAF homologue, putative; domain alpha-beta
motif, structural genomics, PSI, protein structure
initiative; 2.00A {Trypanosoma brucei} SCOP: c.51.4.2
Length = 207
Score = 26.8 bits (60), Expect = 8.0
Identities = 10/36 (27%), Positives = 13/36 (36%)
Query: 247 AEDPKAAAIAAAEAKAAQVVEETDDERDDIDDEIIV 282
A DP + A AK V+E+ I I
Sbjct: 50 AADPFELTESIARAKMKAVLEKARQHSPPISGPAIA 85
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
0.331 0.143 0.473
Gapped
Lambda K H
0.267 0.0616 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,723,546
Number of extensions: 291749
Number of successful extensions: 940
Number of sequences better than 10.0: 1
Number of HSP's gapped: 932
Number of HSP's successfully gapped: 36
Length of query: 285
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 192
Effective length of database: 4,105,140
Effective search space: 788186880
Effective search space used: 788186880
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 57 (26.0 bits)