RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14697
(175 letters)
>1om2_A Protein (mitochondrial import receptor subunit TOM20);
mitochondrial protein import across outer membrane,
receptor for presequences; NMR {Rattus norvegicus} SCOP:
a.23.4.1
Length = 95
Score = 116 bits (293), Expect = 6e-35
Identities = 49/80 (61%), Positives = 58/80 (72%)
Query: 94 QKNKRGIPDLKDHSAVQQYFLQEIQLGETLLAAGDLDNGVEHLANALTVCGQPNQLLGVL 153
+ +PDLKD AVQ++FL+EIQLGE LLA GD + GV+HL NA+ VCGQP QLL VL
Sbjct: 1 RAGLSKLPDLKDAEAVQKFFLEEIQLGEELLAQGDYEKGVDHLTNAIAVCGQPQQLLQVL 60
Query: 154 QQTLPPNVFNALIEKLPPAG 173
QQTLPP VF L+ KLP
Sbjct: 61 QQTLPPPVFQMLLTKLPTIS 80
>3ax2_A Mitochondrial import receptor subunit TOM20 homol; protein-protein
complex, membrane protein-transport protein; 1.90A
{Rattus norvegicus} PDB: 2v1s_A 3awr_A 2v1t_A 3ax5_A
3ax3_A
Length = 73
Score = 113 bits (285), Expect = 8e-34
Identities = 47/69 (68%), Positives = 54/69 (78%)
Query: 101 PDLKDHSAVQQYFLQEIQLGETLLAAGDLDNGVEHLANALTVCGQPNQLLGVLQQTLPPN 160
DLKD AVQ++FL+EIQLGE LLA GD + GV+HL NA+ VCGQP QLL VLQQTLPP
Sbjct: 5 SDLKDAEAVQKFFLEEIQLGEELLAQGDYEKGVDHLTNAIAVCGQPQQLLQVLQQTLPPP 64
Query: 161 VFNALIEKL 169
VF L+ KL
Sbjct: 65 VFQMLLTKL 73
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 40.6 bits (94), Expect = 1e-04
Identities = 30/194 (15%), Positives = 56/194 (28%), Gaps = 56/194 (28%)
Query: 2 GGCGSSW----VLPSS--FCWFGDWCGYFGLW--SGRIGPSGRLMSPMELISGNKVVTAV 53
G G +W V S C F W ++ ++ +
Sbjct: 159 LGSGKTWVALDVCLSYKVQCKMDF--KIF--WLNLKNCNSPETVLEMLQKL--------- 205
Query: 54 AVGAAVVVGYCLYFDKK--RRSDPLFKEKLK---ERRRKNRELLQQKNKRGIPDLKD--H 106
D RSD KL+ + R L + + + L + +
Sbjct: 206 ----------LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN 255
Query: 107 SAVQQYF------L---QEIQLGETLLAAGDLDNGVEHLANALTVCGQPNQLLGVLQQTL 157
+ F L + Q+ + L AA ++H + LT P+++ +L
Sbjct: 256 AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT----PDEVKSLLL--- 308
Query: 158 PPNVFNALIEKLPP 171
+ + LP
Sbjct: 309 --KYLDCRPQDLPR 320
>3gnl_A Uncharacterized protein, DUF633, LMOF2365_1472; structural
genomics, PSI-2, protein structure initiative; 1.50A
{Listeria monocytogenes str}
Length = 244
Score = 34.1 bits (78), Expect = 0.012
Identities = 12/67 (17%), Positives = 28/67 (41%), Gaps = 5/67 (7%)
Query: 61 VGYCLYFDKKRRSDPLFKEKLKERRRKNRELLQQKNKRGIPDLKDHSAVQQYFLQEIQLG 120
G CL ++ +FK K + + ++Q + ++ + +++ +I L
Sbjct: 177 FGPCLLKEQ----SAIFKSKWRHEANTWQNIIQTISNNQPVSTENQAKIRE-LEHKIALV 231
Query: 121 ETLLAAG 127
E +L G
Sbjct: 232 EDVLKEG 238
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.4 bits (73), Expect = 0.050
Identities = 6/27 (22%), Positives = 14/27 (51%), Gaps = 3/27 (11%)
Query: 69 KKRRSDPLFKEKLKERRRKNRELLQQK 95
+ +P E +++ R + R+ LQ+
Sbjct: 78 DRLTQEP---ESIRKWREEQRKRLQEL 101
Score = 28.6 bits (63), Expect = 0.98
Identities = 9/54 (16%), Positives = 25/54 (46%), Gaps = 7/54 (12%)
Query: 69 KKRRSDPLFKEKLKERRRKNRELLQQKNKRGIPDLKDHSAVQQYFLQEIQLGET 122
+K R + +++L+E ++ + Q+ ++ DL++ Q Q+ +
Sbjct: 88 RKWREE--QRKRLQELDAASKVMEQEWREKAKKDLEE-----WNQRQSEQVEKN 134
Score = 26.3 bits (57), Expect = 5.1
Identities = 7/27 (25%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 70 KRRSDPLFKEKLKERRRKNRELLQQKN 96
+R+S+ + K K R ++ QQ +
Sbjct: 125 QRQSEQVEKNK-INNRIADKAFYQQPD 150
>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 = 31.9 bits (72), Expect = 0.11
Identities = 23/128 (17%), Positives = 40/128 (31%), Gaps = 34/128 (26%)
Query: 35 GRLMSPM----ELISGNKVVTAVAVGAAVVVGYCLYFDKKRRSDPLFKEKLKERRRKNRE 90
G M EL N + A+ G S + ++ ++
Sbjct: 1790 GMTMQVAVPRDELGRSNYGMIAINPGRVAASF----------SQEALQYVVERVGKRTGW 1839
Query: 91 LLQQKNKRGIPDLKDHSAVQQYFLQEIQLGETLLAAGDLDNGVEHLANALTVCGQPNQLL 150
L++ N + QQY +AAGDL ++ + N L +
Sbjct: 1840 LVEIVN--------YNVENQQY-----------VAAGDL-RALDTVTNVLNFIKLQKIDI 1879
Query: 151 GVLQQTLP 158
LQ++L
Sbjct: 1880 IELQKSLS 1887
Score = 30.0 bits (67), Expect = 0.43
Identities = 32/168 (19%), Positives = 49/168 (29%), Gaps = 53/168 (31%)
Query: 38 MSPMELISG-------------NK-------VVTAVAVGA-AVVV--------GYCLYFD 68
SPM IS N V ++ GA +VV G L
Sbjct: 335 PSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLR 394
Query: 69 KKRRSDPLFKEKLKERRRK----NRELLQQKNKRGIPDLKDHS----AVQQYFLQEIQLG 120
K + L + ++ RK NR L P HS +++
Sbjct: 395 KAKAPSGLDQSRIPFSERKLKFSNRFL-----PVASP---FHSHLLVPASDLINKDLVKN 446
Query: 121 ETLLAAGDLDNGVEHLANALTVCGQPNQLLGVLQQTLPPNVFNALIEK 168
A D+ V T G + L VL ++ + + +I
Sbjct: 447 NVSFNAKDIQIPVYD-----TFDGS-D--LRVLSGSISERIVDCIIRL 486
Score = 29.6 bits (66), Expect = 0.53
Identities = 38/181 (20%), Positives = 52/181 (28%), Gaps = 80/181 (44%)
Query: 38 MSPMELIS--------GNKVVTAVAVGAAVVVGYCLYFDKKRRSDPLFKEKLKERRRKNR 89
+P EL S +VTAVA+ S F + RK
Sbjct: 258 FTPGELRSYLKGATGHSQGLVTAVAIAET-------------DSWESFFVSV----RKAI 300
Query: 90 ELL-------QQ----------------KNKRGIP-------DLKDHSAVQQYFLQEIQL 119
+L + +N G+P +L VQ Y +
Sbjct: 301 TVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNL-TQEQVQDY----VNK 355
Query: 120 GETLLAAGD-----LDNGVEHLANALTVCGQPNQLLGVLQQTLPPNVFNALIEKLP-PAG 173
+ L AG L NG A L V G P L G N + K P+G
Sbjct: 356 TNSHLPAGKQVEISLVNG----AKNLVVSGPPQSLYG----------LNLTLRKAKAPSG 401
Query: 174 I 174
+
Sbjct: 402 L 402
>3kr9_A SAM-dependent methyltransferase; class I rossmann-like
methyltransferase fold; 2.00A {Streptococcus pneumoniae}
PDB: 3ku1_A*
Length = 225
Score = 29.1 bits (65), Expect = 0.66
Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 11/59 (18%)
Query: 61 VGYCLYFDKKRRSDPLFKEKLKERRRKNRELLQQKNKRGIPDLKDHSAVQQYFLQEIQL 119
G L + P+F +K ++ K L Q + K+ Q + +IQ
Sbjct: 169 FGPFLSKEV----SPVFVQKWQKEAEKLEFALGQIPE------KNLEERQVL-VDKIQA 216
>4fdd_A Transportin-1; heat repeats, karyopherin, nuclear import, protein
transport importin, transportin, transport protein;
2.30A {Homo sapiens} PDB: 2ot8_A 2h4m_A 2z5k_A 2z5j_A
2qmr_A 2z5m_A 2z5n_A 2z5o_A 1qbk_B*
Length = 852
Score = 29.0 bits (64), Expect = 0.95
Identities = 2/24 (8%), Positives = 9/24 (37%)
Query: 148 QLLGVLQQTLPPNVFNALIEKLPP 171
++L + + + ++ P
Sbjct: 817 KILHGFKNQVGDENWRRFSDQFPL 840
>3lec_A NADB-rossmann superfamily protein; PSI, MCSG, structural genomics,
midwest CENT structural genomics, protein structure
initiative; 1.80A {Streptococcus agalactiae}
Length = 230
Score = 28.3 bits (63), Expect = 1.3
Identities = 10/57 (17%), Positives = 18/57 (31%), Gaps = 5/57 (8%)
Query: 61 VGYCLYFDKKRRSDPLFKEKLKERRRKNRELLQQKNKRGIPDLKDHSAVQQYFLQEI 117
G L + +FKEK + K L + + Q ++E+
Sbjct: 175 FGPFLLSNN----TTVFKEKWQNELNKLTFALNSIPNSKMEERAILEDKIQD-IKEV 226
>1u09_A Polyprotein; protein-DNA complex, RNA-dependent RNA polymerase,
foot and disease virus, transferase; 1.91A
{Foot-and-mouth disease virus} SCOP: e.8.1.4 PDB: 1wne_A
2e9r_X* 2e9t_A* 2e9z_A* 2ec0_A 3kmq_A 3kms_A 3koa_A
3kna_A 3klv_A 3nky_A 3nma_A 2f8e_X* 2d7s_A* 3nl0_A
Length = 476
Score = 27.5 bits (60), Expect = 2.6
Identities = 13/85 (15%), Positives = 29/85 (34%), Gaps = 2/85 (2%)
Query: 23 YFGLWSGRIGPSGRLMSPMELISGNKVVTAVAVGAAVVVGYCLYFDKKRRSDPLFKEKLK 82
Y +G + +S E I G + A+ A + + L ++ +
Sbjct: 81 YASRLHSVLGTANAPLSIYEAIKGVDGLDAMEPDTAPGLPWALQGKRRGALIDFENGTVG 140
Query: 83 ERRRKNRELLQQKNKRG--IPDLKD 105
+L++++ + LKD
Sbjct: 141 PEVEAALKLMEKREYKFACQTFLKD 165
>4g9q_A 4-carboxymuconolactone decarboxylase; PSI-biology, nysgrc,
structural genomics, NEW YORK structura genomics
research consortium; 1.77A {Sinorhizobium meliloti}
Length = 269
Score = 27.2 bits (60), Expect = 3.0
Identities = 9/120 (7%), Positives = 32/120 (26%), Gaps = 22/120 (18%)
Query: 68 DKKRRSDPLFKEKLKERRRKNRELLQQKNKRGIPDLKDHSAVQQYFLQEIQLGE------ 121
+ F+ + ++ + + ++ + + + Q+ G+
Sbjct: 11 VDLGTENLYFQSMMTTSNAGAQQPNVEGRRFSPDQVRSVAPALEQYTQQRLYGDVWQRPG 70
Query: 122 ------------TLLAAGDLDNGVEHLANALTVCGQPNQLLGVLQQTLP----PNVFNAL 165
L+A G+ + AL +P+++ + +
Sbjct: 71 LNRRDRSLVTIAALIARGEAPALTYYADQALENGVKPSEISETITHLAYYSGWGKAMATV 130
>2h31_A Multifunctional protein ADE2; alpha-beta-alpha, ligase, lyase;
2.80A {Homo sapiens}
Length = 425
Score = 27.2 bits (60), Expect = 3.1
Identities = 14/63 (22%), Positives = 22/63 (34%), Gaps = 6/63 (9%)
Query: 37 LMSPMELISGNKVVT-AVAVGAAVVVGYCLYFDKKRRSDPLFKEKLKERRRKNRELLQQK 95
+ S + L SG T G+A S+ L KL+ L+Q
Sbjct: 362 VWSSLRLPSGLGCSTVLSPEGSAQFAAQIF-----GLSNHLVWSKLRASILNTWISLKQA 416
Query: 96 NKR 98
+K+
Sbjct: 417 DKK 419
>2mhr_A Myohemerythrin; oxygen binding; 1.30A {Themiste zostericola} SCOP:
a.24.4.1 PDB: 1a7d_A 1a7e_A
Length = 118
Score = 26.0 bits (57), Expect = 3.9
Identities = 6/34 (17%), Positives = 15/34 (44%)
Query: 97 KRGIPDLKDHSAVQQYFLQEIQLGETLLAAGDLD 130
++ H + + FL++I + A ++D
Sbjct: 64 AAKYSEVVPHKKMHKDFLEKIGGLSAPVDAKNVD 97
>3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_D*
Length = 1407
Score = 26.9 bits (60), Expect = 4.6
Identities = 6/16 (37%), Positives = 10/16 (62%)
Query: 103 LKDHSAVQQYFLQEIQ 118
L+ AV +Y + E+Q
Sbjct: 1223 LRGVHAVTRYIVNEVQ 1238
>2z0v_A SH3-containing GRB2-like protein 3; helix bundle, alternative
splicing, coiled coil, SH3 domain, endocytosis,
structural genomics, NPPSFA; 2.49A {Homo sapiens}
Length = 240
Score = 26.6 bits (58), Expect = 4.7
Identities = 16/70 (22%), Positives = 28/70 (40%)
Query: 100 IPDLKDHSAVQQYFLQEIQLGETLLAAGDLDNGVEHLANALTVCGQPNQLLGVLQQTLPP 159
+ ++ Y E LG+ +L G NAL G+ +L+ ++ +L
Sbjct: 58 VSKIRGQVKTTGYPQTEGLLGDCMLKYGKELGEDSTFGNALIEVGESMKLMAEVKDSLDI 117
Query: 160 NVFNALIEKL 169
NV I+ L
Sbjct: 118 NVKQTFIDPL 127
>3agt_A Hemerythrin-like domain protein DCRH; metal binding protein, oxygen
binding, DIIRON, four-helix BU; 1.40A {Desulfovibrio
vulgaris} PDB: 2awy_A 2avk_A 3agu_A 2awc_A
Length = 136
Score = 26.0 bits (57), Expect = 5.2
Identities = 9/38 (23%), Positives = 17/38 (44%)
Query: 97 KRGIPDLKDHSAVQQYFLQEIQLGETLLAAGDLDNGVE 134
P+ H + + F++ + E LAAGD + +
Sbjct: 69 DYAYPEATRHKEIHRRFVETVLKWEKQLAAGDPEVVMT 106
>2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2
PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D*
2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D*
3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D
Length = 1524
Score = 26.7 bits (59), Expect = 5.6
Identities = 7/19 (36%), Positives = 13/19 (68%)
Query: 100 IPDLKDHSAVQQYFLQEIQ 118
+ + K AV++Y ++EIQ
Sbjct: 1335 LLEAKGPEAVERYLVEEIQ 1353
>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte
receptors, VLR, leucine-rich repeat, LRR adaptive
immunity, immune system; HET: DR2; 1.67A {Petromyzon
marinus}
Length = 229
Score = 26.2 bits (58), Expect = 6.0
Identities = 12/40 (30%), Positives = 16/40 (40%), Gaps = 6/40 (15%)
Query: 129 LDNGVEHLANALTVCG-QPNQLLGVLQQTLPPNVFNALIE 167
L+ GV L NQL LP VF++L +
Sbjct: 55 LEPGVFDSLINLKELYLGSNQL-----GALPVGVFDSLTQ 89
>2hmq_A Hemerythrin; oxygen transport; 1.66A {Themiste dyscritum} SCOP:
a.24.4.1 PDB: 2hmz_A 1hmd_A 1hmo_A 1i4y_A 1i4z_A 1hrb_A
Length = 113
Score = 25.6 bits (56), Expect = 6.6
Identities = 2/29 (6%), Positives = 8/29 (27%)
Query: 97 KRGIPDLKDHSAVQQYFLQEIQLGETLLA 125
+H F+ ++ + +
Sbjct: 64 ASQYAGYAEHKKAHDDFIHKLDTWDGDVT 92
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
0.321 0.140 0.442
Gapped
Lambda K H
0.267 0.0588 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,831,859
Number of extensions: 165803
Number of successful extensions: 497
Number of sequences better than 10.0: 1
Number of HSP's gapped: 494
Number of HSP's successfully gapped: 31
Length of query: 175
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 88
Effective length of database: 4,272,666
Effective search space: 375994608
Effective search space used: 375994608
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 (21.8 bits)
S2: 54 (24.9 bits)