RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1312
(213 letters)
>4a17_V RPL7, 60S ribosomal protein L7; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_V 4a1c_V 4a1e_V
Length = 239
Score = 152 bits (384), Expect = 2e-46
Identities = 90/236 (38%), Positives = 126/236 (53%), Gaps = 49/236 (20%)
Query: 27 VVPESVLKKRKKRENSRIISLHKKLTALANRKKKTREIFIRAEKYVKAYRAKERDEIRLM 86
VPE+V KK + E R ++ + A K++ E +A+KY Y A E+ +
Sbjct: 4 FVPENVQKKLARDEKLRKAKAEQRKASSAQMKQRKAEWISKAQKYAAEYEAAEKKIVDEK 63
Query: 87 REAKKRGNYYIPGEAKLAFVIRIRGINRVAPKVRKTLQLLRLRQINNGIFVRLNK----- 141
R+A+K G +Y+P EAK+AF IRIRG+N++ P V++ L+L RLRQ++NG F R+NK
Sbjct: 64 RKARKTGAFYVPAEAKVAFAIRIRGVNQLHPDVKRVLRLFRLRQLHNGAFFRVNKASLNM 123
Query: 142 --------------------------------------------VSVGKQNIICVEDLIH 157
S+GK I CVEDLIH
Sbjct: 124 IKRVLPFITFGYPTRNTISKLIYKRGFAKVNGQRIPLTDNTIVEKSLGKFGITCVEDLIH 183
Query: 158 EVFTVGDNFKYASNALWPFKLNNPTGGWRKKTIHYVEGGDFGNREDKINKLLRKMV 213
E+ TVG +FK A+N LWPFKL+ P GG+R K Y +GGD+GNRE IN L++ M+
Sbjct: 184 EITTVGPHFKEANNFLWPFKLDTPRGGFRNKRHAYHQGGDWGNREVYINDLVKAML 239
>2zkr_w 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 270
Score = 151 bits (381), Expect = 2e-45
Identities = 114/250 (45%), Positives = 144/250 (57%), Gaps = 49/250 (19%)
Query: 12 GKPKEPKPKTKKGLPVVPESVLKKRKKRENSRIISLHKKLTALANRKKKTREIFIRAEKY 71
K KK +P VPE++ KKR+ ++ L KK RK + + I+ +A+ Y
Sbjct: 20 KKVPAGPKTLKKKVPAVPETLKKKRRNFAELKVKRLRKKFALKTLRKARRKLIYEKAKHY 79
Query: 72 VKAYRAKERDEIRLMREAKKRGNYYIPGEAKLAFVIRIRGINRVAPKVRKTLQLLRLRQI 131
K YR R EIR+ R A+K GN+Y+P E KLAFVIRIRGIN V+PKVRK LQLLRLRQI
Sbjct: 80 HKEYRQMYRTEIRMARMARKAGNFYVPAEPKLAFVIRIRGINGVSPKVRKVLQLLRLRQI 139
Query: 132 NNGIFVRLNK-------------------------------------------------V 142
NG FV+LNK
Sbjct: 140 FNGTFVKLNKASINMLRIVEPYIAWGYPNLKSVNELIYKRGYGKINKKRIALTDNSLIAR 199
Query: 143 SVGKQNIICVEDLIHEVFTVGDNFKYASNALWPFKLNNPTGGWRKKTIHYVEGGDFGNRE 202
S+GK IIC+EDLIHE++TVG FK A+N LWPFKL++P GG +KKT H+VEGGD GNRE
Sbjct: 200 SLGKFGIICMEDLIHEIYTVGKRFKEANNFLWPFKLSSPRGGMKKKTTHFVEGGDAGNRE 259
Query: 203 DKINKLLRKM 212
D+IN+L+R+M
Sbjct: 260 DQINRLIRRM 269
>3izc_e 60S ribosomal protein RPL7 (L30P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_e
3o58_G 3o5h_G 3u5e_F 3u5i_F
Length = 244
Score = 150 bits (379), Expect = 2e-45
Identities = 89/239 (37%), Positives = 127/239 (53%), Gaps = 51/239 (21%)
Query: 25 LPVVPESVLKKRKKRENSRIISLHKKLTALANRKKKTREIFIRAEKYVKAYRAKERDEIR 84
+ PES LKK K ++ + ++ A K+K I R Y K Y ER+ I+
Sbjct: 5 KILTPESQLKKSKAQQKTAEQVAAERAARKAANKEKRAIILERNAAYQKEYETAERNIIQ 64
Query: 85 LMREAKKRGNYYIPGEAKLAFVIRIRGINRVAPKVRKTLQLLRLRQINNGIFVRLNK--- 141
R+AK G+YY+ + KL FV+RI+GIN++ PK RK LQLLRL +IN+G FV++ K
Sbjct: 65 AKRDAKAAGSYYVEAQHKLVFVVRIKGINKIPPKPRKVLQLLRLTRINSGTFVKVTKATL 124
Query: 142 ----------------------------------------------VSVGKQNIICVEDL 155
++GK I+ ++DL
Sbjct: 125 ELLKLIEPYVAYGYPSYSTIRQLVYKRGFGKINKQRVPLSDNAIIEANLGKYGILSIDDL 184
Query: 156 IHEVFTVGDNFKYASNALWPFKLNNPTGGW--RKKTIHYVEGGDFGNREDKINKLLRKM 212
IHE+ TVG +FK A+N LWPFKL+NP+GGW +K H+++GG FGNRE+ INKL++ M
Sbjct: 185 IHEIITVGPHFKQANNFLWPFKLSNPSGGWGVPRKFKHFIQGGSFGNREEFINKLVKSM 243
>3iz5_e 60S ribosomal protein L7 (L30P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_e
Length = 244
Score = 145 bits (367), Expect = 9e-44
Identities = 95/241 (39%), Positives = 132/241 (54%), Gaps = 49/241 (20%)
Query: 21 TKKGLPVVPESVLKKRKKRENSRIISLHKKLTALANRKKKTREIFIRAEKYVKAYRAKER 80
++ VPE V+ KR++ E K + T+ I+ RAE+Y Y A+++
Sbjct: 3 SEAAKVAVPEKVILKRRREEVWAAEKKQKVAAEKIKAAENTKVIYARAEQYAGEYEAQDK 62
Query: 81 DEIRLMREAKKRGNYYIPGEAKLAFVIRIRGINRVAPKVRKTLQLLRLRQINNGIFVRLN 140
+ ++L REA+ +G +Y+ EAK FV+RIRGIN + PK +K LQLLRLRQI NG+F+++N
Sbjct: 63 ELVQLKREARMKGGFYVSPEAKPLFVVRIRGINAMHPKTKKILQLLRLRQIFNGVFLKVN 122
Query: 141 K-------------------------------------------------VSVGKQNIIC 151
K +GK NIIC
Sbjct: 123 KATINMLRRVEPYVTYGYPNLKSVRELIYKRGYGKLNKQRIPLANNKVIEEGLGKHNIIC 182
Query: 152 VEDLIHEVFTVGDNFKYASNALWPFKLNNPTGGWRKKTIHYVEGGDFGNREDKINKLLRK 211
+EDL+HE+ TVG +FK A+N LWPFKL P GG +KK HYVEGGD GNRE+ IN+L+R+
Sbjct: 183 IEDLVHEILTVGPHFKEANNFLWPFKLKAPLGGLKKKRNHYVEGGDAGNRENYINQLVRR 242
Query: 212 M 212
M
Sbjct: 243 M 243
>3jyw_F 60S ribosomal protein L7(A); eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus} PDB:
1s1i_F
Length = 213
Score = 144 bits (364), Expect = 1e-43
Identities = 71/211 (33%), Positives = 96/211 (45%), Gaps = 51/211 (24%)
Query: 53 ALANRKKKTREIFIRAEKYVKAYRAKERDEIRLMREAKKRGNYYIPGEAKLAFVIRIRGI 112
A A A A A A A L FV+RI+GI
Sbjct: 2 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGLVFVVRIKGI 61
Query: 113 NRVAPKVRKTLQLLRLRQINNGIFVRLNK------------------------------- 141
N++ PK RK LQLLRL +IN+G FV++ K
Sbjct: 62 NKIPPKPRKVLQLLRLTRINSGTFVKVTKATLELLKLIEPYVAYGYPSYSTIRQLVYKRG 121
Query: 142 ------------------VSVGKQNIICVEDLIHEVFTVGDNFKYASNALWPFKLNNPTG 183
++GK I+ ++DLIHE+ TVG +FK A+N LWPFKL+NP+G
Sbjct: 122 FGKINKQRVPLSDNAIIEANLGKYGILSIDDLIHEIITVGPHFKQANNFLWPFKLSNPSG 181
Query: 184 GW--RKKTIHYVEGGDFGNREDKINKLLRKM 212
GW +K H+++GG FGNRE+ INKL++ M
Sbjct: 182 GWGVPRKFKHFIQGGSFGNREEFINKLVKSM 212
>1vq8_W 50S ribosomal protein L30P; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: d.59.1.1 PDB: 1jj2_V
1k73_X* 1k8a_X* 1k9m_X* 1kc8_X* 1kd1_X* 1kqs_V* 1m1k_X*
1m90_X* 1n8r_X* 1nji_X* 1q7y_X* 1q81_X* 1q82_X* 1q86_X*
1qvf_V 1qvg_V 1s72_W* 1vq4_W* 1vq5_W* ...
Length = 154
Score = 120 bits (302), Expect = 5e-35
Identities = 23/155 (14%), Positives = 45/155 (29%), Gaps = 47/155 (30%)
Query: 103 LAFVIRIRGINRVAPKVRKTLQLLRLRQINNGIFVRLNKVSVG----------------- 145
+ ++++RG + ++ TL++L + +N+ V G
Sbjct: 1 MHALVQLRGEVNMHTDIQDTLEMLNIHHVNHCTLVPETDAYRGMVAKVNDFVAFGEPSQE 60
Query: 146 --------------------------KQNIICVEDLIHEVFTVGDNFKYASNALWP-FKL 178
+ + L + + + L P +L
Sbjct: 61 TLETVLATRAEPLEGDADVDDEWVAEHTDYDDISGLAFALLSEETTLR--EQGLSPTLRL 118
Query: 179 NNPTGGWRKKTIHYVEGGDFGN-REDKINKLLRKM 212
+ P GG EGG G + I+ LL M
Sbjct: 119 HPPRGGHDGVKHPVKEGGQLGKHDTEGIDDLLEAM 153
>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 = 42.9 bits (100), Expect = 4e-05
Identities = 29/185 (15%), Positives = 54/185 (29%), Gaps = 52/185 (28%)
Query: 31 SVLKKRKKRENSRIISLHKKLTALANRKKKTREIFIRAEKYVKAYRAKERDEIRLMREAK 90
S+++K+ K I S++ +L + + + Y + + D++
Sbjct: 415 SLVEKQPKESTISIPSIYLELKVKLENEYALHRSIV--DHY-NIPKTFDSDDLIPPYL-- 469
Query: 91 KRGNY---YI--------PGEAK---------LAFV---IRIRGINRVAP-KVRKTLQLL 126
Y +I E F+ IR A + TLQ L
Sbjct: 470 --DQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQL 527
Query: 127 RL--RQI--NNGIFVRLNKVSVGKQNIICVEDLIHEVFTVGDNF---KYASNALWPFKLN 179
+ I N+ + RL V ++ + + +N KY L L
Sbjct: 528 KFYKPYICDNDPKYERL------------VNAILDFLPKIEENLICSKYTD--LLRIALM 573
Query: 180 NPTGG 184
Sbjct: 574 AEDEA 578
>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 = 35.8 bits (82), Expect = 0.008
Identities = 42/247 (17%), Positives = 70/247 (28%), Gaps = 94/247 (38%)
Query: 17 PKPKTKKGLPVVPESVLKKRKKRENSRIISLHKKLTALANRKKKTREIFIRAEKYVKAYR 76
P T + K ++ REN + + +K +EI + Y +R
Sbjct: 1669 PVNLT------IHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYT--FR 1720
Query: 77 AKERDEIRL---------------MREAKKRGNYYIP----------GE--AKLA----- 104
+ E+ + + K +G IP GE A LA
Sbjct: 1721 S-EKGLLSATQFTQPALTLMEKAAFEDLKSKGL--IPADATFAGHSLGEYAA-LASLADV 1776
Query: 105 --F-----VIRIRG--INRVAPKVRKTLQLLRLRQINNGIF-VRLNKVSVGKQNIICVED 154
V+ RG + P+ L + N G+ + +V+ E
Sbjct: 1777 MSIESLVEVVFYRGMTMQVAVPRD-------ELGRSNYGMIAINPGRVAAS----FSQEA 1825
Query: 155 LIHEVFTVGD---------NFKYASNALWPFKLNNPTGGWRKKTIHYVEGGDFGNREDKI 205
L + V VG N+ N + YV GD D +
Sbjct: 1826 LQYVVERVGKRTGWLVEIVNY------------NVE--NQQ-----YVAAGDLRAL-DTV 1865
Query: 206 NKLLRKM 212
+L +
Sbjct: 1866 TNVLNFI 1872
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 33.2 bits (75), Expect = 0.032
Identities = 17/69 (24%), Positives = 30/69 (43%), Gaps = 15/69 (21%)
Query: 29 PESVLKKRKKRENSRIISLHKKLTAL-ANRKKKTREIFIRAEKYVKAYRAKERDE----- 82
PES+ K R+++ K+L L A K +E +A+K ++ + + + E
Sbjct: 84 PESIRKWREEQR--------KRLQELDAASKVMEQEWREKAKKDLEEW-NQRQSEQVEKN 134
Query: 83 IRLMREAKK 91
R A K
Sbjct: 135 KINNRIADK 143
>1u5k_A Hypothetical protein; OBD-fold, Zn-binding,
recombination,replication; 2.00A {Deinococcus
radiodurans} SCOP: b.40.4.13 g.45.1.2 PDB: 1w3s_A
2v1c_C
Length = 244
Score = 30.6 bits (69), Expect = 0.33
Identities = 15/74 (20%), Positives = 27/74 (36%), Gaps = 11/74 (14%)
Query: 32 VLKKRKKRENSRIISL---HKKLTALANRKKKTR-----EIFIRAEKYVKAYRAKERDEI 83
V+++R I++L KL A+A K +F V+ Y+ D
Sbjct: 12 VIRRRVTPAGDIIVTLLTPQGKLKAIARGGVKGPLSSSLNLFHHVG--VQVYQGPHNDLA 69
Query: 84 RLMREAKKRGNYYI 97
+ ++A G
Sbjct: 70 SV-KQAVLEGALPT 82
>2z72_A Protein-tyrosine-phosphatase; cold-active enzyme, psychrophIle,
hydrolase; 1.10A {Shewanella SP} PDB: 1v73_A 2zbm_A
Length = 342
Score = 29.4 bits (65), Expect = 0.74
Identities = 27/123 (21%), Positives = 46/123 (37%), Gaps = 6/123 (4%)
Query: 93 GNYYIPGEAKLAFVIRIRGINRVAPKVRKTLQLLRLRQINNGIFVRLNKVSVGKQNIICV 152
G Y I + + I NR+ + LQ+ R + +L+ KQ +
Sbjct: 10 GPYVITPISGQSTAYWICD-NRLKTTSIEKLQVNRPEHCGDLPETKLSSEI--KQIMPDT 66
Query: 153 EDLIHEVFTVGD---NFKYASNALWPFKLNNPTGGWRKKTIHYVEGGDFGNREDKINKLL 209
I +V + D + L K+ + G W H V GD +R ++N++L
Sbjct: 67 YLGIKKVVALSDVHGQYDVLLTLLKKQKIIDSDGNWAFGEGHMVMTGDIFDRGHQVNEVL 126
Query: 210 RKM 212
M
Sbjct: 127 WFM 129
>1nkp_B MAX protein, MYC proto-oncogene protein; transcription, DNA,
BHLHZ, heterodimer, transcription/DNA complex; 1.80A
{Homo sapiens} SCOP: a.38.1.1 PDB: 1an2_A* 1r05_A
1nlw_B
Length = 83
Score = 27.3 bits (61), Expect = 1.0
Identities = 12/59 (20%), Positives = 26/59 (44%)
Query: 34 KKRKKRENSRIISLHKKLTALANRKKKTREIFIRAEKYVKAYRAKERDEIRLMREAKKR 92
+KR+ SL + +L K +I +A +Y++ R K + + + K++
Sbjct: 11 RKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKNHTHQQDIDDLKRQ 69
>3q8d_A DNA repair protein RECO; OB-fold, recombination initation, recom
initiation, SSB, RECR; HET: DNA CPS; 2.30A {Escherichia
coli}
Length = 242
Score = 28.7 bits (64), Expect = 1.3
Identities = 8/37 (21%), Positives = 16/37 (43%), Gaps = 6/37 (16%)
Query: 32 VLKKRKKRENSRIISL----HKKLTALA--NRKKKTR 62
VL R E S ++ + ++ +A R K++
Sbjct: 9 VLHSRPWSETSLMLDVFTEESGRVRLVAKGARSKRST 45
>3lvq_E ARF-GAP with SH3 domain, ANK repeat and PH domain containing
protein 3, ADP-ribosylation...; GDP, ASAP3, UPLC1,
linkers, alternat splicing; HET: GDP; 3.38A {Homo
sapiens} PDB: 3lvr_E*
Length = 497
Score = 27.2 bits (60), Expect = 4.8
Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 2/35 (5%)
Query: 61 TREIFIRAEKYV-KAYRAKERDEIRLMREAKKRGN 94
TR +I A KYV + + E + + A +
Sbjct: 111 TRRDYIMA-KYVEHRFARRCTPEPQRLWTAICNRD 144
>1x9m_A DNA polymerase; DNA ploymerase, N-2-acetylaminofluorene,
replication block, mutagenesis, transferase/electron
transport/DNA complex; HET: DNA 2DT 8FG; 2.10A
{Enterobacteria phage T7} SCOP: c.55.3.5 e.8.1.1 PDB:
1skr_A* 1skw_A* 1sl0_A* 1sks_A* 1sl2_A* 1t7p_A* 1t8e_A*
1tk0_A* 1tk5_A* 1tk8_A* 1tkd_A* 1sl1_A* 1x9s_A* 1x9w_A*
1zyq_A* 2ajq_A*
Length = 698
Score = 27.2 bits (60), Expect = 5.3
Identities = 9/23 (39%), Positives = 11/23 (47%)
Query: 13 KPKEPKPKTKKGLPVVPESVLKK 35
P T KG PVV + VL+
Sbjct: 343 AGWVPTKYTDKGAPVVDDEVLEG 365
>2coy_A Dynactin-1; microtubule binding, cytoskeleton associated protein,
P150- glued, DAP-150, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: b.34.10.1
Length = 112
Score = 25.2 bits (55), Expect = 9.0
Identities = 6/17 (35%), Positives = 12/17 (70%)
Query: 132 NNGIFVRLNKVSVGKQN 148
+GIFVR +++ V + +
Sbjct: 91 GHGIFVRQSQIQVFEDS 107
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
0.319 0.136 0.390
Gapped
Lambda K H
0.267 0.0570 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,238,208
Number of extensions: 193103
Number of successful extensions: 513
Number of sequences better than 10.0: 1
Number of HSP's gapped: 501
Number of HSP's successfully gapped: 41
Length of query: 213
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 123
Effective length of database: 4,188,903
Effective search space: 515235069
Effective search space used: 515235069
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 (21.7 bits)
S2: 55 (25.3 bits)