RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 031653
(155 letters)
>3iz6_R 40S ribosomal protein S15 (S19P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
2zkq_s 1s1h_S 3jyv_S*
Length = 154
Score = 241 bits (616), Expect = 2e-83
Identities = 135/155 (87%), Positives = 145/155 (93%), Gaps = 1/155 (0%)
Query: 1 MADGDADVAVAAAAGLPKKRTFKKFSFRGVDLDALLDMSNDELVKLFSARARRRFQRGLK 60
MAD + + VAA A PKKRTF+K+S+RGVDLDALLDMS D+LV+LF ARARRRFQRGLK
Sbjct: 1 MADVEVETEVAAGA-QPKKRTFRKYSYRGVDLDALLDMSTDDLVQLFPARARRRFQRGLK 59
Query: 61 RKPMALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPE 120
RKPMALIKKLRKAK++AP GEKPEPVRTHLRNMIIVPEMIGSI+GVYNGKTFNQVEIKPE
Sbjct: 60 RKPMALIKKLRKAKKDAPAGEKPEPVRTHLRNMIIVPEMIGSIVGVYNGKTFNQVEIKPE 119
Query: 121 MIGHYLAEFSISYKPVKHGRPGIGATHSSRFIPLK 155
MIGHYLAEFSISYKPVKHGRPGIGATHSSRFIPLK
Sbjct: 120 MIGHYLAEFSISYKPVKHGRPGIGATHSSRFIPLK 154
>3u5c_P 40S ribosomal protein S15; translation, ribosome, ribosomal,
ribosomal R ribosomal protein, eukaryotic ribosome,
RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB:
3izb_R 3o30_I 3o2z_I 3u5g_P 1s1h_S 3jyv_S*
Length = 142
Score = 221 bits (566), Expect = 6e-76
Identities = 93/144 (64%), Positives = 110/144 (76%), Gaps = 3/144 (2%)
Query: 12 AAAGLPKKRTFKKFSFRGVDLDALLDMSNDELVKLFSARARRRFQRGLKRKPMALIKKLR 71
+ A KKR FK S+RGVDL+ LL+MS ++ VKL AR RRRF RG+ KP +KKLR
Sbjct: 2 SQAVNAKKRVFKTHSYRGVDLEKLLEMSTEDFVKLAPARVRRRFARGMTSKPAGFMKKLR 61
Query: 72 KAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSI 131
AK AP EKP PVRTH+RNMIIVPEMIGS++G+YNGK FNQVEI+PEM+GHYL EFSI
Sbjct: 62 AAKLAAPENEKPAPVRTHMRNMIIVPEMIGSVVGIYNGKAFNQVEIRPEMLGHYLGEFSI 121
Query: 132 SYKPVKHGRPGIGATHSSRFIPLK 155
+Y PV+HGR G +SRFIPLK
Sbjct: 122 TYTPVRHGRAG---ATTSRFIPLK 142
>2xzm_S RPS15E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_S 3j0o_S 3j0l_S 3j0p_S 3j0q_S
Length = 144
Score = 199 bits (508), Expect = 4e-67
Identities = 64/139 (46%), Positives = 92/139 (66%), Gaps = 9/139 (6%)
Query: 17 PKKRTFKKFSFRGVDLDALLDMS---------NDELVKLFSARARRRFQRGLKRKPMALI 67
K++ KKF+FRG L+ L ++ +DEL LF A+ RRR +RG+ K +
Sbjct: 3 DNKKSIKKFTFRGKGLEELTALASGSNSEKLISDELAALFDAKTRRRVKRGISEKYAKFV 62
Query: 68 KKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLA 127
K+R++K + P GEKP PV+TH R+MI++PE++G I+GVYNGK F VE+K +MIG YLA
Sbjct: 63 NKVRRSKEKCPAGEKPVPVKTHYRSMIVIPELVGGIVGVYNGKEFVNVEVKFDMIGKYLA 122
Query: 128 EFSISYKPVKHGRPGIGAT 146
EF+++YKP HG+ G
Sbjct: 123 EFAMTYKPTTHGKTGAAGG 141
>3r8n_S 30S ribosomal protein S19; protein biosynthesis, RNA, tRNA,
transfer RNA, 16S ribosomal subunit, RRF; 3.00A
{Escherichia coli} PDB: 2ykr_S 3fih_S* 2wwl_S 3oar_S
3oaq_S 3ofb_S 3ofa_S 3ofp_S 3ofx_S 3ofy_S 3ofo_S 3r8o_S
4a2i_S 2gy9_S 2gyb_S
Length = 79
Score = 58.6 bits (143), Expect = 1e-12
Identities = 32/77 (41%), Positives = 43/77 (55%), Gaps = 7/77 (9%)
Query: 57 RGLKRKPMA---LIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFN 113
R LK+ P L+KK+ KA G+K +P+RT R I P MIG I V+NG+
Sbjct: 1 RSLKKGPFIDLHLLKKVEKAVES---GDK-KPLRTWSRRSTIFPNMIGLTIAVHNGRQHV 56
Query: 114 QVEIKPEMIGHYLAEFS 130
V + EM+GH L EF+
Sbjct: 57 PVFVTDEMVGHKLGEFA 73
>3i1m_S 30S ribosomal protein S19; ribosome structure, protein-RNA complex,
ribonucleoprotein, ribosomal protein, RNA-binding,
rRNA-binding, antibiotic resistance; 3.19A {Escherichia
coli k-12} PDB: 1vs7_S* 3e1a_L 3e1c_L 1vs5_S 3i1o_S
3i1q_S 3i1s_S 3i1z_S 3i21_S 3izv_W* 3izw_W* 3kc4_S
3or9_S 3ora_S 3sfs_S* 3uoq_S* 2qal_S* 1p6g_S 1p87_S
2aw7_S ...
Length = 92
Score = 57.5 bits (140), Expect = 4e-12
Identities = 32/77 (41%), Positives = 43/77 (55%), Gaps = 7/77 (9%)
Query: 57 RGLKRKPMA---LIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFN 113
R LK+ P L+KK+ KA G+K +P+RT R I P MIG I V+NG+
Sbjct: 3 RSLKKGPFIDLHLLKKVEKAVES---GDK-KPLRTWSRRSTIFPNMIGLTIAVHNGRQHV 58
Query: 114 QVEIKPEMIGHYLAEFS 130
V + EM+GH L EF+
Sbjct: 59 PVFVTDEMVGHKLGEFA 75
>3bbn_S Ribosomal protein S19; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Length = 92
Score = 57.5 bits (140), Expect = 5e-12
Identities = 27/77 (35%), Positives = 41/77 (53%), Gaps = 7/77 (9%)
Query: 57 RGLKRKPMA---LIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFN 113
R LK+ P L++K+ K ++ EK E + T R I+P MIG I ++NG+
Sbjct: 3 RSLKKNPFVANHLLRKIEKLNKK---AEK-EIIVTWSRASTIIPTMIGHTIAIHNGREHL 58
Query: 114 QVEIKPEMIGHYLAEFS 130
+ I M+GH L EF+
Sbjct: 59 PIYITDRMVGHKLGEFA 75
>3a1p_B 30S ribosomal protein S19; RIMM N-terminal domain, PRC-barrel
domain, beta barrels, ribosome, 30S ribosomal subunit,
ribosome biogenesis; 2.30A {Thermus thermophilus} PDB:
1fka_S 1gix_V* 1hnw_S* 1hnx_S* 1hnz_S* 1hr0_S 1ibk_S*
1ibl_S* 1ibm_S 1jgo_V* 1jgp_V* 1jgq_V* 1ml5_V* 1xmo_S*
1xmq_S* 1xnq_S* 1xnr_S* 1yl4_V 2b64_S* 2b9m_S* ...
Length = 93
Score = 56.8 bits (138), Expect = 1e-11
Identities = 30/77 (38%), Positives = 41/77 (53%), Gaps = 7/77 (9%)
Query: 57 RGLKRKPMA---LIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFN 113
R LK+ L++K+ + + GEK ++T R IVPEM+G I VYNGK
Sbjct: 3 RSLKKGVFVDDHLLEKVLELNAK---GEK-RLIKTWSRRSTIVPEMVGHTIAVYNGKQHV 58
Query: 114 QVEIKPEMIGHYLAEFS 130
V I M+GH L EF+
Sbjct: 59 PVYITENMVGHKLGEFA 75
>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 = 38.1 bits (88), Expect = 7e-04
Identities = 25/151 (16%), Positives = 45/151 (29%), Gaps = 57/151 (37%)
Query: 25 FSFRGVDLDAL---LDMSNDEL-------VKLFSARARRRF-----QRGLKRKPMALIKK 69
S + + + ++ +N L + L + + + L L
Sbjct: 339 LSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGA--KNLVVSGPPQSL----YGLNLT 392
Query: 70 LRKAKREAPPG----------EKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKP 119
LRKAK AP G K + L + P F+ + P
Sbjct: 393 LRKAK--APSGLDQSRIPFSERKLKFSNRFLP--VASP--------------FHSHLLVP 434
Query: 120 --EMIGHYLAEFSISYK------PVKHGRPG 142
++I L + ++S+ PV G
Sbjct: 435 ASDLINKDLVKNNVSFNAKDIQIPVYDTFDG 465
>2ke7_A Ankyrin repeat and sterIle alpha motif domain- containing protein
1B; SAM domain, alternative splicing, ANK repeat, cell
junction, cell membrane; NMR {Homo sapiens}
Length = 103
Score = 33.4 bits (76), Expect = 0.007
Identities = 15/76 (19%), Positives = 28/76 (36%), Gaps = 11/76 (14%)
Query: 15 GLPK-KRTFKKFSFRGVDLDALLDMSNDELVKL--FSARARRRFQRGLKRKPMALIKKLR 71
GLP+ + F V M + +L+++ ++ R+R + I+ L
Sbjct: 33 GLPQYENHLMANGFDNVQFMGSNVMEDQDLLEIGILNSGHRQRILQA--------IQLLP 84
Query: 72 KAKREAPPGEKPEPVR 87
K + G P V
Sbjct: 85 KMRPIGHDGYHPTSVA 100
>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 = 31.7 bits (71), Expect = 0.090
Identities = 24/143 (16%), Positives = 47/143 (32%), Gaps = 25/143 (17%)
Query: 22 FKK-FSFRGVDLDALLD-MSNDELVKLFSA-----RARRRFQRGLKRKPMALIKKLRKAK 74
F F + V D +S +E+ + + R F L K +++K +
Sbjct: 29 FVDNFDCKDV-QDMPKSILSKEEIDHIIMSKDAVSGTLRLFWT-LLSKQEEMVQKFVEEV 86
Query: 75 REAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEI-------KPEMIGHYLA 127
P++T R P M+ + + +N ++ + + L
Sbjct: 87 LRINYKFLMSPIKTEQRQ----PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPY-LKLR 141
Query: 128 EFSISYKPVK----HGRPGIGAT 146
+ + +P K G G G T
Sbjct: 142 QALLELRPAKNVLIDGVLGSGKT 164
Score = 28.3 bits (62), Expect = 1.4
Identities = 21/151 (13%), Positives = 40/151 (26%), Gaps = 41/151 (27%)
Query: 18 KKRTFKKFSFRGVDLDALL---DMSNDELVKLFSARAR-----R-----RFQRGLKRKPM 64
+R K + + LL ++ N + F+ + R F +
Sbjct: 234 LRRLLKSKPYE----NCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI 289
Query: 65 ALIKK------------LRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGV------ 106
+L L K P E + T+ R + I+ E I +
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKH 349
Query: 107 YNGKTFNQV------EIKPEMIGHYLAEFSI 131
N + ++P S+
Sbjct: 350 VNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380
>2f3n_A SH3 and multiple ankyrin repeat domains 3; postsynaptic density,
SAM domain, shank, scaffolding protein, structural
protein; 2.10A {Rattus norvegicus} SCOP: a.60.1.2 PDB:
2f44_A
Length = 76
Score = 27.7 bits (62), Expect = 0.48
Identities = 8/56 (14%), Positives = 22/56 (39%), Gaps = 10/56 (17%)
Query: 23 KKFSFRGVDLDALLDMSNDELVKL--FSARARRRFQRGLKRKPMALIKKLRKAKRE 76
+F ++ L ++ ++ V+L R +R +++L ++R
Sbjct: 24 DRFEDHEIEGAHLPALTKEDFVELGVTRVGHRENIERA--------LRQLDGSRRH 71
>2gle_A Neurabin-1; SAM domain, scaffold, protein protein interaction,
protein binding; NMR {Rattus norvegicus}
Length = 74
Score = 27.3 bits (61), Expect = 0.77
Identities = 9/53 (16%), Positives = 25/53 (47%), Gaps = 10/53 (18%)
Query: 23 KKFSFRGVDLDALLDMSNDELVKL--FSARARRRFQRGLKRKPMALIKKLRKA 73
+FS + + + LL + ++L L S++ R ++ +K+++ +
Sbjct: 26 SEFSAQNISGEQLLQLDGNKLKALGMTSSQDRALVKKK--------LKEMKMS 70
>2w37_A Ornithine carbamoyltransferase, catabolic; transcarbamylase,
metal binding-site, hexamer, cytoplasm, arginine
metabolism; 2.10A {Lactobacillus hilgardii}
Length = 359
Score = 28.7 bits (65), Expect = 0.78
Identities = 13/60 (21%), Positives = 23/60 (38%), Gaps = 7/60 (11%)
Query: 15 GLPKKRTFKKFSFRGVDLDALLDMSNDELVKLF-------SARARRRFQRGLKRKPMALI 67
+ F++ F+G + A D S EL L + + L+ K +AL+
Sbjct: 14 DDKMTKDFRQNVFQGRSVLAEKDFSAAELEYLIDFGLHLKALKKAGIPHHYLEGKNIALL 73
>1kw4_A Polyhomeotic; SAM domain, polycomb group, polymer, DNA binding
protein; 1.75A {Drosophila melanogaster} SCOP: a.60.1.2
PDB: 1pk1_A
Length = 89
Score = 27.2 bits (60), Expect = 1.0
Identities = 10/52 (19%), Positives = 21/52 (40%), Gaps = 6/52 (11%)
Query: 23 KKFSFRGVDLDALLDMSNDELVKLFSARARRRFQRGLKRKPMALIKKLRKAK 74
F + +D ALL + LV + G K +A ++ +++ +
Sbjct: 37 DDFIQQEIDGQALLRLKEKHLVNAMG------MKLGPALKIVAKVESIKEVR 82
>3ope_A Probable histone-lysine N-methyltransferase ASH1L; SET, nucleus;
HET: SAM; 2.90A {Homo sapiens}
Length = 222
Score = 27.3 bits (61), Expect = 1.8
Identities = 19/110 (17%), Positives = 34/110 (30%), Gaps = 34/110 (30%)
Query: 53 RRFQRGLKRKPMALIKKLRK-----AKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVY 107
+R QR + + + K K G+ II E +G ++
Sbjct: 65 QRIQRHEWVQCLERFRAEEKGWGIRTKEPLKAGQ-----------FII--EYLGEVV--- 108
Query: 108 NGKTFN--QVEIKPEMIGHYLAEFSISYKPVKHGRPGIGATHS---SRFI 152
+ + F +E HY ++ V I + +RFI
Sbjct: 109 SEQEFRNRMIEQYHNHSDHYC--LNLDSGMV------IDSYRMGNEARFI 150
>1vlv_A Otcase, ornithine carbamoyltransferase; TM1097, structural
genomics, protein structure initiative, PSI, joint
center for structu genomics; 2.25A {Thermotoga
maritima} SCOP: c.78.1.1 c.78.1.1
Length = 325
Score = 27.1 bits (61), Expect = 2.3
Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 7/50 (14%)
Query: 25 FSFRGVDLDALLDMSNDELVKLF-------SARARRRFQRGLKRKPMALI 67
+ +G L LLD S +E+ L + K +A+I
Sbjct: 15 VNLKGRSLLTLLDFSPEEIRYLLDISKQVKMENRSKLRTERFKGMTLAMI 64
>1dxh_A Ornithine carbamoyltransferase; transcarbamylase; 2.50A
{Pseudomonas aeruginosa} SCOP: c.78.1.1 c.78.1.1 PDB:
1ort_A
Length = 335
Score = 27.2 bits (61), Expect = 2.7
Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 7/50 (14%)
Query: 25 FSFRGVDLDALLDMSNDELVKLF-------SARARRRFQRGLKRKPMALI 67
F+ +L +L+ S EL L A+ Q+ LKRK +ALI
Sbjct: 2 FNMHNRNLLSLMHHSTRELRYLLDLSRDLKRAKYTGTEQQHLKRKNIALI 51
>3ue3_A Septum formation, penicillin binding protein 3, peptidoglycan
synthetase; transpeptidase, transferase; 2.30A
{Acinetobacter}
Length = 554
Score = 26.8 bits (60), Expect = 2.9
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 2/44 (4%)
Query: 32 LDALLDMSNDELVKLFSARARRRFQRGLKRK-PMALIKKLRKAK 74
L ++ M L K + RAR R+ L+R+ P + +
Sbjct: 85 LADVVGMDRKTLKKHMTDRARSRYLV-LQREVPPQQADLILQHN 127
>3k1r_B Usher syndrome type-1G protein; protein-protein complex,
alternative splicing, coiled coil, deafness, hearing,
non-syndromic deafness, polymorphism; 2.30A {Homo
sapiens}
Length = 74
Score = 25.5 bits (56), Expect = 3.6
Identities = 11/55 (20%), Positives = 23/55 (41%), Gaps = 7/55 (12%)
Query: 25 FSFRGVDLDALLDMSNDELVKLFSARARRRFQRGLKRKPMALIKKLRKAKREAPP 79
+DL+AL+ S+ +L + G + K + +++ R+A P
Sbjct: 21 LRQEKIDLEALMLCSDLDLRSI-------SVPLGPREKILGAVRRRRQAMERPPA 68
>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain.,
transport protein; NMR {Mus musculus}
Length = 177
Score = 26.0 bits (57), Expect = 4.4
Identities = 13/54 (24%), Positives = 20/54 (37%), Gaps = 2/54 (3%)
Query: 36 LDMSNDELVKL--FSARARRRFQRGLKRKPMALIKKLRKAKREAPPGEKPEPVR 87
+DMS D+++KL R R R +A + R A P +
Sbjct: 19 MDMSLDDIIKLNRNQRRVNRGGGPRRNRPAIARGGRNRPAPYSRPKPLPDKWQH 72
>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 = 26.1 bits (56), Expect = 4.4
Identities = 4/17 (23%), Positives = 8/17 (47%)
Query: 67 IKKLRKAKREAPPGEKP 83
+KKL+ + + P
Sbjct: 22 LKKLQASLKLYADDSAP 38
>3ty7_A Putative aldehyde dehydrogenase SAV2122; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG;
HET: MSE; 2.40A {Staphylococcus aureus}
Length = 478
Score = 26.3 bits (59), Expect = 5.2
Identities = 12/53 (22%), Positives = 20/53 (37%), Gaps = 13/53 (24%)
Query: 5 DADVAVAAAAGLPKKRTFKKFSF-----RGVDLDALLDM---SNDELVKLFSA 49
D D AV AA + +F R LD ++ D++V+ +
Sbjct: 46 DVDKAVEAA-----DDVYLEFRHTSVKERQALLDKIVKEYENRKDDIVQAITD 93
>2hah_A Protease, retropepsin; retroviral, aspartyl, hydrolase-hydrolase
complex; HET: 3TL; 1.70A {Feline immunodeficiency virus}
PDB: 3ogp_A* 3ogq_A* 2fiv_A* 6fiv_A* 3fiv_A* 5fiv_A*
4fiv_A* 1fiv_A* 1b11_A*
Length = 116
Score = 25.3 bits (55), Expect = 5.5
Identities = 8/30 (26%), Positives = 12/30 (40%), Gaps = 2/30 (6%)
Query: 95 IVPEMIGSIIGVYNGKTFNQVEIKPEMIGH 124
+MIG I G G + V + E+
Sbjct: 51 NGRQMIGGIGGFIRGTNYINVHL--EIRDE 78
>3upd_A Otcase, ornithine carbamoyltransferase; structural genomics,
center for structural genomics of infec diseases,
csgid; 2.91A {Vibrio vulnificus}
Length = 358
Score = 26.0 bits (58), Expect = 6.1
Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 7/50 (14%)
Query: 25 FSFRGVDLDALLDMSNDELVKLF-------SARARRRFQRGLKRKPMALI 67
F+ R + LLD S E+ L A+ Q+ L K +ALI
Sbjct: 27 FNLRNRNFLKLLDFSTKEIQFLIDLSADLKKAKYAGTEQKKLLGKNIALI 76
>3pbt_A Penicillin-binding protein 3; PBP3, hydrolase-antibiotic complex;
HET: UE1; 1.64A {Pseudomonas aeruginosa} PDB: 3pbn_A*
3pbo_A* 3pbr_A* 3pbs_A* 3pbq_A* 3oc2_A 3ocl_A* 3ocn_A*
Length = 538
Score = 26.0 bits (58), Expect = 6.2
Identities = 9/44 (20%), Positives = 11/44 (25%), Gaps = 2/44 (4%)
Query: 32 LDALLDMSNDELVKLFSARARRRFQRGLKRK-PMALIKKLRKAK 74
L A L A R F L R + + K
Sbjct: 58 LAAALGQDTKLFADRIEQNAEREFIY-LVRGLTPEQGEGVIALK 100
>2xki_A Neural hemoglobin; oxygen storage, metal-binding; HET: HEM SO4;
1.30A {Cerebratulus lacteus} PDB: 1kr7_A* 1v07_A*
2xkg_A* 2xkh_A* 2vyz_A* 2vyy_A*
Length = 110
Score = 25.4 bits (55), Expect = 6.3
Identities = 7/15 (46%), Positives = 9/15 (60%)
Query: 23 KKFSFRGVDLDALLD 37
KF F+GV L +L
Sbjct: 24 NKFGFKGVALGSLKG 38
>3ec0_A Protease; HIV-2, inhibitor, hydrolase; HET: GRL; 1.18A {Human
immunodeficiency virus type 2} SCOP: b.50.1.1 PDB:
1hii_A* 1hsi_A 1hsh_A* 1idb_A* 1jld_A* 2mip_A 1ida_A*
3ebz_A* 3ecg_A* 3s45_A* 4upj_A* 1ivq_A* 1ivp_A 2hpf_A
3upj_A* 2hpe_A* 5upj_A* 6upj_A* 1sip_A 1tcw_A* ...
Length = 99
Score = 25.1 bits (55), Expect = 6.8
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 2/28 (7%)
Query: 97 PEMIGSIIGVYNGKTFNQVEIKPEMIGH 124
P+++G I G N K + VEI E++
Sbjct: 44 PKIVGGIGGFINTKEYKNVEI--EVLNK 69
>1duv_G Octase-1, ornithine transcarbamoylase; enzyme-inhibitor complex,
transferase; HET: PSQ; 1.70A {Escherichia coli} SCOP:
c.78.1.1 c.78.1.1 PDB: 1akm_A* 2otc_A*
Length = 333
Score = 25.6 bits (57), Expect = 7.6
Identities = 12/49 (24%), Positives = 18/49 (36%), Gaps = 7/49 (14%)
Query: 26 SFRGVDLDALLDMSNDELVKLF-------SARARRRFQRGLKRKPMALI 67
F LLD + EL L + + + + L K +ALI
Sbjct: 2 GFYHKHFLKLLDFTPAELNSLLQLAAKLKADKKSGKEEAKLTGKNIALI 50
>3frq_A Repressor protein MPHR(A); macrolide antibiotic. repressor,
biosensor, erythromycin, STRPTOMYCES, natural products,
biosynthesis, DNA-binding; HET: ERY; 1.76A {Escherichia
coli} PDB: 3g56_A
Length = 195
Score = 25.3 bits (55), Expect = 8.5
Identities = 10/53 (18%), Positives = 22/53 (41%)
Query: 9 AVAAAAGLPKKRTFKKFSFRGVDLDALLDMSNDELVKLFSARARRRFQRGLKR 61
VA GL + ++F+ R L +++ +++ +A +GL
Sbjct: 33 GVAKEVGLSRAALIQRFTNRDTLLVRMMERGVEQVRHYLNAIPIGAGPQGLWE 85
>3i44_A Aldehyde dehydrogenase; oxidoreductase, structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; 2.00A {Bartonella henselae}
Length = 497
Score = 25.6 bits (57), Expect = 8.8
Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 13/53 (24%)
Query: 5 DADVAVAAAAGLPKKRTFKKFSF-----RGVDLDALLDMSN---DELVKLFSA 49
DAD A+ AA K+ F+ + R ++ +L++ ++ K S
Sbjct: 64 DADKAINAA-----KKAFQTWKTTSPHERLGFVEKILEIYEKRSSDMAKTISM 111
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 0.138 0.398
Gapped
Lambda K H
0.267 0.0749 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,582,514
Number of extensions: 161266
Number of successful extensions: 646
Number of sequences better than 10.0: 1
Number of HSP's gapped: 635
Number of HSP's successfully gapped: 56
Length of query: 155
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 69
Effective length of database: 4,300,587
Effective search space: 296740503
Effective search space used: 296740503
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 (24.2 bits)