RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 029116
(199 letters)
>3bbo_I Ribosomal protein L6; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 223
Score = 306 bits (787), Expect = e-107
Identities = 161/199 (80%), Positives = 181/199 (90%), Gaps = 1/199 (0%)
Query: 2 SNVPVNRVGFSRKTIECKESRIGKQPIEVPSNVTITLGGQDLKVKGPLGELSLVYPREVK 61
S+ P +VG+S KTIECKESRIGKQPI VPSNVTI L GQDLKVKGPLGEL+L YPREV+
Sbjct: 25 SSTPFAQVGYSSKTIECKESRIGKQPIAVPSNVTIALEGQDLKVKGPLGELALTYPREVE 84
Query: 62 VDREDS-FLRVRKTVETRRANQMHGLFRTLTDNMVVGVSKGFEKKLQMVGVGYRAALEGQ 120
+ +E+S FLRV+KTVETRRANQMHGLFRTLTDNMVVGVSKGFEKKL +VGVGYRA ++G+
Sbjct: 85 LTKEESGFLRVKKTVETRRANQMHGLFRTLTDNMVVGVSKGFEKKLILVGVGYRATVDGK 144
Query: 121 VLVLSLGFSHPVRMTIPDGIKVNVEENTRITVSGYDKSAIGQFAASIRKWRPPEPYKGKG 180
LVL+LGFSHPV+M IPD +KV VEENTRITVSGYDKS IGQFAA++RKWRPPEPYKGKG
Sbjct: 145 ELVLNLGFSHPVKMQIPDSLKVKVEENTRITVSGYDKSEIGQFAATVRKWRPPEPYKGKG 204
Query: 181 VKYVDEVIRRKEGKAGKKK 199
VKY DE++RRKEGKAGKKK
Sbjct: 205 VKYSDEIVRRKEGKAGKKK 223
>3v2d_H 50S ribosomal protein L6; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
1vsp_F 2hgj_H 2hgq_H 2hgu_H 1vsa_F 2j03_H 2jl6_H 2jl8_H
2v47_H 2v49_H 2wdi_H 2wdj_H 2wdl_H 2wdn_H 2wh2_H 2wh4_H
2wrj_H 2wrl_H 2wro_H 2wrr_H ...
Length = 180
Score = 292 bits (749), Expect = e-102
Identities = 86/179 (48%), Positives = 114/179 (63%)
Query: 21 SRIGKQPIEVPSNVTITLGGQDLKVKGPLGELSLVYPREVKVDREDSFLRVRKTVETRRA 80
SRIG+ PI VP V++ + +KVKGP GEL + E++V E+ +RV + + RR
Sbjct: 2 SRIGRLPIPVPKGVSVEVAPGRVKVKGPKGELEVPVSPEMRVVVEEGVVRVERPSDERRH 61
Query: 81 NQMHGLFRTLTDNMVVGVSKGFEKKLQMVGVGYRAALEGQVLVLSLGFSHPVRMTIPDGI 140
+HGL RTL N V GVS+G+ K+L + G+GYRA L G+ L L++GFSHPV + P+GI
Sbjct: 62 KSLHGLTRTLIANAVKGVSEGYSKELLIKGIGYRARLVGRALELTVGFSHPVVVEPPEGI 121
Query: 141 KVNVEENTRITVSGYDKSAIGQFAASIRKWRPPEPYKGKGVKYVDEVIRRKEGKAGKKK 199
V E TR+ VSG DK +GQ AA+IR R P Y KG+ Y E +R K GKAG KK
Sbjct: 122 TFEVPEPTRVRVSGIDKQKVGQVAANIRAIRKPSAYHEKGIYYAGEPVRLKPGKAGAKK 180
>1nkw_E 50S ribosomal protein L6; ribosome, large subunit, X- RAY
structure, peptidyl-transferase, peptide bond formation;
3.10A {Deinococcus radiodurans} SCOP: i.1.1.2 PDB:
1sm1_E*
Length = 212
Score = 292 bits (749), Expect = e-102
Identities = 86/187 (45%), Positives = 115/187 (61%)
Query: 12 SRKTIECKESRIGKQPIEVPSNVTITLGGQDLKVKGPLGELSLVYPREVKVDREDSFLRV 71
+ E SRIGKQPI VPS VT+ KVKGP GEL++ Y E+ V ++ L V
Sbjct: 20 DLRNKEDNMSRIGKQPIAVPSGVTVNAQDGVFKVKGPKGELTVPYNTELTVRQDGDQLLV 79
Query: 72 RKTVETRRANQMHGLFRTLTDNMVVGVSKGFEKKLQMVGVGYRAALEGQVLVLSLGFSHP 131
+ + ++ +HGL RTL N V GVS G+ L++ GVG+RA L G+ L +++G+SHP
Sbjct: 80 ERPSDAQKHRALHGLTRTLVANAVKGVSDGYTINLELRGVGFRAKLTGKALEMNIGYSHP 139
Query: 132 VRMTIPDGIKVNVEENTRITVSGYDKSAIGQFAASIRKWRPPEPYKGKGVKYVDEVIRRK 191
V + P G+ V E TRI VSG DK +GQ AA++RK R P+ Y GKGV++V E I K
Sbjct: 140 VIIEPPAGVTFAVPEPTRIDVSGIDKQLVGQVAANVRKVRKPDAYHGKGVRFVGEQIALK 199
Query: 192 EGKAGKK 198
GKAG
Sbjct: 200 AGKAGAT 206
>1rl6_A Protein (ribosomal protein L6); RNA-binding protein, gentamicin
resistance, alpha/beta protein; 2.00A {Geobacillus
stearothermophilus} SCOP: d.141.1.1 d.141.1.1 PDB:
1giy_H 1ml5_h* 1c04_B 1yl3_H 2b66_H 2b9n_H 2b9p_H 1eg0_J
487d_J
Length = 177
Score = 289 bits (741), Expect = e-101
Identities = 85/177 (48%), Positives = 125/177 (70%)
Query: 21 SRIGKQPIEVPSNVTITLGGQDLKVKGPLGELSLVYPREVKVDREDSFLRVRKTVETRRA 80
SR+GK+PIE+P+ VT+T+ G + VKGP GEL+ + ++ + E + + V + + +
Sbjct: 1 SRVGKKPIEIPAGVTVTVNGNTVTVKGPKGELTRTFHPDMTITVEGNVITVTRPSDEKHH 60
Query: 81 NQMHGLFRTLTDNMVVGVSKGFEKKLQMVGVGYRAALEGQVLVLSLGFSHPVRMTIPDGI 140
+HG R+L NMV GVSKG+EK L++VGVGYRA+ +G+ LVLS+G+SHPV + +G+
Sbjct: 61 RALHGTTRSLLANMVEGVSKGYEKALELVGVGYRASKQGKKLVLSVGYSHPVEIEPEEGL 120
Query: 141 KVNVEENTRITVSGYDKSAIGQFAASIRKWRPPEPYKGKGVKYVDEVIRRKEGKAGK 197
++ V T+I V G DK +G+ AA+IR RPPEPYKGKG++Y E++R KEGK GK
Sbjct: 121 EIEVPSQTKIIVKGADKQRVGELAANIRAVRPPEPYKGKGIRYEGELVRLKEGKTGK 177
>2zjr_E 50S ribosomal protein L6; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: d.141.1.1 d.141.1.1 PDB: 1nwx_E*
1xbp_E* 2zjp_E* 2zjq_E 1nwy_E 3cf5_E* 3dll_E* 3pio_E*
3pip_E* 1pnu_E 1pny_E 1vor_H 1vou_H 1vow_H 1voy_H 1vp0_H
Length = 185
Score = 287 bits (736), Expect = e-100
Identities = 85/179 (47%), Positives = 113/179 (63%)
Query: 21 SRIGKQPIEVPSNVTITLGGQDLKVKGPLGELSLVYPREVKVDREDSFLRVRKTVETRRA 80
SRIGKQPI VPS VT+ KVKGP GEL++ Y E+ V ++ L V + + ++
Sbjct: 2 SRIGKQPIAVPSGVTVNAQDGVFKVKGPKGELTVPYNTELTVRQDGDQLLVERPSDAQKH 61
Query: 81 NQMHGLFRTLTDNMVVGVSKGFEKKLQMVGVGYRAALEGQVLVLSLGFSHPVRMTIPDGI 140
+HGL RTL N V GVS G+ L++ GVG+RA L G+ L +++G+SHPV + P G+
Sbjct: 62 RALHGLTRTLVANAVKGVSDGYTINLELRGVGFRAKLTGKALEMNIGYSHPVIIEPPAGV 121
Query: 141 KVNVEENTRITVSGYDKSAIGQFAASIRKWRPPEPYKGKGVKYVDEVIRRKEGKAGKKK 199
V E TRI VSG DK +GQ AA++RK R P+ Y GKGV++V E I K GKAG
Sbjct: 122 TFAVPEPTRIDVSGIDKQLVGQVAANVRKVRKPDAYHGKGVRFVGEQIALKAGKAGATG 180
>3r8s_G 50S ribosomal protein L6; protein biosynthesis, RNA, tRNA, transfer
RNA, 23S ribosomal subunit, ribosome recycling factor,
RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_E
1p86_E 2awb_G 2aw4_G 2i2v_G 2j28_G 2i2t_G* 2qao_G*
2qba_G* 2qbc_G* 2qbe_G 2qbg_G 2qbi_G* 2qbk_G* 2qov_G
2qox_G 2qoz_G* 2qp1_G* 2rdo_G 2vhm_G ...
Length = 176
Score = 278 bits (714), Expect = 4e-97
Identities = 84/178 (47%), Positives = 109/178 (61%), Gaps = 2/178 (1%)
Query: 21 SRIGKQPIEVPSNVTITLGGQDLKVKGPLGELSLVYPREVKVDREDSFLRVRKTVETRRA 80
SR+ K P+ VP+ V + + GQ + +KG GEL+ V+V D+ L
Sbjct: 1 SRVAKAPVVVPAGVDVKINGQVITIKGKNGELTRTLNDAVEVKHADNTLTFGPRDGYADG 60
Query: 81 NQMHGLFRTLTDNMVVGVSKGFEKKLQMVGVGYRAALEGQVLVLSLGFSHPVRMTIPDGI 140
G R L ++MV+GV++GF KKLQ+VGVGYRAA++G V+ LSLGFSHPV +P GI
Sbjct: 61 WAQAGTARALLNSMVIGVTEGFTKKLQLVGVGYRAAVKGNVINLSLGFSHPVDHQLPAGI 120
Query: 141 KVNVEENTRITVSGYDKSAIGQFAASIRKWRPPEPYKGKGVKYVDEVIRRKEGKAGKK 198
T I + G DK IGQ AA +R +R PEPYKGKGV+Y DEV+R KE K KK
Sbjct: 121 TAECPTQTEIVLKGADKQVIGQVAADLRAYRRPEPYKGKGVRYADEVVRTKEAK--KK 176
>1vq8_E 50S ribosomal protein L6P; 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.141.1.1 d.141.1.1 PDB:
1vq4_E* 1vq5_E* 1vq6_E* 1vq7_E* 1s72_E* 1vq9_E* 1vqk_E*
1vql_E* 1vqm_E* 1vqn_E* 1vqo_E* 1vqp_E* 1yhq_E* 1yi2_E*
1yij_E* 1yit_E* 1yj9_E* 1yjn_E* 1yjw_E* 2otj_E* ...
Length = 178
Score = 196 bits (500), Expect = 1e-64
Identities = 42/179 (23%), Positives = 77/179 (43%), Gaps = 7/179 (3%)
Query: 23 IGKQPIEVPSNVTITLGGQDLKVKGPLGELSLVYP-REVKVDREDSFLRVRKTVETRRAN 81
+ + +E+P +V D+ V+G G ++ ++ V + + + + +
Sbjct: 1 MPRVELEIPEDVDAEQDHLDITVEGDNGSVTRRLWYPDIDVSVDGDTVVIESDEDNAKTM 60
Query: 82 QMHGLFRTLTDNMVVGVSKGFEKKLQMV--GVGYRAALEGQVLVLS--LGFSHPVRMTIP 137
G F++ +NM GV++G+E +++ + +EG +V+ LG P R TI
Sbjct: 61 STIGTFQSHIENMFHGVTEGWEYGMEVFYSHFPMQVNVEGDEVVIENFLGEKAPRRTTIH 120
Query: 138 DGIKVNVEENTRITVSGYDKSAIGQFAASIRKWRPPEPYKGKGVKYVDEVIRRKEGKAG 196
V + + +TVSG D A+GQ AA I + K V I RK +
Sbjct: 121 GDTDVEI-DGEELTVSGPDIEAVGQTAADIEQLTRIND-KDVRVFQDGVYITRKPNRGD 177
>2zkr_e 60S ribosomal protein L9; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 192
Score = 167 bits (424), Expect = 5e-53
Identities = 42/190 (22%), Positives = 74/190 (38%), Gaps = 15/190 (7%)
Query: 21 SRIGKQPIEVPSNVTITLGGQDLKVKGPLGELSLVYPRE----VKVDREDSFLRVRKTVE 76
+ + Q +++P NV ITL G+ + VKGP G L + + ++ LRV K
Sbjct: 3 TILSNQTVDIPENVDITLKGRTVIVKGPRGTLRRDFNHINVELSLLGKKKKRLRVDKWWG 62
Query: 77 TRRANQMHGLFRTLTDNMVVGVSKGFEKKLQMVGVGYRAALEGQV--------LVLSLGF 128
R+ + NM+ GV+ GF K++ V + + Q L +
Sbjct: 63 NRKELATVRTICSHVQNMIKGVTLGFRYKMRSVYAHFPINVVIQENGSLVEIRNFLGEKY 122
Query: 129 SHPVRMTIPDGIKVNVEENTRITVSGYDKSAIGQFAASIRKWRPPEPYKGKGVKYVDEVI 188
VRM V+ + + + G D + AA I++ K K ++ + I
Sbjct: 123 IRRVRMRPGVACSVSQAQKDELILEGNDIELVSNSAALIQQ---ATTVKNKDIRKFLDGI 179
Query: 189 RRKEGKAGKK 198
E ++
Sbjct: 180 YVSEKGTVQQ 189
>3u5e_H L8, RP24, YL11, 60S ribosomal protein L9-A; translation, ribosome,
ribosomal R ribosomal protein, STM1, eukaryotic
ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3izc_F
1s1i_H 3izs_F* 3j16_F 3o5h_I 3o58_I 3u5i_H 3jyw_H
Length = 191
Score = 159 bits (403), Expect = 9e-50
Identities = 41/182 (22%), Positives = 78/182 (42%), Gaps = 17/182 (9%)
Query: 25 KQPIEVPSNVTITLGGQDLKVKGPLGELS--LVYPREVKVDREDSFLRVRKTVETRRANQ 82
+Q IEVP VT+++ + +KV GP G L+ L + + ++V R+
Sbjct: 7 EQQIEVPEGVTVSIKSRIVKVVGPRGTLTKNLKHIDVTFTKVNNQLIKVAVHNGGRKHVA 66
Query: 83 MHGLFRTLTDNMVVGVSKGFEKKLQMVGVGYRAALE--------GQVLVLSLGFSHPVRM 134
++L DNM+ GV+KG++ K++ V + + + LG +
Sbjct: 67 ALRTVKSLVDNMITGVTKGYKYKMRYVYAHFPINVNIVEKDGAKFIEVRNFLGDKKIRNV 126
Query: 135 TIPDGIKVNVEEN--TRITVSGYDKSAIGQFAASIRKWRPPEPYKGKGV-KYVD-EVIRR 190
+ DG+ + N I +SG + Q AA +++ + K + K++D +
Sbjct: 127 PVRDGVTIEFSTNVKDEIVLSGNSVEDVSQNAADLQQIC---RVRNKDIRKFLDGIYVSH 183
Query: 191 KE 192
K
Sbjct: 184 KG 185
>3iz5_F 60S ribosomal protein L9 (L6P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_F
Length = 190
Score = 156 bits (396), Expect = 1e-48
Identities = 32/175 (18%), Positives = 71/175 (40%), Gaps = 14/175 (8%)
Query: 21 SRIGKQPIEVPSNVTITLGGQDLKVKGPLGELSLVYPR---EVKVDREDSFLRVRKTVET 77
+ + + +E+P VT+ + + + V+GP G+L+ + + ++ L+V T
Sbjct: 3 TILASETMEIPEGVTVQVAAKVVTVEGPRGKLTRNFKHLNLDFQLLEGGRKLQVDAWFGT 62
Query: 78 RRANQMHGLFRTLTDNMVVGVSKGFEKKLQMVGVGYRAALEGQVLVLS------LGFSHP 131
RR + N++ GV+KG+ K++ V + + LG
Sbjct: 63 RRTMAAIRTAISHVQNLITGVTKGYRYKMRFVYAHFPINASITNSNTAIEIRNFLGEKKV 122
Query: 132 VRMTIPDGIKVNVEEN--TRITVSGYDKSAIGQFAASIRKWRPPEPYKGKGVKYV 184
++ + +G+ + E + + G D + + AA I + K K ++
Sbjct: 123 RKVDMLEGVTILRSEKVKDELVLDGNDIELVSRSAALINQKCHV---KNKDIRKF 174
>4a17_E RPL9, 60S ribosomal protein L9; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_E 4a1c_E 4a1e_E
Length = 188
Score = 145 bits (367), Expect = 2e-44
Identities = 34/182 (18%), Positives = 77/182 (42%), Gaps = 15/182 (8%)
Query: 23 IGKQPIEVPSNVTITLGGQDLKVKGPLGELS--LVYPREVKVDREDSFLRVRKTVETRRA 80
+ + + +P VTIT + ++VKGPLG + Y ++++ +R+
Sbjct: 5 LTEVNVPIPDKVTITAKQRVVEVKGPLGTIKRAFRYASVDIQKPTADNVKLQIWQASRKE 64
Query: 81 NQMHGLFRTLTDNMVVGVSKGFEKKLQMVGVGYRAALEGQ------VLVLSLGFSHPVRM 134
+ + NM+ GV++G++ K+++ + + LG R+
Sbjct: 65 RAVLQSIASQIKNMIRGVTEGYKFKMKLAFAHFPIQEAVAKDGSSIEIKHFLGEKRIRRI 124
Query: 135 TIPDGIKVNVEEN--TRITVSGYDKSAIGQFAASIRKWRPPEPYKGKGV-KYVDEV-IRR 190
G+K++ ++ +T+ G D + + Q A I + K K + +++D + +
Sbjct: 125 QALPGVKISRKDEEKNTLTLQGIDLNNVSQTCALIHQSCLV---KEKDIRQFLDGIYVSD 181
Query: 191 KE 192
K
Sbjct: 182 KR 183
>2cql_A OK/SW-CL.103, 60S ribosomal protein L9; N-terminal domain, alpha
and beta (A+B), structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: d.141.1.1
Length = 100
Score = 85.1 bits (211), Expect = 5e-22
Identities = 24/88 (27%), Positives = 39/88 (44%), Gaps = 4/88 (4%)
Query: 21 SRIGKQPIEVPSNVTITLGGQDLKVKGPLGELSLVYPRE----VKVDREDSFLRVRKTVE 76
+ + Q +++P NV ITL G+ + VKGP G L + + ++ LRV K
Sbjct: 10 TILSNQTVDIPENVDITLKGRTVIVKGPRGTLRRDFNHINVELSLLGKKKKRLRVDKWWG 69
Query: 77 TRRANQMHGLFRTLTDNMVVGVSKGFEK 104
R+ + NM+ GV+ G
Sbjct: 70 NRKELATVRTICSHVQNMIKGVTLGSGP 97
Score = 25.0 bits (55), Expect = 8.8
Identities = 5/20 (25%), Positives = 11/20 (55%), Gaps = 1/20 (5%)
Query: 135 TIPDGIKVNVEENTRITVSG 154
IP+ + + ++ T + V G
Sbjct: 18 DIPENVDITLKGRT-VIVKG 36
>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 = 38.7 bits (89), Expect = 8e-04
Identities = 20/123 (16%), Positives = 41/123 (33%), Gaps = 37/123 (30%)
Query: 21 SRIGKQPIEVPSNVTITLGGQDLKVKGPLGELSLVYPREVKVDREDSFLRVRKTVETRRA 80
S I + + PS +T Q + L + V+ + V R +L++R+ + R
Sbjct: 96 SPIKTEQRQ-PSMMTRMYIEQ----RDRLYNDNQVFAK-YNVSRLQPYLKLRQALLELRP 149
Query: 81 NQ---MHGLFRTLTDNMVVGVSKGFEKKLQMVGVGYRAALEGQVLVLSLGFSHPVRMTIP 137
+ + G ++G G + L + S+ V+ +
Sbjct: 150 AKNVLIDG----------------------VLGSG------KTWVALDVCLSYKVQCKMD 181
Query: 138 DGI 140
I
Sbjct: 182 FKI 184
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.9 bits (69), Expect = 0.16
Identities = 7/34 (20%), Positives = 14/34 (41%), Gaps = 10/34 (29%)
Query: 166 SIRKWRPPEPYKGKGVKYVDEVIRRKEGKAGKKK 199
SIRKWR E + + ++ + + +
Sbjct: 86 SIRKWR--EEQR--------KRLQELDAASKVME 109
>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 = 28.4 bits (62), Expect = 1.0
Identities = 5/21 (23%), Positives = 11/21 (52%), Gaps = 3/21 (14%)
Query: 156 DKSAIGQFAASIRKWRP---P 173
+K A+ + AS++ + P
Sbjct: 18 EKQALKKLQASLKLYADDSAP 38
>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 = 28.9 bits (64), Expect = 1.4
Identities = 23/112 (20%), Positives = 37/112 (33%), Gaps = 41/112 (36%)
Query: 43 LKVKG-PLGELSLVYPREVKVDREDSFLRVRKTVETRRANQMHGLFRTLTDNMVVGVSKG 101
L + ++ + V++ +S L K VE N G N+VV
Sbjct: 339 LSISNLTQEQV------QDYVNKTNSHLPAGKQVEISLVN---G-----AKNLVVS---- 380
Query: 102 FEKKLQMVGVGYRAALEGQVLVLSLGFSHPVRMTIPDGIKVNVEENTRITVS 153
G +L G L L+L + P G+ + +RI S
Sbjct: 381 ----------GPPQSLYG--LNLTL-----RKAKAPSGL-----DQSRIPFS 410
>3ocr_A Class II aldolase/adducin domain protein; PSI-2, midwest center for
structural genomics, protein struc initiative, MCSG,
lyase; 1.95A {Pseudomonas syringae PV}
Length = 273
Score = 28.1 bits (63), Expect = 1.7
Identities = 12/56 (21%), Positives = 19/56 (33%), Gaps = 3/56 (5%)
Query: 114 RAALEGQVLVLSLGFSHPVRMTIPDGIKVNVEENTRITVSGYDKSAIGQFAASIRK 169
A Q+ S G + + P + VEE + G + A IR+
Sbjct: 211 YAC-NIQIAAQSAG--NAELVFPPREVIAKVEEQAKAIKDGNGPGVARHWNALIRE 263
>2jpp_A Translational repressor; RNA recognition, protein/RNA, CSRA,
RSMA, shine-dalgarno; NMR {Pseudomonas fluorescens}
Length = 70
Score = 25.1 bits (55), Expect = 5.6
Identities = 14/52 (26%), Positives = 28/52 (53%), Gaps = 4/52 (7%)
Query: 21 SRIGKQPIEVPSNVTITLGGQDLKVKGPLGELSLVYPREVKVDREDSFLRVR 72
+R + I + ++TIT+ L V G + + P++V V RE+ + R++
Sbjct: 5 TRKVGESINIGDDITITI----LGVSGQQVRIGINAPKDVAVHREEIYQRIQ 52
>2v7k_A PRNB; IDO, TDO, biosynthetic protein; HET: HEM DTR; 1.70A
{Pseudomonas fluorescens} PDB: 2v7j_A* 2v7i_A* 2v7l_A*
2v7m_A* 2x66_A* 2x67_A* 2x68_A*
Length = 361
Score = 26.6 bits (58), Expect = 6.6
Identities = 13/82 (15%), Positives = 29/82 (35%), Gaps = 2/82 (2%)
Query: 102 FEKKLQMVGVGYRAALEGQVLVLSLGFSHPVRMTIPDGIKVNVEENTRITVSGYDKSAIG 161
+ +++ AA+ V + + P D ++ +++ V Y +
Sbjct: 140 LLESVRISMAALEAAIALTVELFDVSLRSPEFAQRSDELEAYLQKMVESIVYAYRFISPQ 199
Query: 162 QFAASIRKWRPPEPYKGKGVKY 183
F +R + EP + G Y
Sbjct: 200 VFYDELRPFY--EPIRVGGQSY 219
>1t3o_A Carbon storage regulator; CSRA, CSRB, CSRC, mostly beta strands,
RNA binding protein, beta sheet surface; NMR {Bacillus
subtilis}
Length = 95
Score = 24.8 bits (54), Expect = 9.0
Identities = 9/52 (17%), Positives = 29/52 (55%), Gaps = 4/52 (7%)
Query: 21 SRIGKQPIEVPSNVTITLGGQDLKVKGPLGELSLVYPREVKVDREDSFLRVR 72
SR + I++ +++ + + + V+G +L + P+ + + R++ +L ++
Sbjct: 26 SRKINEAIQIGADIEVKV----IAVEGDQVKLGIDAPKHIDIHRKEIYLTIQ 73
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
0.317 0.136 0.386
Gapped
Lambda K H
0.267 0.0837 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,996,984
Number of extensions: 173474
Number of successful extensions: 392
Number of sequences better than 10.0: 1
Number of HSP's gapped: 348
Number of HSP's successfully gapped: 30
Length of query: 199
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 110
Effective length of database: 4,216,824
Effective search space: 463850640
Effective search space used: 463850640
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (24.8 bits)