RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 024947
(260 letters)
>3iz5_B 60S ribosomal protein L2 (L2P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_B 2zkr_a
Length = 261
Score = 383 bits (985), Expect = e-136
Identities = 244/260 (93%), Positives = 256/260 (98%)
Query: 1 MGRVIRAQRKGAGSVFKSHTHHRKGPARFRSLDFGERNGYLKGVITEIIHDPGRGAPLAR 60
MGRVIRAQRKGAGSVFKSHTHHRKGPARFRSLDFGERNGYLKGV+T+IIHDPGRGAPLA+
Sbjct: 1 MGRVIRAQRKGAGSVFKSHTHHRKGPARFRSLDFGERNGYLKGVVTDIIHDPGRGAPLAK 60
Query: 61 VTFRHPFRYQHQKELFVAAEGMYTGQFVYCGRKATLVVGNVLPLRSIPEGAVVCNVEHHV 120
VTFRHPFRY+HQKELFVAAEGMYTGQFVYCGR+ATL +GNVLP+RS+PEGAVVCNVEHHV
Sbjct: 61 VTFRHPFRYKHQKELFVAAEGMYTGQFVYCGRRATLSIGNVLPIRSVPEGAVVCNVEHHV 120
Query: 121 GDRGVFARCSGDYAVVISHNPDNDTTRIKLPSGAKKIVPSGCRAMIGQVAGGGRTEKPLL 180
GDRGVFAR SGDYA+VISHNPDN T+RIKLPSGAKKIVPS CRAMIGQVAGGGRTEKP+L
Sbjct: 121 GDRGVFARASGDYAIVISHNPDNGTSRIKLPSGAKKIVPSSCRAMIGQVAGGGRTEKPML 180
Query: 181 KAGNAYHKFRVKRNCWPKVRGVAMNPVEHPHGGGNHQHIGHASTVRRDAPPGQKVGLIAA 240
KAGNAYHK+RVKRNCWPKVRGVAMNPVEHPHGGGNHQHIGHASTVRRDAPPGQKVGLIAA
Sbjct: 181 KAGNAYHKYRVKRNCWPKVRGVAMNPVEHPHGGGNHQHIGHASTVRRDAPPGQKVGLIAA 240
Query: 241 RRTGRLRGQAAATAAKADKA 260
RRTGRLRGQAAATAAKADKA
Sbjct: 241 RRTGRLRGQAAATAAKADKA 260
>3jyw_B 60S ribosomal protein L2; eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus} PDB:
3izc_B 3izs_B 3o58_B 3o5h_B 3u5e_A 3u5i_A 1s1i_B
Length = 243
Score = 368 bits (946), Expect = e-130
Identities = 157/243 (64%), Positives = 200/243 (82%)
Query: 2 GRVIRAQRKGAGSVFKSHTHHRKGPARFRSLDFGERNGYLKGVITEIIHDPGRGAPLARV 61
GRVIR QRKGAGS+F SHT R+G A+ R+LD+ ER+GY++G++ +I+HD GRGAPLA+V
Sbjct: 1 GRVIRNQRKGAGSIFTSHTRLRQGAAKLRTLDYAERHGYIRGIVKQIVHDSGRGAPLAKV 60
Query: 62 TFRHPFRYQHQKELFVAAEGMYTGQFVYCGRKATLVVGNVLPLRSIPEGAVVCNVEHHVG 121
FR P++Y+ ++E+F+A EG++TGQF+Y G+KA+L VGNVLPL S+PEG +V NVE G
Sbjct: 61 VFRDPYKYRLREEIFIANEGVHTGQFIYAGKKASLNVGNVLPLGSVPEGTIVSNVEEKPG 120
Query: 122 DRGVFARCSGDYAVVISHNPDNDTTRIKLPSGAKKIVPSGCRAMIGQVAGGGRTEKPLLK 181
DRG AR SG+Y ++I HNPD + TR++LPSGAKK++ S R +IG +AGGGR +KPLLK
Sbjct: 121 DRGALARASGNYVIIIGHNPDENKTRVRLPSGAKKVISSDARGVIGVIAGGGRVDKPLLK 180
Query: 182 AGNAYHKFRVKRNCWPKVRGVAMNPVEHPHGGGNHQHIGHASTVRRDAPPGQKVGLIAAR 241
AG A+HK+R+KRN WPK RGVAMNPV+HPHGGGNHQHIG AST+ R A GQK GLIAAR
Sbjct: 181 AGRAFHKYRLKRNSWPKTRGVAMNPVDHPHGGGNHQHIGKASTISRGAVSGQKAGLIAAR 240
Query: 242 RTG 244
RTG
Sbjct: 241 RTG 243
>4a17_A RPL8; eukaryotic ribosome, ribosome, eukaryotic initiation factor
60S, translation, large ribosomal subunit; 3.52A
{Tetrahymena thermophila} PDB: 4a1a_A 4a1c_A 4a1e_A
Length = 264
Score = 354 bits (912), Expect = e-125
Identities = 166/261 (63%), Positives = 197/261 (75%), Gaps = 1/261 (0%)
Query: 1 MGRVIRAQRKG-AGSVFKSHTHHRKGPARFRSLDFGERNGYLKGVITEIIHDPGRGAPLA 59
MGRVIRAQRKG A V+KSH R PA++R DF ER GY++G I +I+H+PGRGAPLA
Sbjct: 1 MGRVIRAQRKGRANGVYKSHKSGRIAPAQYRVYDFAERQGYIRGCIRDIVHEPGRGAPLA 60
Query: 60 RVTFRHPFRYQHQKELFVAAEGMYTGQFVYCGRKATLVVGNVLPLRSIPEGAVVCNVEHH 119
V FR P+RY+ KE F+AAEG Y+GQ+VYCG KA + VGNVLP+ IPEG VVCNVE
Sbjct: 61 EVAFRDPYRYKTNKEHFIAAEGQYSGQYVYCGLKAQIAVGNVLPINRIPEGTVVCNVEEK 120
Query: 120 VGDRGVFARCSGDYAVVISHNPDNDTTRIKLPSGAKKIVPSGCRAMIGQVAGGGRTEKPL 179
VGDRG F+R SG YA +I H+ D D TRI+LPSGA+K +P CRA +G VAGGGRT+KP+
Sbjct: 121 VGDRGTFSRASGCYATIIGHSEDGDKTRIRLPSGARKTIPGSCRATVGIVAGGGRTDKPI 180
Query: 180 LKAGNAYHKFRVKRNCWPKVRGVAMNPVEHPHGGGNHQHIGHASTVRRDAPPGQKVGLIA 239
LKAGN +HK+ KR WP+VRGVAMNPV+HPHGGGNHQHIGH +TV + A GQKVGL A
Sbjct: 181 LKAGNQFHKYARKRKSWPRVRGVAMNPVDHPHGGGNHQHIGHPATVSKWASAGQKVGLRA 240
Query: 240 ARRTGRLRGQAAATAAKADKA 260
ARRTG +RG A A
Sbjct: 241 ARRTGLVRGGQKEKMAMKAAA 261
>1vq8_A 50S ribosomal protein L2P; 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: b.34.5.3 b.40.4.5 PDB:
1vq4_A* 1vq5_A* 1vq6_A* 1vq7_A* 1s72_A* 1vq9_A* 1vqk_A*
1vql_A* 1vqm_A* 1vqn_A* 1vqo_A* 1vqp_A* 1yhq_A* 1yi2_A*
1yij_A* 1yit_A* 1yj9_A* 1yjn_A* 1yjw_A* 2otj_A* ...
Length = 240
Score = 316 bits (812), Expect = e-110
Identities = 114/246 (46%), Positives = 148/246 (60%), Gaps = 11/246 (4%)
Query: 1 MGRVIRAQRKGAG-SVFKSHTHHRKGPARFRSLDFGERNGYLKGVITEIIHDPGRGAPLA 59
MGR I+ QR+G G S F++ +H K R ++ + G + +I HDP R AP+A
Sbjct: 1 MGRRIQGQRRGRGTSTFRAPSHRYKADLEHRKVE---DGDVIAGTVVDIEHDPARSAPVA 57
Query: 60 RVTFRHPFRYQHQKELFVAAEGMYTGQFVYCGRKATLVVGNVLPLRSIPEGAVVCNVEHH 119
V F + L +A EG+ G + G A + GN LPL IPEG VCNVE
Sbjct: 58 AVEFEDG-----DRRLILAPEGVGVGDELQVGVSAEIAPGNTLPLAEIPEGVPVCNVESS 112
Query: 120 VGDRGVFARCSGDYAVVISHNPDNDTTRIKLPSGAKKIVPSGCRAMIGQVAGGGRTEKPL 179
GD G FAR SG A +++H D + +KLPSG K + CRA IG VAGGGRT+KP
Sbjct: 113 PGDGGKFARASGVNAQLLTH--DRNVAVVKLPSGEMKRLDPQCRATIGVVAGGGRTDKPF 170
Query: 180 LKAGNAYHKFRVKRNCWPKVRGVAMNPVEHPHGGGNHQHIGHASTVRRDAPPGQKVGLIA 239
+KAGN +HK + + WP VRGVAMN V+HP GGG QH G ++ R+APPG+KVG IA
Sbjct: 171 VKAGNKHHKMKARGTKWPNVRGVAMNAVDHPFGGGGRQHPGKPKSISRNAPPGRKVGDIA 230
Query: 240 ARRTGR 245
++RTGR
Sbjct: 231 SKRTGR 236
>1giy_D 50S ribosomal protein L2; ribosome assembly, protein synthesis,
LIFE; 5.50A {Thermus thermophilus} SCOP: i.1.1.1 PDB:
1ml5_d* 1yl3_D 2b66_D 2b9n_D 2b9p_D
Length = 178
Score = 115 bits (291), Expect = 3e-32
Identities = 67/187 (35%), Positives = 103/187 (55%), Gaps = 11/187 (5%)
Query: 28 RFRSLDFGERNGY-LKGVITEIIHDPGRGAPLARVTFRH-PFRYQHQKELFVAAEGMYTG 85
++R +DF +R+ + G + I +DP R A +A + + RY +A + + G
Sbjct: 1 QYRIIDF-KRDKDGIPGRVATIEYDPNRSANIALINYADGEKRY------IIAPKNLKVG 53
Query: 86 QFVYCGRKATLVVGNVLPLRSIPEGAVVCNVEHHVGDRGVFARCSGDYAVVISHNPDNDT 145
+ G A + +GN LPL +IP G +V N+E G G R +G A V+ +
Sbjct: 54 MEIMSGPDADIKIGNALPLENIPVGTLVHNIELKPGRGGQLVRAAGTSAQVLGK--EGKY 111
Query: 146 TRIKLPSGAKKIVPSGCRAMIGQVAGGGRTEKPLLKAGNAYHKFRVKRNCWPKVRGVAMN 205
++L SG +++ CRA +G+V GGRT+KP +KAGN +HK + + WP VRGVAMN
Sbjct: 112 VIVRLASGEVRMILGKCRATVGEVGNGGRTDKPFVKAGNKHHKMKARGTKWPNVRGVAMN 171
Query: 206 PVEHPHG 212
V+HP G
Sbjct: 172 AVDHPFG 178
>3bbo_E Ribosomal protein L2; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 269
Score = 112 bits (282), Expect = 5e-30
Identities = 62/192 (32%), Positives = 91/192 (47%), Gaps = 22/192 (11%)
Query: 28 RFRSLDFGERNGYLKGVITEIIHDPGRGAPLARVTFRHPFRYQH-QKELFVAAEGMYTGQ 86
+R +DF + G I I +DP R A + + Y +K + G G
Sbjct: 57 LYRKIDFRRNEKDIYGKIVTIEYDPNRNAYICLI------HYGDGEKRYILHPRGAIIGD 110
Query: 87 FVYCGRKATLVVGNVLPLRSIPEGAVVCNVEHHVGDRGVFARCSGDYAVVISHNPDNDTT 146
+ G + + +GN LPL +P G + N+E +G G AR +G A +I+ + +
Sbjct: 111 TIVSGTEVPIKMGNALPLTDMPLGTAIHNIEITLGRGGQLARAAGAVAKLIAK--EGKSA 168
Query: 147 RIKLPSGAKKIVPSGCRAMIGQVAGGGRTEKPLLKAGNAYHKFRVKRNCW----PKVRGV 202
+KLPSG +++ C A +GQV G +K L +AG W P VRGV
Sbjct: 169 TLKLPSGEVRLISKNCSATVGQVGNVGVNQKRLGRAG---------SKRWLGKRPVVRGV 219
Query: 203 AMNPVEHPHGGG 214
MNPV+HPHGGG
Sbjct: 220 VMNPVDHPHGGG 231
>3r8s_C 50S ribosomal protein L2; protein biosynthesis, RNA, tRNA, transfer
RNA, 23S ribosomal subunit, ribosome recycling factor,
RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_C
2wwq_C 3oat_C* 3oas_C* 3ofd_C 3ofc_C 3ofr_C* 3ofz_C*
3og0_C 3ofq_C 3r8t_C 3i1n_C 1vs8_C 1vs6_C 2aw4_C 2awb_C
2vhm_C 2vhn_C 3bbx_C 3df2_C ...
Length = 271
Score = 111 bits (280), Expect = 1e-29
Identities = 64/191 (33%), Positives = 94/191 (49%), Gaps = 20/191 (10%)
Query: 28 RFRSLDFGERNGYLKGVITEIIHDPGRGAPLARVTFRHPFRYQHQKELFVAAEGMYTGQF 87
+R +DF + V+ + +DP R A +A V ++ ++ +A +G+ G
Sbjct: 60 AYRIVDFKRNKDGIPAVVERLEYDPNRSANIALVLYK-----DGERRYILAPKGLKAGDQ 114
Query: 88 VYCGRKATLVVGNVLPLRSIPEGAVVCNVEHHVGDRGVFARCSGDYAVVISHNPDNDTTR 147
+ G A + GN LP+R+IP G+ V NVE G G AR +G Y +++ D
Sbjct: 115 IQSGVDAAIKPGNTLPMRNIPVGSTVHNVEMKPGKGGQLARSAGTYVQIVAR--DGAYVT 172
Query: 148 IKLPSGAKKIVPSGCRAMIGQVAGGGRTEKPLLKAGNAYHKFRVKRNCW----PKVRGVA 203
++L SG + V + CRA +G+V G E L G A W P VRG A
Sbjct: 173 LRLRSGEMRKVEADCRATLGEV---GNAEHMLRVLGKA------GAARWRGVRPTVRGTA 223
Query: 204 MNPVEHPHGGG 214
MNPV+HPHGGG
Sbjct: 224 MNPVDHPHGGG 234
>3v2d_D 50S ribosomal protein L2; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
1vsp_B 2hgj_D 2hgq_D 2hgu_D 1vsa_B 2j03_D 2jl6_D 2jl8_D
2v47_D 2v49_D 2wdi_D 2wdj_D 2wdl_D 2wdn_D 2wh2_D 2wh4_D
2wrj_D 2wrl_D 2wro_D 2wrr_D ...
Length = 276
Score = 109 bits (276), Expect = 5e-29
Identities = 66/193 (34%), Positives = 90/193 (46%), Gaps = 23/193 (11%)
Query: 28 RFRSLDFGERNGY-LKGVITEIIHDPGRGAPLARVTFRH-PFRYQHQKELFVAAEGMYTG 85
+R +DF + + + I +DP R A +A + + RY +A +G+ G
Sbjct: 61 LYRIIDFKRWDKVGIPAKVAAIEYDPNRSARIALLHYVDGEKRY------IIAPDGLQVG 114
Query: 86 QFVYCGRKATLVVGNVLPLRSIPEGAVVCNVEHHVGDRGVFARCSGDYAVVISHNPDNDT 145
Q V G A + VGN LPLR IP G VV VE AR +G A + + D
Sbjct: 115 QQVVAGPDAPIQVGNALPLRFIPVGTVVHAVELEPKKGAKLARAAGTSAQIQGR--EGDY 172
Query: 146 TRIKLPSGAKKIVPSGCRAMIGQVAGGGRTEKPLLKAGNAYHKFRVKRNCW----PKVRG 201
++LPSG + V C A +G V G + + G A R+ W P VRG
Sbjct: 173 VILRLPSGELRKVHGECYATVGAV---GNADHKNIVLGKA------GRSRWLGRRPHVRG 223
Query: 202 VAMNPVEHPHGGG 214
AMNPV+HPHGGG
Sbjct: 224 AAMNPVDHPHGGG 236
>1rl2_A Protein (ribosomal protein L2); RNA-binding domain,
peptidyltransferease center, X-RAY diffraction; 2.30A
{Geobacillus stearothermophilus} SCOP: b.34.5.3 b.40.4.5
PDB: 1c04_A 487d_I
Length = 137
Score = 78.7 bits (195), Expect = 1e-18
Identities = 42/144 (29%), Positives = 72/144 (50%), Gaps = 11/144 (7%)
Query: 28 RFRSLDFGERNGY-LKGVITEIIHDPGRGAPLARVTFRH-PFRYQHQKELFVAAEGMYTG 85
++R +DF +R+ + G + I +DP R A +A + + RY +A + + G
Sbjct: 1 QYRIIDF-KRDKDGIPGRVATIEYDPNRSANIALINYADGEKRY------IIAPKNLKVG 53
Query: 86 QFVYCGRKATLVVGNVLPLRSIPEGAVVCNVEHHVGDRGVFARCSGDYAVVISHNPDNDT 145
+ G A + +GN LPL +IP G +V N+E G G R +G A V+ +
Sbjct: 54 MEIMSGPDADIKIGNALPLENIPVGTLVHNIELKPGRGGQLVRAAGTSAQVLGK--EGKY 111
Query: 146 TRIKLPSGAKKIVPSGCRAMIGQV 169
++L SG +++ CRA +G+V
Sbjct: 112 VIVRLASGEVRMILGKCRATVGEV 135
>2ftc_B Mitochondrial ribosomal protein L2; mitochondrial ribosome, large
ribosomal subunit, ribosomal R ribosome; 12.10A {Bos
taurus} PDB: 3iy9_B
Length = 136
Score = 71.8 bits (177), Expect = 4e-16
Identities = 36/140 (25%), Positives = 54/140 (38%), Gaps = 16/140 (11%)
Query: 51 DPGRGAPLARVTFRHPFRYQHQKELFVAAEGMYTGQFVYCGRK-----ATLVVGNVLPLR 105
DP R A +A V R+ +A E M G + G+ PL
Sbjct: 7 DPCRSADIALVAGGSRKRW------IIATENMQAGDTILNSNHIGRMAVAAREGDAHPLG 60
Query: 106 SIPEGAVVCNVEHHVGDRGVFARCSGDYAVVISHNPDNDTTRIKLPSGAKKIVPSGCRAM 165
++P G ++ NVE G + R +G V++ N T I+LPS + V C A
Sbjct: 61 ALPVGTLINNVESEPGRGAQYIRAAGTCGVLLRK--VNGTAIIQLPSKRQMQVLETCVAT 118
Query: 166 IGQVAGGGRTEKPLLKAGNA 185
+G+V + G A
Sbjct: 119 VGRV---SNVDHNKRVIGKA 135
>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 = 0.013
Identities = 46/357 (12%), Positives = 89/357 (24%), Gaps = 128/357 (35%)
Query: 16 FKSHTHHRKGPARFRSL------DFGERNGYLKGVITEIIH------DPGRGAPL----- 58
+ S +F + +F E YL+G +I H L
Sbjct: 67 YVSSLVEPSKVGQFDQVLNLCLTEF-ENC-YLEG--NDI-HALAAKLLQENDTTLVKTKE 121
Query: 59 -------ARVTFRHPFRYQHQKELFVAAE----GMYT---GQ------F--------VYC 90
AR+ + PF + LF A + GQ F Y
Sbjct: 122 LIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYH 181
Query: 91 GRKATLVVGNVLPLRSIPEGAVVCNVEHHVG--------------DRGVFARC--S---- 130
L+ + L + + G D+ S
Sbjct: 182 VLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLI 241
Query: 131 -----GDYAV---VISHNPDNDTTRIKLPSG-AKKIVPSGCRAMIGQVAGGGRTEKPLLK 181
Y V ++ P + +K +G ++ +V + A + +
Sbjct: 242 GVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAE-------TDSWESFFV 294
Query: 182 AGNAYHKF------RVKRNCWPKVRGVAMNP------VEHPHG---------GGNHQHI- 219
+ R +P ++ P +E+ G + +
Sbjct: 295 SVRKAITVLFFIGVRCYE-AYPN---TSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQ 350
Query: 220 GHASTVRRDAPPGQKV--GLIAARR----TG----------RLRGQAAATAAKADKA 260
+ + P G++V L+ + +G LR A + +
Sbjct: 351 DYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRI 407
Score = 30.0 bits (67), Expect = 0.93
Identities = 33/153 (21%), Positives = 55/153 (35%), Gaps = 28/153 (18%)
Query: 73 KELFVAAEGMYTGQFVYCGRKATLVVGNVLPLRSIPEGAVVCNVEHHVGDRGVFARCSG- 131
+ FV+ T F + G + P S+P + ++E++ G S
Sbjct: 290 ESFFVSVRKAITVLF-FIGVRCYEAY----PNTSLPPSILEDSLENNEGVPSPMLSISNL 344
Query: 132 DYAVVISH----N---PDNDTTRIKLPSGAKKIVPSGC-RAMIGQVAGGGRTEKPLLKAG 183
V + N P I L +GAK +V SG +++ G K KA
Sbjct: 345 TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNL---TLRK--AKAP 399
Query: 184 NAYHKFRV---KRNCWPKVRGVAM-NPVEHP-H 211
+ + R+ +R K++ PV P H
Sbjct: 400 SGLDQSRIPFSER----KLKFSNRFLPVASPFH 428
>3iu4_H CHP3 FAB heavy chain; antibody, ganglioside, idiotype, immune
system; 1.75A {Mus musculus} PDB: 1ibg_H* 3iy6_B
Length = 263
Score = 28.3 bits (64), Expect = 2.0
Identities = 14/64 (21%), Positives = 23/64 (35%), Gaps = 5/64 (7%)
Query: 102 LPLRSIPEGAVVCNVEHHVG----DRGVFAR-CSGDYAVVISHNPDNDTTRIKLPSGAKK 156
+P S+ +CNV H D+ V A + D +R+ PS ++
Sbjct: 193 VPSSSLGTQTYICNVNHKPSNTKVDKKVEPAQGGRVSAGSQAQRSCLDASRLCSPSPGQQ 252
Query: 157 IVPS 160
P
Sbjct: 253 GRPR 256
>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 = 27.9 bits (61), Expect = 3.7
Identities = 5/45 (11%), Positives = 11/45 (24%), Gaps = 14/45 (31%)
Query: 123 RGVFARCSGDYAVVISHNPDNDTTRIKLPSGAKKIVPSGCRAMIG 167
+ + + + P LP P ++I
Sbjct: 304 KSLLLKY-------LDCRPQ------DLPREVLTTNPRRL-SIIA 334
>4aee_A Alpha amylase, catalytic region; hydrolase, hyperthermostable,
cyclodextrin hydrolase, GH13; 2.28A {Staphylothermus
marinus}
Length = 696
Score = 27.8 bits (62), Expect = 4.0
Identities = 4/34 (11%), Positives = 9/34 (26%)
Query: 125 VFARCSGDYAVVISHNPDNDTTRIKLPSGAKKIV 158
R + ++ N + + L K
Sbjct: 630 FIKRWINNEEIIFLLNVSSKDISVDLKKLGKYSF 663
>2wc7_A Alpha amylase, catalytic region; CD/PUL-hydrolyzing enzymes,
hydrolase, glycosidase, neopullu; 2.37A {Nostoc
punctiforme} PDB: 2wcs_A 2wkg_A
Length = 488
Score = 26.9 bits (60), Expect = 7.8
Identities = 9/57 (15%), Positives = 18/57 (31%)
Query: 125 VFARCSGDYAVVISHNPDNDTTRIKLPSGAKKIVPSGCRAMIGQVAGGGRTEKPLLK 181
+FAR G ++I+ N + + + P+ + G L
Sbjct: 417 LFARTLGTEELIIAINAGTSSATANVDVASLHTQPNKLLYGTAEAEWNGEEGTQQLS 473
>1wzl_A Alpha-amylase II; pullulan, GH-13, alpha-amylase family, hydrolase;
2.00A {Thermoactinomyces vulgaris} SCOP: b.1.18.2
b.71.1.1 c.1.8.1 PDB: 1ji2_A 1bvz_A 1vfk_A* 3a6o_A*
1wzm_A 1jf6_A 1wzk_A 2d2o_A* 1jib_A* 1jl8_A* 1vb9_A*
1g1y_A* 1vfo_A* 1vfm_A* 1vfu_A* 1jf5_A
Length = 585
Score = 27.0 bits (60), Expect = 8.8
Identities = 6/32 (18%), Positives = 9/32 (28%)
Query: 125 VFARCSGDYAVVISHNPDNDTTRIKLPSGAKK 156
F R D V + N + + L
Sbjct: 518 AFVRTVQDQHVGVVLNNRGEKQTVLLQVPESG 549
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
0.322 0.138 0.429
Gapped
Lambda K H
0.267 0.0653 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,313,871
Number of extensions: 274366
Number of successful extensions: 607
Number of sequences better than 10.0: 1
Number of HSP's gapped: 585
Number of HSP's successfully gapped: 32
Length of query: 260
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 168
Effective length of database: 4,133,061
Effective search space: 694354248
Effective search space used: 694354248
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: 56 (25.5 bits)