RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780608|ref|YP_003065021.1| ribosomal large subunit pseudouridine synthase C [Candidatus Liberibacter asiaticus str. psy62] (346 letters) >1v9f_A Ribosomal large subunit pseudouridine synthase D; RNA binding, lyase; 1.70A {Escherichia coli} SCOP: d.265.1.3 PDB: 2ist_A 1qyu_A 1prz_A Length = 325 Score = 133 bits (336), Expect = 4e-32 Identities = 76/333 (22%), Positives = 135/333 (40%), Gaps = 35/333 (10%) Query: 10 VVVENDEENMRLDRWFKNHYPHINFVNLQKILRSGQVRVDKKRV-KFNNRIQSGQVVRIP 68 V ++ RLD+ +P + +++ + +V V+ K K ++ G+ V I Sbjct: 8 ATVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQVAIN 67 Query: 69 PVINALNHIIKEQKILDSSVNLTKHSDFLKSILLYEDSKIYVFNKPAGISVQGGSGIAYH 128 I + LD +YED I + NKP + V G+G Sbjct: 68 AEIEEEARFEPQDIPLDI---------------VYEDEDIIIINKPRDLVVHPGAGNPDG 112 Query: 129 IDGFLKSWVDS---KGQKPRLTHRLDQETSGILVVARTRAAAQHLTESFRMRRIQKIYWS 185 + + HRLD++T+G++VVA+T A L ES + R I + Y + Sbjct: 113 TVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEA 172 Query: 186 LVWGIPKNKKECIANWLLKKSHIGGDYVHVVKQNEKGANYAISHFKVIDCFAQKFCWLEM 245 + G + VH A++H+++++ F + L + Sbjct: 173 VAIGHMTAGGTVDEPISRHPTKRTHMAVH------PMGKPAVTHYRIMEHF-RVHTRLRL 225 Query: 246 QPHTGRTHQLRVHALHMGCPIVGDHKYCANFKGNFTSPIQ--------NKLYLHARYMDL 297 + TGRTHQ+RVH H+ P+VGD Y + + ++ LHA + L Sbjct: 226 RLETGRTHQIRVHMAHITHPLVGDPVYGGRPRPPKGASEAFISTLRKFDRQALHATMLRL 285 Query: 298 PHPEGG-RLQITAPLPAHMVKTWDSLGFKYDRN 329 HP G ++ AP+P MV+ + + ++ + Sbjct: 286 YHPISGIEMEWHAPIPQDMVELIEVMRADFEEH 318 >1v9k_A Ribosomal large subunit pseudouridine synthase C; pseudouridine syntase, RNA binding, lyase; 2.00A {Escherichia coli} SCOP: d.265.1.3 PDB: 1xpi_A Length = 228 Score = 123 bits (308), Expect = 7e-29 Identities = 74/225 (32%), Positives = 119/225 (52%), Gaps = 9/225 (4%) Query: 102 LYEDSKIYVFNKPAGISVQGGSGIAYHIDGFLKSWVDSKGQKPRLTHRLDQETSGILVVA 161 +YED I V NKP+G +V GGSG+++ + L++ + + L HRLD++TSG+L+VA Sbjct: 5 MYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRP-EARFLELVHRLDRDTSGVLLVA 63 Query: 162 RTRAAAQHLTESFRMRRIQKIYWSLVWGIPKNKKECIANWLLKKSHIGGDYVHVVKQNEK 221 + R+A + L E R + +QK Y +LV G ++ + + LLK G+ + V Q K Sbjct: 64 KKRSALRSLHEQLREKGMQKDYLALVRGQWQSHVKSVQAPLLKNILQSGERIVRVSQEGK 123 Query: 222 GANYAISHFKVIDCFAQKFCWLEMQPHTGRTHQLRVHALHMGCPIVGDHKYCANF---KG 278 + + FKV + +A + P TGRTHQ+RVH + G PI D +Y + Sbjct: 124 ---PSETRFKVEERYAF-ATLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRYGDREFDRQL 179 Query: 279 NFTSPIQNKLYLHARYMDLPHPEGG-RLQITAPLPAHMVKTWDSL 322 N+L+LHA + HP G ++I AP+ + + + Sbjct: 180 TEAGTGLNRLFLHAAALKFTHPGTGEVMRIEAPMDEGLKRCLQKM 224 >2i82_A Ribosomal large subunit pseudouridine synthase A; lyase/RNA complex; HET: FOU; 2.05A {Escherichia coli} Length = 217 Score = 93.6 bits (231), Expect = 6e-20 Identities = 63/212 (29%), Positives = 98/212 (46%), Gaps = 11/212 (5%) Query: 102 LYEDSKIYVFNKPAGISVQGGSGIAYHIDGFLKSWVDSKGQKPRLTHRLDQETSGILVVA 161 LY+D I V NKP+G+ G + + + + + HRLD TSG++VVA Sbjct: 15 LYQDDHIMVVNKPSGLLSVPGRLEEHKDS--VMTRIQRDYPQAESVHRLDMATSGVIVVA 72 Query: 162 RTRAAAQHLTESFRMRRIQKIYWSLVWGIPKNKKECIANWLLKKSHIGGDYVHVVKQNEK 221 T+AA + L FR R +K Y + VWG P + + L+ + + Sbjct: 73 LTKAAERELKRQFREREPKKQYVARVWGHPSPAEGLVDLPLICDWPNRPKQKVCYETGKP 132 Query: 222 GANYAISHFKVIDCFAQKFCWLEMQPHTGRTHQLRVHALHMGCPIVGDHKYCANFKGNFT 281 A + ++V++ A + ++P TGR+HQLRVH L +G PI+GD Y Sbjct: 133 ----AQTEYEVVEYAADNTARVVLKPITGRSHQLRVHMLALGHPILGDRFY----ASPEA 184 Query: 282 SPIQNKLYLHARYMDLPHPEGG-RLQITAPLP 312 + +L LHA + + HP G + AP Sbjct: 185 RAMAPRLLLHAEMLTITHPAYGNSMTFKAPAD 216 >2k6p_A Uncharacterized protein HP_1423; alpha-L motif, RNA-binding, unknown function; NMR {Helicobacter pylori} Length = 92 Score = 59.1 bits (143), Expect = 2e-09 Identities = 15/99 (15%), Positives = 36/99 (36%), Gaps = 14/99 (14%) Query: 19 MRLDRWFKNHYPHINFVNLQKILRSGQVRVDKKRVKFNNRIQSGQVVRIPPVINALNHII 78 MR+D++ ++ V + G V ++ K + +++G + + I Sbjct: 1 MRIDKFLQSVGLVKRRVLATDMCNVGAVWLNGSCAKASKEVKAGDTISLH-----YLKGI 55 Query: 79 KEQKILDSSVNLTKHSDFLKSILLYEDSKIYVFNKPAGI 117 +E IL + +D+ +Y+ K + Sbjct: 56 EEYTILQIPALKN---------VPRKDTHLYIAPKTKEL 85 >2oml_A Ribosomal large subunit pseudouridine synthase E; bifurcated beta sheet, thrombin-cleaved, isomerase; 1.20A {Escherichia coli} Length = 189 Score = 58.7 bits (141), Expect = 2e-09 Identities = 34/169 (20%), Positives = 66/169 (39%), Gaps = 8/169 (4%) Query: 104 EDSKIYVFNKPAGISVQGGSGIAYHIDGFLKSWVDSKGQKPRLTHRLDQETSGILVVART 163 + +++ +FNKP + Q LK ++ +G RLD+++ G+LV+ Sbjct: 9 QPTRVILFNKPYDVLPQFTDE---AGRKTLKEFIPVQGVYA--AGRLDRDSEGLLVLTNN 63 Query: 164 RAAAQHLTESFRMRRIQKIYWSLVWGIPKNKKECIANWLLKKSHIGGDYVHVVKQNEKGA 223 A + +R KIY+ V GIP + + +E Sbjct: 64 GALQAR--LTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAW 121 Query: 224 NYAISHFKVIDCFAQKFCWLEMQPHTGRTHQLRVHALHMGCPIVGDHKY 272 + + + + + WL++ + GR Q+R H+G P + +Y Sbjct: 122 LWPRNP-PIRERKSIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIRY 169 >2olw_A Ribosomal large subunit pseudouridine synthase E; bifurcated beta sheet, isomerase; 1.60A {Escherichia coli} Length = 217 Score = 58.6 bits (141), Expect = 2e-09 Identities = 36/202 (17%), Positives = 73/202 (36%), Gaps = 16/202 (7%) Query: 75 NHIIKEQKILDSSVNLTKHSDFLKSILLYEDSKIYVFNKPAGISVQGGSGIAYHIDGFLK 134 + +++ + V + + +++ +FNKP + Q D + Sbjct: 8 ENTMQKTSFRNHQVKRFSSQRSTRRKPENQPTRVILFNKPYDVLPQ-------FTDEAGR 60 Query: 135 SWVDSKGQKPRL--THRLDQETSGILVVARTRAAAQHLTESFRMRRIQKIYWSLVWGIPK 192 + + RLD+++ G+LV+ A LT +R KIY+ V GIP Sbjct: 61 KTLKEFIPVQGVYAAGRLDRDSEGLLVLTNNGALQARLT--QPGKRTGKIYYVQVEGIPT 118 Query: 193 NKKECIANWLLKKSHIGGDY--VHVVKQNEKGANYAISHFKVIDCFAQKFCWLEMQPHTG 250 L + + ++ A + + + + WL++ + G Sbjct: 119 QDALE---ALRNGVTLNDGPTLPAGAELVDEPAWLWPRNPPIRERKSIPTSWLKITLYEG 175 Query: 251 RTHQLRVHALHMGCPIVGDHKY 272 R Q+R H+G P + +Y Sbjct: 176 RNRQVRRMTAHVGFPTLRLIRY 197 >1ksk_A Ribosomal small subunit pseudouridine synthase A; RSUA, lyase; 2.00A {Escherichia coli} SCOP: d.265.1.3 d.66.1.5 PDB: 1ksl_A 1ksv_A* Length = 234 Score = 57.5 bits (138), Expect = 4e-09 Identities = 35/254 (13%), Positives = 71/254 (27%), Gaps = 51/254 (20%) Query: 17 ENMRLDRWFKNHYPHINFVNLQKILRSGQVRVDKKRVKFNNRIQSGQVVRIPPVINALNH 76 +MRLD++ ++ + +R +V VD G++VR H Sbjct: 2 SHMRLDKFIAQQL-GVSRAIAGREIRGNRVTVD------------GEIVRNAAFKLLPEH 48 Query: 77 IIKEQKILDSSVNLTKHSDFLKSILLYEDSKIYVFNKPAGISVQGGSGIAYHIDGFLKSW 136 + + + ++ NKP G + F Sbjct: 49 DVAYDGNP---------------LAQQHGPRYFMLNKPQGYVCSTDDPDHPTVLYF---L 90 Query: 137 VDSKGQKPRLTHRLDQETSGILVVARTRAAAQHLTESFRMRRIQKIYWSLVWGIPKNKKE 196 + K RLD +T+G++++ + +T +K Y + + Sbjct: 91 DEPVAWKLHAAGRLDIDTTGLVLMTDDGQWSHRIT--SPRHHCEKTYLVTLESPVADDTA 148 Query: 197 CIANWLLKKSHIGGDYVHVVKQNEKGANYAISHFKVIDCFAQKFCWLEMQPHTGRTHQLR 256 K + + K + + GR HQ++ Sbjct: 149 E---QFAKGVQLHNEK---------------DLTKPAVLEVITPTQVRLTISEGRYHQVK 190 Query: 257 VHALHMGCPIVGDH 270 +G +V H Sbjct: 191 RMFAAVGNHVVELH 204 >2gml_A Ribosomal large subunit pseudouridine synthase F; RLUF, ribosome, RNA modifying enzyme, isomerase; 2.60A {Escherichia coli} Length = 237 Score = 42.4 bits (99), Expect = 2e-04 Identities = 23/165 (13%), Positives = 45/165 (27%), Gaps = 31/165 (18%) Query: 105 DSKIYVFNKPAGISVQGGSGIAYHIDGFLKSWVDSKGQKPRLT--HRLDQETSGILVVAR 162 D + NKP GI DG + VD R+ RLD+++ G++ + Sbjct: 13 DLVLIALNKPVGIVST-------TEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTN 65 Query: 163 TRAAAQHLTESFRMRRIQKIYWSLVWGIPKNKKECIANWLLKKSHIGGDYVHVVKQNEKG 222 + + + + + + + I + G Sbjct: 66 HGDLVNKILRAGNDHEKEYL--------------VTVDKPITEEFI--------RGMSAG 103 Query: 223 ANYAISHFKVIDCFAQKFCWLEMQPHTGRTHQLRVHALHMGCPIV 267 + K + + G Q+R H G + Sbjct: 104 VPILGTVTKKCKVKKEAPFVFRITLVQGLNRQIRRMCEHFGYEVK 148 >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 38.0 bits (88), Expect = 0.003 Identities = 27/185 (14%), Positives = 54/185 (29%), Gaps = 79/185 (42%) Query: 81 QKILDSSVNLTKHSDFLKSILLYEDSKIYV--FNKPAGISVQGGSGIA-YHIDGFLK--- 134 Q ++ N H L ++ + N + V G + Y ++ L+ Sbjct: 350 QDYVNK-TN--SH--------LPAGKQVEISLVNGAKNLVV-SGPPQSLYGLNLTLRKAK 397 Query: 135 --SWVD------SKGQKPRLTHR------------LDQETSGILVVARTRAAAQHLT--- 171 S +D S+ +K + ++R L + I +++ Sbjct: 398 APSGLDQSRIPFSE-RKLKFSNRFLPVASPFHSHLLVPASDLIN----KDLVKNNVSFNA 452 Query: 172 ESFR-----------MRRIQ-KIYWSLVWGIPKNKKECIA----NWL----LKKSHI--- 208 + + +R + I +V +CI W K +HI Sbjct: 453 KDIQIPVYDTFDGSDLRVLSGSISERIV--------DCIIRLPVKWETTTQFKATHILDF 504 Query: 209 --GGD 211 GG Sbjct: 505 GPGGA 509 Score = 35.7 bits (82), Expect = 0.014 Identities = 48/363 (13%), Positives = 85/363 (23%), Gaps = 173/363 (47%) Query: 6 YVQYVVVENDEENMRLDRWFKNHYPHINFVNLQKILRSGQVRVDKKRVKFNNRIQSGQ-- 63 ++ YV + + + L L F N G Sbjct: 64 FLGYVSSLVEPSK-------VGQFDQV----LNLCLTE-----------FENCYLEGNDI 101 Query: 64 ---VVRIPP----VINALNHIIKE----QKILDSSVNLTKHSDFLKSILLY----EDSKI 108 ++ + +IK + + K S+ S L ++++ Sbjct: 102 HALAAKLLQENDTTLVKTKELIKNYITARIMAKR--PFDKKSN---SALFRAVGEGNAQL 156 Query: 109 Y-VFNKPAGISVQGGSGIA----------YHI-DGFLKSWVDSKGQKPRLTHRLDQETSG 156 +F GG G Y + + L+ L + T Sbjct: 157 VAIF---------GGQGNTDDYFEELRDLYQTYHVLVGDLIKFSA--ETLS-ELIRTTL- 203 Query: 157 ILVVARTRAAAQHLTESFRMRRIQKIYWSLVWGIPKNKKECIANWLLKKSHI-GGDYVHV 215 +K++ + I WL S+ DY+ Sbjct: 204 ---------------------DAEKVF---------TQGLNILEWLENPSNTPDKDYL-- 231 Query: 216 VKQNEKGANYAIS----------HFKVIDCFAQKFCW-LEMQPHTGRTHQLRVHALHMGC 264 + IS H+ V L P G +LR + Sbjct: 232 -------LSIPISCPLIGVIQLAHYVVT-------AKLLGFTP--G---ELRSY------ 266 Query: 265 PIVGDHKYCANFKGNFTSPIQNKLYLHARYMDLPHPEGGRLQITAPLPAHMVKTWDSLGF 324 KG + H +G L +TA A +W+S F Sbjct: 267 -----------LKG--ATG---------------HSQG--L-VTAVAIA-ETDSWES--F 292 Query: 325 KYD 327 + Sbjct: 293 -FV 294 >3dh3_A Ribosomal large subunit pseudouridine synthase F; protein-RNA complex, S4 domain, alpha/beta protein, isomerase, RNA-binding, rRNA processing; HET: FHU; 3.00A {Escherichia coli} Length = 290 Score = 35.9 bits (82), Expect = 0.015 Identities = 24/252 (9%), Positives = 64/252 (25%), Gaps = 54/252 (21%) Query: 16 EENMRLDRWFKNHYPHINFVNLQKILRSGQVRVDKKRVKFNNRIQSGQVVRIPPVINALN 75 + ++RL+++ + + + G V ++ KR ++++ G VV++ Sbjct: 4 DSSVRLNKYISES-GICSRREADRYIEQGNVFLNGKRATIGDQVKPGDVVKV-------- 54 Query: 76 HIIKEQKILDSSVNLTKHSDFLKSILLYEDSKIYVFNKPAGISVQGGSGIAYHIDGFLKS 135 + + + + V + Sbjct: 55 -------------------NGQLIEPREAEDLVLIALNKPVGIVSTTEDGERDNIVDFVN 95 Query: 136 WVDSKGQKPRLTHRLDQETSGILVVARTRAAAQHLTESFRMRRIQKIYWSLVWGIPKNKK 195 ++ RLD+++ G++ + + +K Y V + Sbjct: 96 H----SKRVFPIGRLDKDSQGLIFLTNHGDLVNKIL--RAGNDHEKEYLVTVDKPITEEF 149 Query: 196 ECIANWLLKKSHIGGDYVHVVKQNEKGANYAISHFKVIDCFAQKFCWLEMQPHTGRTHQL 255 ++ G + K + + G Q+ Sbjct: 150 --------------------IRGMSAGVPILGTVTKKCKVKKEAPFVFRITLVQGLNRQI 189 Query: 256 RVHALHMGCPIV 267 R H G + Sbjct: 190 RRMCEHFGYEVK 201 >1dm9_A Hypothetical 15.5 KD protein in MRCA-PCKA intergenic region; heat shock proteins, protein-RNA interactions, ribosome, structural genomics; 2.00A {Escherichia coli} SCOP: d.66.1.3 PDB: 3bbu_A Length = 133 Score = 32.7 bits (74), Expect = 0.13 Identities = 9/55 (16%), Positives = 24/55 (43%) Query: 13 ENDEENMRLDRWFKNHYPHINFVNLQKILRSGQVRVDKKRVKFNNRIQSGQVVRI 67 E +RLD+W + ++++ G+V + +R K + ++ + + Sbjct: 3 EKPAVEVRLDKWLWAARFYKTRALAREMIEGGKVHYNGQRSKPSKIVELNATLTL 57 >2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 1688 Score = 31.3 bits (70), Expect = 0.35 Identities = 31/127 (24%), Positives = 46/127 (36%), Gaps = 37/127 (29%) Query: 125 IAYHIDGFLKS-----WVDSKGQKPRLTHRLDQETSGILVVARTRAAAQHLTESFRMRRI 179 I+YH +G LK WVDSK ++P V A++ T I Sbjct: 861 ISYH-NGNLKGRPYTGWVDSKTKEP---------------VDDKDVKAKYETSILEHSGI 904 Query: 180 QKIYWSLVWGIPKNKKECIANWLLKK---------------SHIGGDYVHVVKQNEKGAN 224 + I L G KKE I ++++ H GD V + + E G Sbjct: 905 RLIEPELFNGYNPEKKEMIQEVIVEEDLEPFEASKETAEQFKHQHGDKVDIFEIPETG-E 963 Query: 225 YAISHFK 231 Y++ K Sbjct: 964 YSVKLLK 970 Score = 27.9 bits (61), Expect = 3.7 Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 19/90 (21%) Query: 7 VQYVVVENDEENMRLDR----WFKNHYPHINFVNLQKILRSGQVRVD---------KKRV 53 +Q V+VE D E + FK+ H + V++ +I +G+ V K + Sbjct: 923 IQEVIVEEDLEPFEASKETAEQFKHQ--HGDKVDIFEIPETGEYSVKLLKGATLYIPKAL 980 Query: 54 KFNNRIQSGQVVRIPPVINALNHIIKEQKI 83 +F +R+ +GQ IP NA + I + I Sbjct: 981 RF-DRLVAGQ---IPTGWNAKTYGISDDII 1006 >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 = 30.0 bits (66), Expect = 0.91 Identities = 12/46 (26%), Positives = 20/46 (43%), Gaps = 22/46 (47%) Query: 79 KEQ--KILDSSVNLTKHSDFLKSILLY-EDSKIYVFNKPAGISVQG 121 ++Q K L +S LK LY +DS PA ++++ Sbjct: 18 EKQALKKLQAS---------LK---LYADDS------APA-LAIKA 44 >2jdg_A Gamma crystallin B; artificial binding protein, structural protein, eye lens protein, affilin, oxidation, polymorphism, phosphorylation; 2.0A {Homo sapiens} Length = 183 Score = 28.8 bits (64), Expect = 2.0 Identities = 10/38 (26%), Positives = 16/38 (42%) Query: 29 YPHINFVNLQKILRSGQVRVDKKRVKFNNRIQSGQVVR 66 Y N+ Q +LR G+ R N ++ S + V Sbjct: 135 YEMPNYRGRQYLLRPGEYRRFLDWGAPNAKVGSLRRVM 172 >1w36_B RECB, exodeoxyribonuclease V beta chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 c.52.1.24 PDB: 3k70_B* Length = 1180 Score = 28.2 bits (61), Expect = 3.1 Identities = 21/193 (10%), Positives = 54/193 (27%), Gaps = 20/193 (10%) Query: 125 IAYHIDGFLKSWVDSKGQKPRLTHRLDQETSGILVVARTRAAAQHLTESFRMRRIQKIYW 184 A I +L++ + S I V+ R+R A + ++ + I +Y Sbjct: 522 CAAQIRDWLQAGQRGEALLMNGDDARPVRASDISVLVRSRQEAAQVRDALTLLEIPSVYL 581 Query: 185 SLVWGI------------------PKNKKECIANWLLKKSHIGGDYVHVVKQNEKGANYA 226 S + P+ + + + + + +E + Sbjct: 582 SNRDSVFETLEAQEMLWLLQAVMTPERENTLRSALATSMMGLNALDIETLNNDEHAWDVV 641 Query: 227 ISHFKVIDCFAQKFCWLEMQPHTGRTHQL--RVHALHMGCPIVGDHKYCANFKGNFTSPI 284 + F +K + M + + A G + D + + + + Sbjct: 642 VEEFDGYRQIWRKRGVMPMLRALMSARNIAENLLATAGGERRLTDILHISELLQEAGTQL 701 Query: 285 QNKLYLHARYMDL 297 +++ L Sbjct: 702 ESEHALVRWLSQH 714 >1ytq_A Beta crystallin B2; domain swapping, greek KEY, structural protein; 1.70A {Homo sapiens} SCOP: b.11.1.1 b.11.1.1 PDB: 1blb_A 2bb2_A 1e7n_A Length = 204 Score = 27.3 bits (60), Expect = 5.2 Identities = 8/38 (21%), Positives = 17/38 (44%) Query: 29 YPHINFVNLQKILRSGQVRVDKKRVKFNNRIQSGQVVR 66 Y + + LQ +L G + + ++QS + +R Sbjct: 153 YQYPGYRGLQYLLEKGDYKDSSDFGAPHPQVQSVRRIR 190 >1q5q_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4 Length = 235 Score = 27.1 bits (59), Expect = 6.3 Identities = 18/116 (15%), Positives = 32/116 (27%), Gaps = 12/116 (10%) Query: 156 GILVVARTRAAAQHLTESFRMRRIQKIYWSLVWGIPKNKKECIANWLLKKSHIGGDYVHV 215 G+L+ RA +L S + ++ GI I L + Sbjct: 11 GVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVEL-----EH 65 Query: 216 VKQNEKGANYAISHFKVIDCFAQKFCWLEMQPHTGRTHQLRVHALHMGCPIVGDHK 271 ++ E + + MQ L V L +G + D + Sbjct: 66 YEKIEGVPLTFDGKANRLASMVRGNLGAAMQG-------LAVVPLLVGYDLDADDE 114 >1vio_A Ribosomal small subunit pseudouridine synthase A; structural genomics, lyase; 1.59A {Haemophilus influenzae} SCOP: d.265.1.3 d.66.1.5 Length = 243 Score = 26.9 bits (58), Expect = 6.6 Identities = 9/42 (21%), Positives = 15/42 (35%) Query: 229 HFKVIDCFAQKFCWLEMQPHTGRTHQLRVHALHMGCPIVGDH 270 K + + GR HQ++ +G +VG H Sbjct: 162 PTKPAKLEILDDYNVNLTISEGRYHQVKRMFAALGNKVVGLH 203 >1oki_A Beta crystallin B1; cataract, eye lens protein; 1.4A {Homo sapiens} SCOP: b.11.1.1 b.11.1.1 Length = 210 Score = 26.8 bits (59), Expect = 7.5 Identities = 9/38 (23%), Positives = 17/38 (44%) Query: 29 YPHINFVNLQKILRSGQVRVDKKRVKFNNRIQSGQVVR 66 Y + + Q +L G R + F ++QS + +R Sbjct: 154 YQYPGYRGYQYLLEPGDFRHWNEWGAFQPQMQSLRRLR 191 >1l1y_A Cellobiohydrolase; alpha/alpha barrel; HET: BGC; 2.40A {Clostridium thermocellum} SCOP: a.102.1.2 PDB: 1l2a_A* Length = 678 Score = 26.7 bits (59), Expect = 7.9 Identities = 11/36 (30%), Positives = 20/36 (55%), Gaps = 1/36 (2%) Query: 177 RRIQKIYWSLVWGIPKNKKECIANWLLKKSHIGGDY 212 R IQ +YW+ W + K +A+ + K + + GD+ Sbjct: 259 RAIQAVYWANKWAKEQGKGSAVASVVSKAAKM-GDF 293 >3hvz_A Uncharacterized protein; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.20A {Clostridium leptum dsm 753} Length = 78 Score = 26.5 bits (59), Expect = 8.6 Identities = 4/22 (18%), Positives = 15/22 (68%) Query: 46 VRVDKKRVKFNNRIQSGQVVRI 67 +VD + V + ++++G+++ + Sbjct: 44 AKVDGRIVPIDYKVKTGEIIDV 65 >1t06_A Hypothetical protein; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG, unknown function; 1.90A {Bacillus cereus} SCOP: a.118.1.17 Length = 235 Score = 26.4 bits (58), Expect = 9.5 Identities = 9/47 (19%), Positives = 19/47 (40%), Gaps = 7/47 (14%) Query: 8 QYVVVENDEENMRLDRWFKNHYPHINFVNLQKILRSGQVRVDKKRVK 54 + +VE +N + + +QK L G++ +K V+ Sbjct: 195 EVGIVEVKRDNKKSSLLNASES-------IQKELDRGRLGFKRKYVR 234 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.323 0.138 0.430 Gapped Lambda K H 0.267 0.0497 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 3,105,989 Number of extensions: 143688 Number of successful extensions: 489 Number of sequences better than 10.0: 1 Number of HSP's gapped: 473 Number of HSP's successfully gapped: 36 Length of query: 346 Length of database: 5,693,230 Length adjustment: 93 Effective length of query: 253 Effective length of database: 3,438,538 Effective search space: 869950114 Effective search space used: 869950114 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 57 (26.3 bits)