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)