RPS-BLAST 2.2.22 [Sep-27-2009]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= gi|254780874|ref|YP_003065287.1| peptide chain release factor 1
[Candidatus Liberibacter asiaticus str. psy62]
(357 letters)
>d1gqea_ e.38.1.1 (A:) Polypeptide chain release factor 2 (RF2)
{Escherichia coli [TaxId: 562]}
Length = 362
Score = 256 bits (656), Expect = 1e-69
Identities = 112/345 (32%), Positives = 181/345 (52%), Gaps = 19/345 (5%)
Query: 11 DLKNRFAEIELRMSESPSV----DAYIKLTEEYAAISPIISKISIYDQKKQEEQDLHTVI 66
K R E+ + + P V + L +E +++ ++ + Q ++ L +
Sbjct: 26 AKKERLEEVNAELEQ-PDVWNEPERAQALGKERSSLEAVVDTLDQMKQGLEDVSGLLELA 84
Query: 67 GDHNSDSEIRDLA-QIEVLAIEKEIRELENEINYLLLPKDTDDDKSCILEIRAGTGGSEA 125
+ + + + +++ L + E + D C L+I+AG+GG+EA
Sbjct: 85 VEADDEETFNEAVAELDALEEKLAQLEFR------RMFSGEYDSADCYLDIQAGSGGTEA 138
Query: 126 ALFVGDLFRMYERYAALRKWKVEVLSSSDNDDGGYKEIVATISGRGVFSRMKFESGVHRV 185
+ L RMY R+A R +K E++ S+ + G K + ISG + ++ E+GVHR+
Sbjct: 139 QDWASMLERMYLRWAESRGFKTEIIEESEGEVAGIKSVTIKISGDYAYGWLRTETGVHRL 198
Query: 186 QRVPATEASGRVHTSAATVAVLPEAAE-IDVDIPLEDIRIDTMRASGSGGQHVNTTDSAV 244
R ++ GR HTS ++ V PE + ID++I D+RID RASG+GGQHVN T+SAV
Sbjct: 199 VRKSPFDSGGRRHTSFSSAFVYPEVDDDIDIEINPADLRIDVYRASGAGGQHVNRTESAV 258
Query: 245 RITHIPTGIMVTSS-EKSQHQNRLRAMKVLRARLYDVERKRMANERSA--NRKLQIGSGD 301
RITHIPTGI+ ++SQH+N+ +AMK ++A+LY+VE ++ E+ A + K IG G
Sbjct: 259 RITHIPTGIVTQCQNDRSQHKNKDQAMKQMKAKLYEVEMQKKNAEKQAMEDNKSDIGWG- 317
Query: 302 RSERIRTYNFSQGRITDHRINLTLYKLEYVLQGYIDDIINPLLTA 346
+IR+Y RI D R + + VL G +D I L A
Sbjct: 318 --SQIRSYVLDDSRIKDLRTGVETRNTQAVLDGSLDQFIEASLKA 360
>d2b3tb1 e.38.1.1 (B:7-354) Peptide chain release factor 1, RF1
{Escherichia coli [TaxId: 562]}
Length = 344
Score = 240 bits (613), Expect = 1e-64
Identities = 158/345 (45%), Positives = 232/345 (67%), Gaps = 11/345 (3%)
Query: 12 LKNRFAEIELRMSESPSV----DAYIKLTEEYAAISPIISKISIYDQKKQEEQDLHTVIG 67
L R E++ + + + + L+ EYA +S + + + Q +++ + ++
Sbjct: 2 LHERHEEVQALLGD-AQTIADQERFRALSREYAQLSDVSRCFTDWQQVQEDIETAQMML- 59
Query: 68 DHNSDSEIRDLAQIEVLAIEKEIRELENEINYLLLPKDTDDDKSCILEIRAGTGGSEAAL 127
D E+R++AQ E+ +++ +LE ++ LLLPKD DD+++ LE+RAGTGG EAAL
Sbjct: 60 ---DDPEMREMAQDELREAKEKSEQLEQQLQVLLLPKDPDDERNAFLEVRAGTGGDEAAL 116
Query: 128 FVGDLFRMYERYAALRKWKVEVLSSSDNDDGGYKEIVATISGRGVFSRMKFESGVHRVQR 187
F GDLFRMY RYA R+W+VE++S+S+ + GGYKEI+A ISG GV+ R+KFESG HRVQR
Sbjct: 117 FAGDLFRMYSRYAEARRWRVEIMSASEGEHGGYKEIIAKISGDGVYGRLKFESGGHRVQR 176
Query: 188 VPATEASG-RVHTSAATVAVLPEAAEIDVDIPLEDIRIDTMRASGSGGQHVNTTDSAVRI 246
VPATE+ G ++ + D+ D+RIDT R+SG+GGQHVNTTDSA+RI
Sbjct: 177 VPATESQGRIHTSACTVAVMPELPDAELPDVNPADLRIDTFRSSGAGGQHVNTTDSAIRI 236
Query: 247 THIPTGIMV-TSSEKSQHQNRLRAMKVLRARLYDVERKRMANERSANRKLQIGSGDRSER 305
TH+PTGI+V E+SQH+N+ +A+ VL AR++ E + ++ R+ +GSGDRS+R
Sbjct: 237 THLPTGIVVECQDERSQHKNKAKALSVLGARIHAAEMAKRQQAEASTRRNLLGSGDRSDR 296
Query: 306 IRTYNFSQGRITDHRINLTLYKLEYVLQGYIDDIINPLLTAHQAK 350
RTYNF QGR+TDHRINLTLY+L+ V++G +D +I P++ HQA
Sbjct: 297 NRTYNFPQGRVTDHRINLTLYRLDEVMEGKLDMLIEPIIQEHQAD 341
>d1rq0a_ e.38.1.1 (A:) Peptide chain release factor 1, RF1
{Thermotoga maritima [TaxId: 2336]}
Length = 333
Score = 227 bits (579), Expect = 1e-60
Identities = 152/344 (44%), Positives = 219/344 (63%), Gaps = 18/344 (5%)
Query: 12 LKNRFAEIELRMSESPSV--DAYIKLTEEYAAISPIISKISIYDQKKQEEQDLHTVIGDH 69
+K + EIE ++ P + + EYA I I + I ++ K+ ++ + + +
Sbjct: 1 MKEKKKEIEKLLA-RPDLTPEQMKNYGMEYAKIEEIEN---ITNRIKETQEFIELLREEG 56
Query: 70 NSDSEIRDLAQIEVLAIEKEIRELENEINYLLLPKDTDDDKSCILEIRAGTGGSEAALFV 129
++ EI EKE+ +L E+ + I+EIR GTGG EAALF
Sbjct: 57 ENELEIEKY--------EKELDQLYQELL---FLLSPEASDKAIVEIRPGTGGEEAALFA 105
Query: 130 GDLFRMYERYAALRKWKVEVLSSSDNDDGGYKEIVATISGRGVFSRMKFESGVHRVQRVP 189
DLFRMY RYA + W +EV + D GG +E+V + G+ + +K+ESGVHRVQRVP
Sbjct: 106 RDLFRMYTRYAERKGWNLEVAEIHETDLGGIREVVFFVKGKNAYGILKYESGVHRVQRVP 165
Query: 190 ATEASGRVHTSAATVAVLPEAAEIDVDIPLEDIRIDTMRASGSGGQHVNTTDSAVRITHI 249
TE+ GR+HTS ATVAVLPE E D++I ED++I+T RASG GGQ+VN T+SAVRITH+
Sbjct: 166 VTESGGRIHTSTATVAVLPEIEEKDIEIRPEDLKIETFRASGHGGQYVNKTESAVRITHL 225
Query: 250 PTGIMVTSS-EKSQHQNRLRAMKVLRARLYDVERKRMANERSANRKLQIGSGDRSERIRT 308
PTGI+V+ E+SQ+QN+ A+++LRARLY +++++ E S RK QIG+G+RSE+IRT
Sbjct: 226 PTGIVVSCQNERSQYQNKQTALRILRARLYQLQKEQKEREISQKRKSQIGTGERSEKIRT 285
Query: 309 YNFSQGRITDHRINLTLYKLEYVLQGYIDDIINPLLTAHQAKMI 352
YNF Q R+TDHRIN T Y+L+ +L G +D+II+ L+ +
Sbjct: 286 YNFPQNRVTDHRINYTSYRLQEILDGDLDEIISKLIEHDIENNL 329
>d1j26a_ d.50.4.1 (A:) Ict1 protein {Mouse (Mus musculus) [TaxId:
10090]}
Length = 112
Score = 73.5 bits (180), Expect = 2e-14
Identities = 20/101 (19%), Positives = 37/101 (36%), Gaps = 26/101 (25%)
Query: 208 PEAAEIDVDIPLEDIRIDTMRASGSGGQHVNTTDSAVRITHI------------------ 249
A + IPL+ + I R+SG GGQ+VN +S +
Sbjct: 8 EHAKQASSYIPLDRLSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALT 67
Query: 250 -------PTGIMVTS-SEKSQHQNRLRAMKVLRARLYDVER 282
+++TS S + Q +N ++ +R + +
Sbjct: 68 HKNKINKAGELVLTSESSRYQFRNLAECLQKIRDMIAEASG 108
>d1ab4a_ e.11.1.1 (A:) DNA Gyrase A {Escherichia coli [TaxId: 562]}
Length = 493
Score = 29.9 bits (67), Expect = 0.32
Identities = 12/105 (11%), Positives = 36/105 (34%), Gaps = 10/105 (9%)
Query: 7 KQICDLKNRFAEIELRMSESPSVDAYIKLTEEYAAISPIISKISIYDQKKQEEQDLHTVI 66
+ ++ I + + + A + + ++ ++ + + + + V
Sbjct: 356 VALANIDPIIELIRHAPTPAEAKTALVANPWQLGNVAAMLERAGDDAARPEWLEPEFGVR 415
Query: 67 GDHNSDSE----------IRDLAQIEVLAIEKEIRELENEINYLL 101
+E ++ L +E + E +EL ++I LL
Sbjct: 416 DGLYYLTEQQAQAILDLRLQKLTGLEHEKLLDEYKELLDQIAELL 460
>d1bjta_ e.11.1.1 (A:) DNA topoisomerase II, C-terminal fragment
(residues 410-1202) {Baker's yeast (Saccharomyces
cerevisiae) [TaxId: 4932]}
Length = 760
Score = 29.8 bits (66), Expect = 0.38
Identities = 16/89 (17%), Positives = 33/89 (37%), Gaps = 2/89 (2%)
Query: 15 RFAEIELRMSESPSVDAYIKLTEEYAAISPIISKISIYDQKKQEEQDLHTVIGDHNS--D 72
RF + SP+ + ++ + A S + S ++ + + G +
Sbjct: 641 RFNKEGKPYYGSPNDEIAEQINDVKGATSDEEDEESSHEDTENVINGPEELYGTYEYLLG 700
Query: 73 SEIRDLAQIEVLAIEKEIRELENEINYLL 101
I L + + K+ +E E E+ LL
Sbjct: 701 MRIWSLTKERYQKLLKQKQEKETELENLL 729
>d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus
thermophilus, strain hb27 [TaxId: 274]}
Length = 110
Score = 28.7 bits (64), Expect = 0.66
Identities = 15/101 (14%), Positives = 35/101 (34%), Gaps = 11/101 (10%)
Query: 7 KQICDLKNRFAEIELRMSESPSVDAYIKLTEEYAAISPIISKISIYDQKKQEEQDLHTVI 66
K++ F + ++A + L E + + + E + +
Sbjct: 5 KRLRQEPEVFHRAIREKGVALDLEALLALDREVQEL------KKRLQEVQTERNQVAKRV 58
Query: 67 GDHNSDSEIRDLAQIEVL-----AIEKEIRELENEINYLLL 102
+ + +A+ + L +E+ +RE E + LLL
Sbjct: 59 PKAPPEEKEALIARGKALGEEAKRLEEALREKEARLEALLL 99
>d1x75a1 e.11.1.1 (A:363-494) DNA Gyrase A {Escherichia coli [TaxId:
562]}
Length = 132
Score = 27.7 bits (61), Expect = 1.4
Identities = 12/95 (12%), Positives = 27/95 (28%)
Query: 7 KQICDLKNRFAEIELRMSESPSVDAYIKLTEEYAAISPIISKISIYDQKKQEEQDLHTVI 66
+ I ++ + + E + + + L
Sbjct: 33 ELIRHAPTPAEAKTALVANPWQLGNVAAMLERAGDDAARPEWLEPEFGVRDGLYYLTEQQ 92
Query: 67 GDHNSDSEIRDLAQIEVLAIEKEIRELENEINYLL 101
D ++ L +E + E +EL ++I LL
Sbjct: 93 AQAILDLRLQKLTGLEHEKLLDEYKELLDQIAELL 127
>d3bqoa1 a.146.1.1 (A:62-265) TRF1 {Human (Homo sapiens) [TaxId:
9606]}
Length = 204
Score = 27.4 bits (61), Expect = 1.7
Identities = 14/58 (24%), Positives = 27/58 (46%), Gaps = 9/58 (15%)
Query: 37 EEYAAISPIISKISIYDQKKQEEQDLHTVIGDHNSDSEIRDLAQIEVLAIEKEIRELE 94
E I+P+ S + I+ ++E LH EI++L +I+ +A+ E +
Sbjct: 82 ENDERITPLESALMIWGSIEKEHDKLHE---------EIQNLIKIQAIAVCMENGNFK 130
>d2f8la1 c.66.1.45 (A:2-329) Hypothetical protein Lmo1582 {Listeria
monocytogenes [TaxId: 1639]}
Length = 328
Score = 25.7 bits (55), Expect = 6.9
Identities = 19/125 (15%), Positives = 44/125 (35%), Gaps = 9/125 (7%)
Query: 7 KQICDLKNRFAEIELRMSESPSVDAYIKLTEEYAAISPIISKISIYDQKKQEEQDLHTVI 66
+++ + + A I E ++A + E + + +++ + + ++
Sbjct: 6 QELFQVLDNTAIILQNELEISYLEAVYETGENLFQKEVLQKEELSSEKQLKLQASYESIE 65
Query: 67 GDHNSDSEIRDLAQIEVLAIEKEI---------RELENEINYLLLPKDTDDDKSCILEIR 117
++ S+ EIR Q+ +L K + + YLL IL+
Sbjct: 66 LENFSNEEIRKGLQLALLKGMKHGIQVNHQMTPDSIGFIVAYLLEKVIQKKKNVSILDPA 125
Query: 118 AGTGG 122
GT
Sbjct: 126 CGTAN 130
>d1n81a_ a.185.1.1 (A:) Gametocyte protein Pfg27 {Malaria parasite
(Plasmodium falciparum) [TaxId: 5833]}
Length = 186
Score = 25.3 bits (55), Expect = 7.7
Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 2/72 (2%)
Query: 37 EEYAAISPIISKISIYDQKKQEEQDLHTVIGDHNSDSEIRDLAQIEVLAIEKEIRELENE 96
E +A +SP I K+ D + D ++ + D E + A + ++I + +R+ +N
Sbjct: 6 ETHAPLSPRIRKVG--DIEFHACSDYIYLLMTLSKDPEKFNYALKDRVSIRRYVRKNQNR 63
Query: 97 INYLLLPKDTDD 108
NY L+ + D
Sbjct: 64 YNYFLIEERVQD 75
>d2a4aa1 c.1.10.1 (A:3-258) Fructose-1,6-bisphosphate aldolase
{Plasmodium yoelii yoelii [TaxId: 73239]}
Length = 256
Score = 25.5 bits (55), Expect = 7.9
Identities = 8/58 (13%), Positives = 20/58 (34%), Gaps = 1/58 (1%)
Query: 62 LHTVIGDHNSDSEIRDLAQIEVLAIEKEIRELENEINY-LLLPKDTDDDKSCILEIRA 118
+ VI + + A++ E++ INY ++ + K ++
Sbjct: 71 IACVINFPYGTDSMEKVLNDTEKALDDGADEIDLVINYKKIIENTDEGLKEATKLTQS 128
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.316 0.132 0.362
Gapped
Lambda K H
0.267 0.0646 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,286,210
Number of extensions: 60224
Number of successful extensions: 211
Number of sequences better than 10.0: 1
Number of HSP's gapped: 199
Number of HSP's successfully gapped: 17
Length of query: 357
Length of database: 2,407,596
Length adjustment: 86
Effective length of query: 271
Effective length of database: 1,226,816
Effective search space: 332467136
Effective search space used: 332467136
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: 53 (24.4 bits)