BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy6275
(391 letters)
Database: pdbaa
65,211 sequences; 15,674,573 total letters
Searching..................................................done
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 461 bits (1186), Expect = e-130, Method: Compositional matrix adjust.
Identities = 220/361 (60%), Positives = 274/361 (75%), Gaps = 9/361 (2%)
Query: 30 HEVALPPDLEYQPLAQSKE-KPAREYPFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVV 88
H+VALPP+ +Y P+A+ K AR YPF LDPFQ AI CI+ +SVLVSAHTSAGKTVV
Sbjct: 58 HQVALPPNYDYTPIAEHKRVNEARTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKTVV 117
Query: 89 AEYAIASSLKQSQRVIYTTPIKALSNQKYREFEEQFKDVGLITGDVTINPSSSCLIMTTE 148
AEYAIA SLK QRVIYT+PIKALSNQKYRE +F DVGL+TGD+TINP + CL+MTTE
Sbjct: 118 AEYAIAQSLKNKQRVIYTSPIKALSNQKYRELLAEFGDVGLMTGDITINPDAGCLVMTTE 177
Query: 149 ILRNMLYRGSEITREVGWVIFDEIHYMRDKERGYVWEETLILLSDNVRFVFLSATIPNAS 208
ILR+MLYRGSE+ REV WVIFDE+HYMRDKERG VWEET+ILL D VR+VFLSATIPNA
Sbjct: 178 ILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAM 237
Query: 209 QFAQWVSHLHHQPCHVVYTDYRPTPLQHYLFPNGGDGIHLIVDD-NKFKEHNYQVAMNVL 267
+FA+W+ +H QPCH+VYT++RPTPLQHYLFP GDGI+L+VD+ + F+E N+Q AM +
Sbjct: 238 EFAEWICKIHSQPCHIVYTNFRPTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASI 297
Query: 268 ANX------XXXXXXXXXXXXXXXXXXXXVQTNCFKIVKMIMERNLAPVIVFSFSKKDCE 321
+N + + +KIVKMI ++ PVIVFSFSK+DCE
Sbjct: 298 SNQIGDDPNSTDSRGKKGQTYKGGSAKGDAKGDIYKIVKMIWKKKYNPVIVFSFSKRDCE 357
Query: 322 IYAMQMAKLNFNETEEVKLVDDVFSNAMDVLSEEDRKLPQIENILPLLRRGIGIHH-GVK 380
A++M+KL+FN +E + + +F+NA+ +L E DR+LPQI++ILPLLRRGIGIHH G+
Sbjct: 358 ELALKMSKLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILPLLRRGIGIHHSGLL 417
Query: 381 P 381
P
Sbjct: 418 P 418
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 460 bits (1184), Expect = e-130, Method: Compositional matrix adjust.
Identities = 220/361 (60%), Positives = 274/361 (75%), Gaps = 9/361 (2%)
Query: 30 HEVALPPDLEYQPLAQSKE-KPAREYPFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVV 88
H+VALPP+ +Y P+A+ K AR YPF LDPFQ AI CI+ +SVLVSAHTSAGKTVV
Sbjct: 156 HQVALPPNYDYTPIAEHKRVNEARTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKTVV 215
Query: 89 AEYAIASSLKQSQRVIYTTPIKALSNQKYREFEEQFKDVGLITGDVTINPSSSCLIMTTE 148
AEYAIA SLK QRVIYT+PIKALSNQKYRE +F DVGL+TGD+TINP + CL+MTTE
Sbjct: 216 AEYAIAQSLKNKQRVIYTSPIKALSNQKYRELLAEFGDVGLMTGDITINPDAGCLVMTTE 275
Query: 149 ILRNMLYRGSEITREVGWVIFDEIHYMRDKERGYVWEETLILLSDNVRFVFLSATIPNAS 208
ILR+MLYRGSE+ REV WVIFDE+HYMRDKERG VWEET+ILL D VR+VFLSATIPNA
Sbjct: 276 ILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAM 335
Query: 209 QFAQWVSHLHHQPCHVVYTDYRPTPLQHYLFPNGGDGIHLIVDD-NKFKEHNYQVAMNVL 267
+FA+W+ +H QPCH+VYT++RPTPLQHYLFP GDGI+L+VD+ + F+E N+Q AM +
Sbjct: 336 EFAEWICKIHSQPCHIVYTNFRPTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASI 395
Query: 268 ANX------XXXXXXXXXXXXXXXXXXXXVQTNCFKIVKMIMERNLAPVIVFSFSKKDCE 321
+N + + +KIVKMI ++ PVIVFSFSK+DCE
Sbjct: 396 SNQIGDDPNSTDSRGKKGQTYKGGSAKGDAKGDIYKIVKMIWKKKYNPVIVFSFSKRDCE 455
Query: 322 IYAMQMAKLNFNETEEVKLVDDVFSNAMDVLSEEDRKLPQIENILPLLRRGIGIHH-GVK 380
A++M+KL+FN +E + + +F+NA+ +L E DR+LPQI++ILPLLRRGIGIHH G+
Sbjct: 456 ELALKMSKLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILPLLRRGIGIHHSGLL 515
Query: 381 P 381
P
Sbjct: 516 P 516
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 241 bits (616), Expect = 4e-64, Method: Compositional matrix adjust.
Identities = 116/220 (52%), Positives = 161/220 (73%), Gaps = 3/220 (1%)
Query: 50 PAREYPFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLKQSQRVIYTTPI 109
PAR +PF LD FQKEA+ +E SV V+AHTSAGKTVVAEYAIA + + + IYT+PI
Sbjct: 32 PARSWPFELDTFQKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAIAMAHRNMTKTIYTSPI 91
Query: 110 KALSNQKYREFEEQFKDV--GLITGDVTINPSSSCLIMTTEILRNMLYRGSEITREVGWV 167
KALSNQK+R+F+E F DV GLITGDV INP ++CLIMTTEILR+MLYRG+++ R+V +V
Sbjct: 92 KALSNQKFRDFKETFDDVNIGLITGDVQINPDANCLIMTTEILRSMLYRGADLIRDVEFV 151
Query: 168 IFDEIHYMRDKERGYVWEETLILLSDNVRFVFLSATIPNASQFAQWVSHLHHQPCHVVYT 227
IFDE+HY+ D++RG VWEE +I+L +V+F+ LSAT+PN +FA W+ + +V+ T
Sbjct: 152 IFDEVHYVNDQDRGVVWEEVIIMLPQHVKFILLSATVPNTYEFANWIGRTKQKNIYVIST 211
Query: 228 DYRPTPLQHYLFPNGGDGIHLIVDDNKFKEHNYQVAMNVL 267
RP PL+ ++ + I +I +++F E N++ +L
Sbjct: 212 PKRPVPLEINIWAK-KELIPVINQNSEFLEANFRKHKEIL 250
Score = 66.2 bits (160), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 34/82 (41%), Positives = 47/82 (57%)
Query: 297 KIVKMIMERNLAPVIVFSFSKKDCEIYAMQMAKLNFNETEEVKLVDDVFSNAMDVLSEED 356
+IV + +R L P++VF FSKK CE YA + +NF +E + ++ L +ED
Sbjct: 326 EIVNYLRKRELLPMVVFVFSKKRCEEYADWLEGINFCNNKEKSQIHMFIEKSITRLKKED 385
Query: 357 RKLPQIENILPLLRRGIGIHHG 378
R LPQI LL RGI +HHG
Sbjct: 386 RDLPQILKTRSLLERGIAVHHG 407
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 93.6 bits (231), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 68/195 (34%), Positives = 109/195 (55%), Gaps = 21/195 (10%)
Query: 58 LDPFQKEAIL--CIENNQSVLVSAHTSAGKTVVAEYAIAS-SLKQSQRVIYTTPIKALSN 114
L+P Q EA+ +E N+ +L+++ T +GKT++AE I S LK + IY TP++AL+N
Sbjct: 31 LNPPQTEAVKKGLLEGNR-LLLTSPTGSGKTLIAEMGIISFLLKNGGKAIYVTPLRALTN 89
Query: 115 QKYREFEE----QFKDVGLITGDVTINPS----SSCLIMTTEILRNMLYRGSEITREVGW 166
+KY F++ FK V + +GD + + +I T E L ++ E EV +
Sbjct: 90 EKYLTFKDWELIGFK-VAMTSGDYDTDDAWLKNYDIIITTYEKLDSLWRHRPEWLNEVNY 148
Query: 167 VIFDEIHYMRDKERGYVWEETLILLSDNVRFVFLSATIPNASQFAQWVSHLHHQPCHVVY 226
+ DE+HY+ D ERG V E++ + + + LSATI N Q A+W L +P V
Sbjct: 149 FVLDELHYLNDPERGPV-VESVTIRAKRRNLLALSATISNYKQIAKW---LGAEP---VA 201
Query: 227 TDYRPTPL-QHYLFP 240
T++RP PL + ++P
Sbjct: 202 TNWRPVPLIEGVIYP 216
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 89.4 bits (220), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 58/192 (30%), Positives = 100/192 (52%), Gaps = 15/192 (7%)
Query: 60 PFQKEAILC-IENNQSVLVSAHTSAGKTVVAEYAIASS-LKQSQRVIYTTPIKALSNQKY 117
P Q EA+ I ++ L+S T++GKT++AE A+ L Q + +Y P+KAL+ +K+
Sbjct: 26 PPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQGGKAVYIVPLKALAEEKF 85
Query: 118 REFEEQFK---DVGLITGDVTIN----PSSSCLIMTTEILRNMLYRGSEITREVGWVIFD 170
+EF++ K V + TGD +I T E ++L GS ++V ++ D
Sbjct: 86 QEFQDWEKIGLRVAMATGDYDSKDEWLGKYDIIIATAEKFDSLLRHGSSWIKDVKILVAD 145
Query: 171 EIHYMRDKERGYVWEETLILLSDNVRFVFLSATIPNASQFAQWVSHLHHQPCHVVYTDYR 230
EIH + ++RG E L + + + LSATI N + A+W++ ++ +D+R
Sbjct: 146 EIHLIGSRDRGATLEVILAHMLGKAQIIGLSATIGNPEELAEWLN------AELIVSDWR 199
Query: 231 PTPLQHYLFPNG 242
P L+ +F G
Sbjct: 200 PVKLRRGVFYQG 211
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 81.6 bits (200), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 52/195 (26%), Positives = 102/195 (52%), Gaps = 16/195 (8%)
Query: 58 LDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLKQSQRVIYTTPIKALSNQKY 117
L P Q EA+ + + +++L++ T+AGKT++AE A+ + + +Y P++AL+ +KY
Sbjct: 26 LFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIKGGKSLYVVPLRALAGEKY 85
Query: 118 REFEEQFK---DVGLITGDVTINPS--SSC--LIMTTEILRNMLYRGSEITREVGWVIFD 170
F++ K +G+ TGD C ++ T+E +++ + + V ++ D
Sbjct: 86 ESFKKWEKIGLRIGISTGDYESRDEHLGDCDIIVTTSEKADSLIRNRASWIKAVSCLVVD 145
Query: 171 EIHYMRDKERGYVWE---ETLILLSDNVRFVFLSATIPNASQFAQWVSHLHHQPCHVVYT 227
EIH + ++RG E + ++ +R + LSAT PN ++ A+W+ ++ +
Sbjct: 146 EIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSATAPNVTEIAEWLDADYY------VS 199
Query: 228 DYRPTPLQHYLFPNG 242
D+RP PL + G
Sbjct: 200 DWRPVPLVEGVLCEG 214
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 67.8 bits (164), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 67/239 (28%), Positives = 114/239 (47%), Gaps = 43/239 (17%)
Query: 35 PPD--LEYQPLAQSKEKPAR-------EYPFVLDPFQKEAILCIEN-NQSVLVSAHTSAG 84
PP L+ QPL S + + ++PF +P Q + + N + +V V A T +G
Sbjct: 896 PPTELLDLQPLPVSALRNSAFESLYQDKFPF-FNPIQTQVFNTVYNSDDNVFVGAPTGSG 954
Query: 85 KTVVAEYAIASSLKQSQ--RVIYTTPIKALSNQKYREFEEQFKD-----VGLITG----D 133
KT+ AE+AI L QS R +Y TP++AL+ Q Y ++ E+F+D V L+TG D
Sbjct: 955 KTICAEFAILRMLLQSSEGRCVYITPMEALAEQVYMDWYEKFQDRLNKKVVLLTGETSTD 1014
Query: 134 VTINPSSSCLIMTTEI--LRNMLYRGSEITREVGWVIFDEIHYMRDKERGYVWE---ETL 188
+ + + +I T E + + ++ + + + + DE+H + E G V E +
Sbjct: 1015 LKLLGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLI-GGENGPVLEVICSRM 1073
Query: 189 ILLSDN----VRFVFLSATIPNASQFAQWVSHLHHQPCHVVYT-----DYRPTPLQHYL 238
+S +R V LS+++ NA A W+ C T + RP PL+ ++
Sbjct: 1074 RYISSQIERPIRIVALSSSLSNAKDVAHWLG------CSATSTFNFHPNVRPVPLELHI 1126
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 46/197 (23%), Positives = 88/197 (44%), Gaps = 29/197 (14%)
Query: 68 CIENNQSVLVSAHTSAGKTVVAEYAIASSLKQ-----------SQRVIYTTPIKALSNQK 116
+E ++++L+ A T AGKT VA + + + ++IY P+++L +
Sbjct: 91 ALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQEM 150
Query: 117 YREFEEQFKDVGLITGDVTIN--------PSSSCLIMTTEILRNMLYRGSE--ITREVGW 166
F ++ G+ ++T + ++ ++ T E + +G E T+ V
Sbjct: 151 VGSFGKRLATYGITVAELTGDHQLCKEEISATQIIVCTPEKWDIITRKGGERTYTQLVRL 210
Query: 167 VIFDEIHYMRDKERGYVWE-------ETLILLSDNVRFVFLSATIPNASQFAQWVSHLHH 219
+I DEIH + D +RG V E + + ++VR + LSAT+PN A ++
Sbjct: 211 IILDEIHLLHD-DRGPVLEALVARAIRNIEMTQEDVRLIGLSATLPNYEDVATFLRVDPA 269
Query: 220 QPCHVVYTDYRPTPLQH 236
+ +RP PL+
Sbjct: 270 KGLFYFDNSFRPVPLEQ 286
>pdb|4KIT|B Chain B, Crystal Structure Of Human Brr2 In Complex With The Prp8
Jab1/mpn Domain
Length = 1739
Score = 67.8 bits (164), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 67/239 (28%), Positives = 114/239 (47%), Gaps = 43/239 (17%)
Query: 35 PPD--LEYQPLAQSKEKPAR-------EYPFVLDPFQKEAILCIEN-NQSVLVSAHTSAG 84
PP L+ QPL S + + ++PF +P Q + + N + +V V A T +G
Sbjct: 907 PPTELLDLQPLPVSALRNSAFESLYQDKFPF-FNPIQTQVFNTVYNSDDNVFVGAPTGSG 965
Query: 85 KTVVAEYAIASSLKQSQ--RVIYTTPIKALSNQKYREFEEQFKD-----VGLITG----D 133
KT+ AE+AI L QS R +Y TP++AL+ Q Y ++ E+F+D V L+TG D
Sbjct: 966 KTICAEFAILRMLLQSSEGRCVYITPMEALAEQVYMDWYEKFQDRLNKKVVLLTGETSTD 1025
Query: 134 VTINPSSSCLIMTTEI--LRNMLYRGSEITREVGWVIFDEIHYMRDKERGYVWE---ETL 188
+ + + +I T E + + ++ + + + + DE+H + E G V E +
Sbjct: 1026 LKLLGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLI-GGENGPVLEVICSRM 1084
Query: 189 ILLSDN----VRFVFLSATIPNASQFAQWVSHLHHQPCHVVYT-----DYRPTPLQHYL 238
+S +R V LS+++ NA A W+ C T + RP PL+ ++
Sbjct: 1085 RYISSQIERPIRIVALSSSLSNAKDVAHWLG------CSATSTFNFHPNVRPVPLELHI 1137
Score = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 46/197 (23%), Positives = 88/197 (44%), Gaps = 29/197 (14%)
Query: 68 CIENNQSVLVSAHTSAGKTVVAEYAIASSLKQ-----------SQRVIYTTPIKALSNQK 116
+E ++++L+ A T AGKT VA + + + ++IY P+++L +
Sbjct: 102 ALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQEM 161
Query: 117 YREFEEQFKDVGLITGDVTIN--------PSSSCLIMTTEILRNMLYRGSE--ITREVGW 166
F ++ G+ ++T + ++ ++ T E + +G E T+ V
Sbjct: 162 VGSFGKRLATYGITVAELTGDHQLCKEEISATQIIVCTPEKWDIITRKGGERTYTQLVRL 221
Query: 167 VIFDEIHYMRDKERGYVWE-------ETLILLSDNVRFVFLSATIPNASQFAQWVSHLHH 219
+I DEIH + D +RG V E + + ++VR + LSAT+PN A ++
Sbjct: 222 IILDEIHLLHD-DRGPVLEALVARAIRNIEMTQEDVRLIGLSATLPNYEDVATFLRVDPA 280
Query: 220 QPCHVVYTDYRPTPLQH 236
+ +RP PL+
Sbjct: 281 KGLFYFDNSFRPVPLEQ 297
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 67.8 bits (164), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 67/239 (28%), Positives = 114/239 (47%), Gaps = 43/239 (17%)
Query: 35 PPD--LEYQPLAQSKEKPAR-------EYPFVLDPFQKEAILCIEN-NQSVLVSAHTSAG 84
PP L+ QPL S + + ++PF +P Q + + N + +V V A T +G
Sbjct: 896 PPTELLDLQPLPVSALRNSAFESLYQDKFPF-FNPIQTQVFNTVYNSDDNVFVGAPTGSG 954
Query: 85 KTVVAEYAIASSLKQSQ--RVIYTTPIKALSNQKYREFEEQFKD-----VGLITG----D 133
KT+ AE+AI L QS R +Y TP++AL+ Q Y ++ E+F+D V L+TG D
Sbjct: 955 KTICAEFAILRMLLQSSEGRCVYITPMEALAEQVYMDWYEKFQDRLNKKVVLLTGETSTD 1014
Query: 134 VTINPSSSCLIMTTEI--LRNMLYRGSEITREVGWVIFDEIHYMRDKERGYVWE---ETL 188
+ + + +I T E + + ++ + + + + DE+H + E G V E +
Sbjct: 1015 LKLLGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLI-GGENGPVLEVICSRM 1073
Query: 189 ILLSDN----VRFVFLSATIPNASQFAQWVSHLHHQPCHVVYT-----DYRPTPLQHYL 238
+S +R V LS+++ NA A W+ C T + RP PL+ ++
Sbjct: 1074 RYISSQIERPIRIVALSSSLSNAKDVAHWLG------CSATSTFNFHPNVRPVPLELHI 1126
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 46/197 (23%), Positives = 88/197 (44%), Gaps = 29/197 (14%)
Query: 68 CIENNQSVLVSAHTSAGKTVVAEYAIASSLKQ-----------SQRVIYTTPIKALSNQK 116
+E ++++L+ A T AGKT VA + + + ++IY P+++L +
Sbjct: 91 ALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQEM 150
Query: 117 YREFEEQFKDVGLITGDVTIN--------PSSSCLIMTTEILRNMLYRGSE--ITREVGW 166
F ++ G+ ++T + ++ ++ T E + +G E T+ V
Sbjct: 151 VGSFGKRLATYGITVAELTGDHQLCKEEISATQIIVCTPEKWDIITRKGGERTYTQLVRL 210
Query: 167 VIFDEIHYMRDKERGYVWE-------ETLILLSDNVRFVFLSATIPNASQFAQWVSHLHH 219
+I DEIH + D +RG V E + + ++VR + LSAT+PN A ++
Sbjct: 211 IILDEIHLLHD-DRGPVLEALVARAIRNIEMTQEDVRLIGLSATLPNYEDVATFLRVDPA 269
Query: 220 QPCHVVYTDYRPTPLQH 236
+ +RP PL+
Sbjct: 270 KGLFYFDNSFRPVPLEQ 286
>pdb|4BGD|A Chain A, Crystal Structure Of Brr2 In Complex With The Jab1/mpn
Domain Of Prp8
Length = 1722
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 52/210 (24%), Positives = 94/210 (44%), Gaps = 34/210 (16%)
Query: 58 LDPFQKEAI-LCIENNQSVLVSAHTSAGKTVVAEYAIASSLKQ------------SQRVI 104
L+P Q + E + ++L+ A T +GKT +A + +L + +++
Sbjct: 58 LNPIQSKVFHAAFEGDSNMLICAPTGSGKTNIALLTVLKALSHHYNPKTKKLNLSAFKIV 117
Query: 105 YTTPIKALSNQKYREFEEQFKDVGL----ITGDVTIN----PSSSCLIMTTEILRNMLYR 156
Y P+KAL ++ REF+ + +G+ +TGD ++ + L+ T E ++ R
Sbjct: 118 YIAPLKALVQEQVREFQRRLAFLGIKVAELTGDSRLSRKQIDETQVLVSTPEKW-DITTR 176
Query: 157 GSE---ITREVGWVIFDEIHYMRDKERGYVWEETLILL-------SDNVRFVFLSATIPN 206
S I V +I DEIH + D +RG V E + + R + LSAT+PN
Sbjct: 177 NSNNLAIVELVRLLIIDEIHLLHD-DRGPVLESIVARTFWASKYGQEYPRIIGLSATLPN 235
Query: 207 ASQFAQWVSHLHHQPCHVVYTDYRPTPLQH 236
+++ + + + +RP PL
Sbjct: 236 YEDVGRFL-RVPKEGLFYFDSSFRPCPLSQ 264
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 42/166 (25%), Positives = 76/166 (45%), Gaps = 22/166 (13%)
Query: 71 NNQSVLVSAHTSAGKTVVAEYAIASSLKQSQ-RVIYTTPIKALSNQKYREFEEQFKDV-- 127
+N SV V + GKT +AE A+ + +Q++ R +Y P + ++ ++F +
Sbjct: 921 SNDSVFVGSGKGTGKTAMAELALLNHWRQNKGRAVYINPSGEKIDFLLSDWNKRFSHLAG 980
Query: 128 GLITGDVTINPS-------SSCLIMTTEILRNML---YRGSEITREVGWVIFDEIHYMRD 177
G I + +PS S +++ T + +L +R + + + +I+D+ H +
Sbjct: 981 GKIINKLGNDPSLNLKLLAKSHVLLATPVQFELLSRRWRQRKNIQSLELMIYDDAHEISQ 1040
Query: 178 KERGYVWEETLI--------LLSDNVRFVFLSATIPNASQFAQWVS 215
G V+E TLI L +RFV LS + NA F +W
Sbjct: 1041 GVYGAVYE-TLISRMIFIATQLEKKIRFVCLSNCLANARDFGEWAG 1085
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 52/181 (28%), Positives = 73/181 (40%), Gaps = 30/181 (16%)
Query: 52 REYPFVLDPFQKEAILCIENNQ------SVLVSAHTSAGKTVVAEYAIASSLKQSQRVIY 105
+ PF L QK A I N+ + L+ +GKTVVA+ AI + + + +
Sbjct: 363 KSLPFKLTNAQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAF 422
Query: 106 TTPIKALSNQKYREFEEQFKD----VGLITGDVTINPSSSCLIMTTEILRN--------- 152
P L+ Q YR E F V L+ G T PS I + LRN
Sbjct: 423 MVPTSILAIQHYRRTVESFSKFNIHVALLIGATT--PSEKEKIKSG--LRNGQIDVVIGT 478
Query: 153 -MLYRGSEITREVGWVIFDEIHYMRDKERGYVWEETLILLSDNVRFVFLSAT-IPNASQF 210
L + + +G VI DE H K+R E L+ V + +SAT IP +
Sbjct: 479 HALIQEDVHFKNLGLVIIDEQHRFGVKQR-----EALMNKGKMVDTLVMSATPIPRSMAL 533
Query: 211 A 211
A
Sbjct: 534 A 534
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 54/208 (25%), Positives = 84/208 (40%), Gaps = 33/208 (15%)
Query: 36 PDLEYQPLAQSKEKPAREYPFVLD-------PFQKEAILCIENNQSVLVSAHTSAGKTVV 88
P +Q L Q + +R +LD P Q +AI + + + +L SA T +GKT+
Sbjct: 23 PIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLA 82
Query: 89 AEYAIASSLKQSQ----RVIYTTPIKALSNQKYREFEEQFKDVGL--------ITGDVTI 136
I LKQ R + +P + L++Q +RE + + G
Sbjct: 83 FSIPILMQLKQPANKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKF 142
Query: 137 NPSSS----CLIMTTEILRNMLYR---GSEITREVGWVIFDEIHYM-RDKERGYVWEETL 188
P SS L+ T L +L + G ++ V W++ DE + D + G+ +
Sbjct: 143 GPKSSKKFDILVTTPNRLIYLLKQDPPGIDLA-SVEWLVVDESDKLFEDGKTGFRDQLAS 201
Query: 189 ILL---SDNVRFVFLSATIPNASQFAQW 213
I L S VR SAT A QW
Sbjct: 202 IFLACTSHKVRRAMFSATF--AYDVEQW 227
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 30/119 (25%), Positives = 53/119 (44%), Gaps = 17/119 (14%)
Query: 78 SAHTSAGKTVVAEYAIASSLKQSQRVIYTTPIKALSNQKYREFEEQFKDVGLITGD--VT 135
S T++GKT Y ++ +Y P+K L+++ + + L+TG+ VT
Sbjct: 161 SGPTNSGKT----YHAIQKYFSAKSGVYCGPLKLLAHEIFEKSNAAGVPCDLVTGEERVT 216
Query: 136 INPS---SSCLIMTTEILRNMLYRGSEITREVGWVIFDEIHYMRDKERGYVWEETLILL 191
+ P+ +S + T E+ +T + DEI +RD RG+ W L+ L
Sbjct: 217 VQPNGKQASHVSCTVEM--------CSVTTPYEVAVIDEIQMIRDPARGWAWTRALLGL 267
>pdb|1OE9|A Chain A, Crystal Structure Of Myosin V Motor With Essential Light
Chain - Nucleotide-Free
pdb|1W7I|A Chain A, Crystal Structure Of Myosin V Motor Without Nucleotide
Soaked In 10 Mm Mgadp
pdb|1W7J|A Chain A, Crystal Structure Of Myosin V Motor With Essential Light
Chain + Adp-Befx - Near Rigor
Length = 795
Score = 36.2 bits (82), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 10/57 (17%)
Query: 70 ENNQSVLVSAHTSAGKTVVAEYAI---------ASSLKQSQRVIYTTPI-KALSNQK 116
E NQS++VS + AGKTV A+YA+ AS ++V+ + PI +++ N K
Sbjct: 154 ERNQSIIVSGESGAGKTVSAKYAMRYFATVSGSASEANVEEKVLASNPIMESIGNAK 210
>pdb|1W8J|A Chain A, Crystal Structure Of Myosin V Motor Domain -
Nucleotide-Free
pdb|1W8J|B Chain B, Crystal Structure Of Myosin V Motor Domain -
Nucleotide-Free
pdb|1W8J|C Chain C, Crystal Structure Of Myosin V Motor Domain -
Nucleotide-Free
pdb|1W8J|D Chain D, Crystal Structure Of Myosin V Motor Domain -
Nucleotide-Free
Length = 766
Score = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 10/57 (17%)
Query: 70 ENNQSVLVSAHTSAGKTVVAEYAI---------ASSLKQSQRVIYTTPI-KALSNQK 116
E NQS++VS + AGKTV A+YA+ AS ++V+ + PI +++ N K
Sbjct: 154 ERNQSIIVSGESGAGKTVSAKYAMRYFATVSGSASEANVEEKVLASNPIMESIGNAK 210
>pdb|3RC3|A Chain A, Human Mitochondrial Helicase Suv3
Length = 677
Score = 35.8 bits (81), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 30/119 (25%), Positives = 52/119 (43%), Gaps = 17/119 (14%)
Query: 78 SAHTSAGKTVVAEYAIASSLKQSQRVIYTTPIKALSNQKYREFEEQFKDVGLITGD--VT 135
S T++GKT Y ++ +Y P+K L+++ + + L+TG+ VT
Sbjct: 161 SGPTNSGKT----YHAIQKYFSAKSGVYCGPLKLLAHEIFEKSNAAGVPCDLVTGEERVT 216
Query: 136 INPS---SSCLIMTTEILRNMLYRGSEITREVGWVIFDEIHYMRDKERGYVWEETLILL 191
+ P+ +S + T E +T + DEI +RD RG+ W L+ L
Sbjct: 217 VQPNGKQASHVSCTVEX--------CSVTTPYEVAVIDEIQXIRDPARGWAWTRALLGL 267
>pdb|2DFS|A Chain A, 3-D Structure Of Myosin-V Inhibited State
pdb|2DFS|M Chain M, 3-D Structure Of Myosin-V Inhibited State
Length = 1080
Score = 35.8 bits (81), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 10/57 (17%)
Query: 70 ENNQSVLVSAHTSAGKTVVAEYAI---------ASSLKQSQRVIYTTPI-KALSNQK 116
E NQS++VS + AGKTV A+YA+ AS ++V+ + PI +++ N K
Sbjct: 154 ERNQSIIVSGESGAGKTVSAKYAMRYFATVSGSASEANVEEKVLASNPIMESIGNAK 210
>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|B Chain B, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|C Chain C, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|D Chain D, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
Length = 434
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 39/173 (22%), Positives = 69/173 (39%), Gaps = 25/173 (14%)
Query: 60 PFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLKQS--------QRVIYTTPIKA 111
P QK +I I + + ++ A T +GKT I S L + +V+ +P +
Sbjct: 81 PIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTRE 140
Query: 112 LSNQKYREFE----EQFKDVGLITGDVTINPSSSCL-------IMTTEILRNMLYRGSEI 160
L+ Q + E E + +G++ G + + C+ I T L + + R
Sbjct: 141 LAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFIT 200
Query: 161 TREVGWVIFDEIHYMRDKERGYVWEETLILLSDNVR----FVFLSATIPNASQ 209
+ +V+ DE M D G+ + I+ +R + SAT P Q
Sbjct: 201 FEDTRFVVLDEADRMLDM--GFSEDMRRIMTHVTMRPEHQTLMFSATFPEEIQ 251
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 42/175 (24%), Positives = 69/175 (39%), Gaps = 22/175 (12%)
Query: 54 YPFVLDPFQKEAI------LCIENNQSVLVSAHTSAGKTVVAEYAIASSLKQSQRVIYTT 107
+PF P Q +AI +C LV GKT VA A ++ ++V
Sbjct: 600 FPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLV 659
Query: 108 PIKALSNQKYREFEEQFKD----VGLITGDVTINPSSSCLIMTTE------ILRNMLYRG 157
P L+ Q Y F ++F + + +I+ + + L E I + L +
Sbjct: 660 PTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGTHKLLQS 719
Query: 158 SEITREVGWVIFDEIHYMRDKERGYVWEETLILLSDNVRFVFLSAT-IPNASQFA 211
+++G +I DE H G +E + + NV + L+AT IP A
Sbjct: 720 DVKFKDLGLLIVDEEHRF-----GVRHKERIKAMRANVDILTLTATPIPRTLNMA 769
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 31.2 bits (69), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 37/136 (27%), Positives = 57/136 (41%), Gaps = 17/136 (12%)
Query: 55 PFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLK---QSQR---VIYTTP 108
PF +Q E L ++ ++ A T GKT V+ LK Q Q+ V +
Sbjct: 10 PFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQ 69
Query: 109 IKALSNQK---YREFEEQFKDVGLITGDVTIN-------PSSSCLIMTTEILRNMLYRGS 158
I QK + FE V I+G N ++ +I+T +IL N L +G+
Sbjct: 70 IPVYEQQKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGT 129
Query: 159 EITREV-GWVIFDEIH 173
+ + +IFDE H
Sbjct: 130 IPSLSIFTLMIFDECH 145
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 31/120 (25%), Positives = 49/120 (40%), Gaps = 19/120 (15%)
Query: 68 CIENNQSVLVSAHTSAGKTVVA----EYAIASSLKQSQRVIYTTPIKALSNQKYREFEEQ 123
C E N L+ T GKT++A EY + K +V+ P K L Q F
Sbjct: 21 CKETN--CLIVLPTGLGKTLIAMMIAEYRLT---KYGGKVLMLAPTKPLVLQHAESFRRL 75
Query: 124 F----KDVGLITGDVTINPSSSC------LIMTTEILRNMLYRGSEITREVGWVIFDEIH 173
F + + +TG+ + S ++ T + + N L G +V ++FDE H
Sbjct: 76 FNLPPEKIVALTGEKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAH 135
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 68/159 (42%), Gaps = 29/159 (18%)
Query: 51 AREYP---FVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLKQSQRVIYTT 107
AR P L P+Q E +++++ T +GKT VA Y L + ++
Sbjct: 24 ARASPEPELQLRPYQMEVAQPALEGKNIIICLPTGSGKTRVAVYIAKDHLDKKKKASEPG 83
Query: 108 PIKALSN----------QKYREFEEQFKDVGLITGDVTINPS-----SSC--LIMTTEIL 150
+ L N ++++ F +++ V ++GD + S SC +I T +IL
Sbjct: 84 KVIVLVNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQIL 143
Query: 151 RNMLYR-------GSEITREVGWVIFDEIHYMRDKERGY 182
N L G +++ + +I DE H+ +KE Y
Sbjct: 144 ENSLLNLENGEDAGVQLS-DFSLIIIDECHHT-NKEAVY 180
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 36/136 (26%), Positives = 56/136 (41%), Gaps = 17/136 (12%)
Query: 55 PFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLK---QSQR---VIYTTP 108
PF +Q E L ++ ++ A T GKT V+ LK Q Q+ V +
Sbjct: 2 PFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQ 61
Query: 109 IKALSNQK---YREFEEQFKDVGLITGDVTIN-------PSSSCLIMTTEILRNMLYRGS 158
I K + FE V I+G N ++ +I+T +IL N L +G+
Sbjct: 62 IPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGT 121
Query: 159 EITREV-GWVIFDEIH 173
+ + +IFDE H
Sbjct: 122 IPSLSIFTLMIFDECH 137
>pdb|4BPB|A Chain A, Structural Insights Into Rna Recognition By Rig-i
Length = 698
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 36/136 (26%), Positives = 56/136 (41%), Gaps = 17/136 (12%)
Query: 55 PFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLK---QSQR---VIYTTP 108
PF +Q E L ++ ++ A T GKT V+ LK Q Q+ V +
Sbjct: 11 PFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQ 70
Query: 109 IKALSNQK---YREFEEQFKDVGLITGDVTIN-------PSSSCLIMTTEILRNMLYRGS 158
I K + FE V I+G N ++ +I+T +IL N L +G+
Sbjct: 71 IPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGT 130
Query: 159 EITREV-GWVIFDEIH 173
+ + +IFDE H
Sbjct: 131 IPSLSIFTLMIFDECH 146
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 29.3 bits (64), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 36/136 (26%), Positives = 56/136 (41%), Gaps = 17/136 (12%)
Query: 55 PFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLK---QSQR---VIYTTP 108
PF +Q E L ++ ++ A T GKT V+ LK Q Q+ V +
Sbjct: 11 PFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQ 70
Query: 109 IKALSNQK---YREFEEQFKDVGLITGDVTIN-------PSSSCLIMTTEILRNMLYRGS 158
I K + FE V I+G N ++ +I+T +IL N L +G+
Sbjct: 71 IPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGT 130
Query: 159 EITREV-GWVIFDEIH 173
+ + +IFDE H
Sbjct: 131 IPSLSIFTLMIFDECH 146
>pdb|3LAD|A Chain A, Refined Crystal Structure Of Lipoamide Dehydrogenase From
Azotobacter Vinelandii At 2.2 Angstroms Resolution. A
Comparison With The Structure Of Glutathione Reductase
pdb|3LAD|B Chain B, Refined Crystal Structure Of Lipoamide Dehydrogenase From
Azotobacter Vinelandii At 2.2 Angstroms Resolution. A
Comparison With The Structure Of Glutathione Reductase
Length = 476
Score = 29.3 bits (64), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 3/65 (4%)
Query: 108 PIKAL--SNQKYREFEEQFKDVGLITGDVTINPSSSCLIMTTEILRNMLYRGSEITREVG 165
P KAL S+ K+ E E FK G+ TG+V I+ + + +I+RN+ + + + G
Sbjct: 55 PSKALLDSSYKFHEAHESFKLHGISTGEVAID-VPTMIARKDQIVRNLTGGVASLIKANG 113
Query: 166 WVIFD 170
+F+
Sbjct: 114 VTLFE 118
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 32/141 (22%), Positives = 60/141 (42%), Gaps = 25/141 (17%)
Query: 58 LDPFQKEAILCIENNQSVLVSAHTSAGKTVVAEYAIASSLKQSQRVIYTTPIKALSN--- 114
L P+Q E +++++ T GKT VA Y L + ++ + L N
Sbjct: 8 LRPYQMEVAQPALEGKNIIICLPTGCGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVL 67
Query: 115 -------QKYREFEEQFKDVGLITGDVTINPS-----SSC--LIMTTEILRNMLYR---- 156
++++ F +++ V ++GD + S SC +I T +IL N L
Sbjct: 68 LVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILENSLLNLENG 127
Query: 157 ---GSEITREVGWVIFDEIHY 174
G +++ + +I DE H+
Sbjct: 128 EDAGVQLS-DFSLIIIDECHH 147
>pdb|2XBG|A Chain A, Crystal Structure Of Ycf48 From Thermosynechococcus
Elongatus
Length = 327
Score = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 5/62 (8%)
Query: 137 NPSSSCLIMTTEILRNMLYRGSEITREVGWVIFDEIHYMRDKERGYVWE-ETLILLSDNV 195
NP + + TT + +M + I R GW++ M ++ G WE TL+L +
Sbjct: 25 NPWEAIQLPTTATILDMSF----IDRHHGWLVGVNATLMETRDGGQTWEPRTLVLDHSDY 80
Query: 196 RF 197
RF
Sbjct: 81 RF 82
>pdb|2Y25|A Chain A, Crystal Structure Of The Myomesin Domains My11-My13
pdb|2Y25|B Chain B, Crystal Structure Of The Myomesin Domains My11-My13
pdb|2Y25|C Chain C, Crystal Structure Of The Myomesin Domains My11-My13
pdb|2Y25|D Chain D, Crystal Structure Of The Myomesin Domains My11-My13
Length = 317
Score = 28.1 bits (61), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 22/44 (50%)
Query: 306 NLAPVIVFSFSKKDCEIYAMQMAKLNFNETEEVKLVDDVFSNAM 349
+ +++ FSKKD IY + + + +KLVD+ F M
Sbjct: 59 GICTLLITEFSKKDAGIYEVILKDDRGKDKSRLKLVDEAFKELM 102
>pdb|1WRB|A Chain A, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
pdb|1WRB|B Chain B, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
Length = 253
Score = 28.1 bits (61), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 26/58 (44%), Gaps = 8/58 (13%)
Query: 31 EVALPPDLEYQPLAQSKEKPAREYPFVLDPFQKEAILCIENNQSVLVSAHTSAGKTVV 88
E+ L P + L S ++P P QK AI I ++ ++ A T +GKT
Sbjct: 27 ELKLDPTIRNNILLASYQRPT--------PIQKNAIPAILEHRDIMACAQTGSGKTAA 76
Database: pdbaa
Posted date: Jul 29, 2013 4:35 PM
Number of letters in database: 15,674,573
Number of sequences in database: 65,211
Lambda K H
0.321 0.136 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,651,256
Number of Sequences: 65211
Number of extensions: 453195
Number of successful extensions: 1152
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 1114
Number of HSP's gapped (non-prelim): 40
length of query: 391
length of database: 15,674,573
effective HSP length: 101
effective length of query: 290
effective length of database: 9,088,262
effective search space: 2635595980
effective search space used: 2635595980
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)