RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11632
(450 letters)
>2nt0_A Glucosylceramidase; cerezyme, glucocerebrosidase, glucosylceramide,
hydrolysis, disease, hydrolase; HET: NAG; 1.79A {Homo
sapiens} SCOP: b.71.1.2 c.1.8.3 PDB: 1y7v_A* 2f61_A*
2j25_A* 2nsx_A* 1ogs_A* 2nt1_A* 3gxd_A* 3gxf_A* 3gxi_A*
3gxm_A* 3rik_A* 3ril_A* 2v3f_A* 2v3e_A* 2v3d_A* 2vt0_A*
2wcg_A* 2xwd_A* 2xwe_A* 2wkl_A* ...
Length = 497
Score = 226 bits (575), Expect = 1e-68
Identities = 140/360 (38%), Positives = 198/360 (55%), Gaps = 17/360 (4%)
Query: 95 GISYAFGRVPIGGCDFSTRAYTYDDIPNDKKLEKFNLTTEDFQYKIPLIQQANRLRGEPL 154
GI Y RVP+ CDFS R YTY D P+D +L F+L ED + KIPLI +A +L P+
Sbjct: 113 GIGYNIIRVPMASCDFSIRTYTYADTPDDFQLHNFSLPEEDTKLKIPLIHRALQLAQRPV 172
Query: 155 RLVGSAWSAPAWMKTNNALTG----RGELKTQYYQTWAQYLIMFLDFYKREQLSFWALTT 210
L+ S W++P W+KTN A+ G +G+ Y+QTWA+Y + FLD Y +L FWA+T
Sbjct: 173 SLLASPWTSPTWLKTNGAVNGKGSLKGQPGDIYHQTWARYFVKFLDAYAEHKLQFWAVTA 232
Query: 211 GNEPINGDLPSFLPFVPKFNSMGWHPKSVATWIANNLGPTLRSSQHNATKILAIDDQRFV 270
NEP G L F +G+ P+ +IA +LGPTL +S H+ ++L +DDQR +
Sbjct: 233 ENEPSAGLLSG-----YPFQCLGFTPEHQRDFIARDLGPTLANSTHHNVRLLMLDDQRLL 287
Query: 271 LPWW-LEQVCNIGLRMFQDKLPIPEKILRKDIPSMNVVERKYLFKLYILVYTAFAGIKGL 329
LP W + + + + + + + E LF +L +
Sbjct: 288 LPHWAKVVLTDPEAAKYVHGIAVHWYLDFLAPAKATLGETHRLFPNTMLFASEACVGSKF 347
Query: 330 FSDKPWDLIKVQLGSWSRAEQYISDIIENLNHGLVAWLEWNLALNTQGGTNWKNNFLDAP 389
+ GSW R QY II NL + +V W +WNLALN +GG NW NF+D+P
Sbjct: 348 WEQSVRL------GSWDRGMQYSHSIITNLLYHVVGWTDWNLALNPEGGPNWVRNFVDSP 401
Query: 390 IIVNAAKDEFYKQPMFYAIGHFSRFIKPGSRVLKA-NSRSRTVEVLATIDKDENHVVVVL 448
IIV+ KD FYKQPMFY +GHFS+FI GS+ + S+ ++ +A + D + VVVVL
Sbjct: 402 IIVDITKDTFYKQPMFYHLGHFSKFIPEGSQRVGLVASQKNDLDAVALMHPDGSAVVVVL 461
Score = 57.3 bits (137), Expect = 5e-09
Identities = 31/112 (27%), Positives = 55/112 (49%), Gaps = 3/112 (2%)
Query: 1 MGWSPFALAKRVGDSLGPTIKTSNLAT-KIFMLDDQKVPLPWFITLMTADNSKVESYIDG 59
+G++P + LGPT+ S ++ MLDDQ++ LP + ++ D + Y+ G
Sbjct: 249 LGFTPEHQRDFIARDLGPTLANSTHHNVRLLMLDDQRLLLPHWAKVVLTD-PEAAKYVHG 307
Query: 60 VGIHWYWDQFIP-VTVVDTVHKKYPRLLLINTEASIGISYAFGRVPIGGCDF 110
+ +HWY D P + H+ +P +L +EA +G + V +G D
Sbjct: 308 IAVHWYLDFLAPAKATLGETHRLFPNTMLFASEACVGSKFWEQSVRLGSWDR 359
>2wnw_A Activated by transcription factor SSRB; hydrolase, salmonella
typhimurium, O-glycosyl hydrolase family 30; 2.00A
{Salmonella enterica subsp}
Length = 447
Score = 202 bits (513), Expect = 4e-60
Identities = 93/361 (25%), Positives = 154/361 (42%), Gaps = 37/361 (10%)
Query: 95 GISYAFGRVPIGGCDFSTRAYTYDDIPNDKKLEKFNLTTEDFQYKIPLIQQANRLRGEPL 154
+Y R+PI CDFS Y Y D D + + + + D + IPLI A R +
Sbjct: 80 EHNYTLARMPIQSCDFSLGNYAYVDSSADLQQGRLSFS-RDEAHLIPLISGALR-LNPHM 137
Query: 155 RLVGSAWSAPAWMKTNNALTGRGELKTQYYQTWAQYLIMFLDFYKREQLSFWALTTGNEP 214
+L+ S WS PA+MKTNN + G G+L+ + Y WA +I +L Y+R ++ AL+ NEP
Sbjct: 138 KLMASPWSPPAFMKTNNDMNGGGKLRRECYADWADIIINYLLEYRRHGINVQALSVQNEP 197
Query: 215 INGDLPSFLPFVPKFNSMGWHPKSVATWIANNLGPTLRSSQHNATKILAIDDQRFVLPWW 274
+ ++S + + + L P L + +I D + L W
Sbjct: 198 VAV---------KTWDSCLYSVEEETAFAVQYLRPRLARQGMDEMEIYIWDHDKDGLVDW 248
Query: 275 LEQVCNIGLRMFQDKLPIPEKILRKDIPSMNVVERKYLFKLYILVYTAFAGIKGLFSDKP 334
E D + + ++ + DK
Sbjct: 249 AELAFA-------------------DEANYKGINGLAFHWYTGDHFSQIQYLAQCLPDKK 289
Query: 335 WDLIKVQLGSWS-------RAEQYISDIIENLNHGLVAWLEWNLALNTQGGTNWKNNFLD 387
+ + S Y+ D+I N G +++WNL LN++GG N + N +
Sbjct: 290 LLFSEGCVPMESDAGSQIRHWHTYLHDMIGNFKSGCSGFIDWNLLLNSEGGPNHQGNLCE 349
Query: 388 APIIVNAAKDEFYKQPMFYAIGHFSRFIKPGSRVLKANSRSRTVEVLATIDKDENHVVVV 447
API +A D + +Y IGHF R+++PG+RV+ ++S +E + ++ D V+VV
Sbjct: 350 APIQYDAQNDVLRRNHSWYGIGHFCRYVRPGARVMLSSSYDNLLEEVGFVNPDGERVLVV 409
Query: 448 L 448
Sbjct: 410 Y 410
Score = 50.3 bits (119), Expect = 7e-07
Identities = 19/102 (18%), Positives = 36/102 (35%), Gaps = 4/102 (3%)
Query: 1 MGWSPFALAKRVGDSLGPTIKTSNL-ATKIFMLDDQKVPLPWFITLMTADNSKVESYIDG 59
+S L P + + +I++ D K L + L AD I+G
Sbjct: 206 CLYSVEEETAFAVQYLRPRLARQGMDEMEIYIWDHDKDGLVDWAELAFAD-EANYKGING 264
Query: 60 VGIHWYWDQFIPVTVVDTVHKKYPRLLLINTEASIGISYAFG 101
+ HWY + + + + P L+ +E + + G
Sbjct: 265 LAFHWYTGD--HFSQIQYLAQCLPDKKLLFSEGCVPMESDAG 304
>3clw_A Conserved exported protein; structural genomics, unknown function,
PSI-2, protein struct initiative; 2.20A {Bacteroides
fragilis}
Length = 507
Score = 154 bits (390), Expect = 5e-42
Identities = 45/393 (11%), Positives = 104/393 (26%), Gaps = 47/393 (11%)
Query: 95 GISYAFGRVPIGGCDFSTRAYTYDDI------PNDKKLEKFNLTTEDFQYKIPLIQQANR 148
G++ RV IG + R D K++ T + Q ++ A
Sbjct: 62 GMALTNWRVNIGAGSYENREAKEVDNSWNRTECFLSPDGKYDFTKQAGQ--QWFMKAARE 119
Query: 149 LRGEPLRLVGSAWSAPAWMKTNNALTGRGE----LKTQYYQTWAQYLIMFLDFYKREQLS 204
+ SAP +M + + + L+ + +A++L+ ++ +
Sbjct: 120 RGMN--NFLFFTNSAPYFMTRSASTVSTDQDCINLQNDKFDDFARFLVKSAQHFREQGFH 177
Query: 205 FWALTTGNEPINGDLPSFLPFVPKFNSMGWHPKSVATWIANNLGPTLRSSQHNATKILAI 264
++ NEP + + L + +Q + ++
Sbjct: 178 VNYISPNNEPNGQ-----WHANSFQEGSFATKADLY-RMVEELDKAISEAQIDTKILIPE 231
Query: 265 DDQRFVLPWWLEQVCNIGLRMFQDKLPIPEKILRKDIPSMNV-------------VERKY 311
L + + + K N +
Sbjct: 232 VGDMKYLFEIDSIAKTPDDIIHSMFYKDGQYSVLKFKNLFNCVAAHDYWSAYPATLLVDI 291
Query: 312 LFKLYILVYTAFAGIKGLFS-------DKPWDLIKVQLGSWSRAEQYISDIIENLNHGLV 364
+++ + K S ++ + S + I +L
Sbjct: 292 RNRIHKELSANGHNTKFWASEYCILEKNEEITMPASPERSINLGLYVARIIHNDLTLANA 351
Query: 365 -AWLEWNLALNTQGGTNWKNNFLDAPIIVNAAKDEFYKQPMFYAIGHFSRFIKPGSRVLK 423
AW W + + + E M + ++S F++PG + +
Sbjct: 352 SAWQWWTAVSLGEDVPIQLLPLEGSNGLSLQYDGEISTTKMLWTTANYSFFVRPGMKRIA 411
Query: 424 ANSRSRTVEV------LATIDKDENHVVVVLFN 450
+ ++ + + D VV V N
Sbjct: 412 IKPTYKISDLEAATSLMISSYTDGKEVVTVAIN 444
Score = 35.8 bits (81), Expect = 0.025
Identities = 17/118 (14%), Positives = 32/118 (27%), Gaps = 24/118 (20%)
Query: 1 MGWSPFALAKRVGDSLGPTIKTSNLATKIFMLDD----------------QKVPLPWFIT 44
+ L + V + L I + + TKI + + + F
Sbjct: 200 SFATKADLYRMVEE-LDKAISEAQIDTKILIPEVGDMKYLFEIDSIAKTPDDIIHSMFYK 258
Query: 45 LMTADNSKVESYIDGVGIHWYWDQFIPVTVVD-------TVHKKYPRLLLINTEASIG 95
K ++ + V H YW + +VD + +E I
Sbjct: 259 DGQYSVLKFKNLFNCVAAHDYWSAYPATLLVDIRNRIHKELSANGHNTKFWASEYCIL 316
>3zr5_A Galactocerebrosidase; hydrolase, GALC, glycosyl hydrolase, krabbe
disease, TIM BAR lectin domain; HET: NAG; 2.10A {Mus
musculus} PDB: 3zr6_A*
Length = 656
Score = 141 bits (356), Expect = 1e-36
Identities = 49/360 (13%), Positives = 97/360 (26%), Gaps = 69/360 (19%)
Query: 95 GISYAFGRVPIGGCDFSTRAYTYDDIPNDKKLEKFNLTTEDFQYKIPLIQQANRLRGEPL 154
G S +V IGG +T + + F Y+ L+++A + R +
Sbjct: 64 GASLHILKVEIGGDGQTTDGTEPSHMHYELDENYFR------GYEWWLMKEAKK-RNPDI 116
Query: 155 RLVGSAWSAPAWMKTNNALTGRGELKTQYYQTWAQYLIMFLDFYKREQ-LSFWALTTGNE 213
L+G WS P W+ + Q A Y++ ++ K L + NE
Sbjct: 117 ILMGLPWSFPGWLGKGFS------WPYVNLQLTAYYVVRWILGAKHYHDLDIDYIGIWNE 170
Query: 214 PINGDLPSFLPFVPKFNSMGWHPKSVATWIANNLGPTLRSSQHNATKILAIDDQRFVLPW 273
+ L L +I+A D+
Sbjct: 171 R--------------PFDANYIK---------ELRKMLDYQGLQRVRIIASDNLWE---- 203
Query: 274 WLEQVCNIGLRMFQDKLPIPEKILRKDIPSMNVVERKYLFKLYILVYTAFAGIKGLFSDK 333
I + D+ K + + + S K
Sbjct: 204 ------PISSSLLLDQ-----------------ELWKVVDVIGAHYPGTYTVWNAKMSGK 240
Query: 334 P-WDL-IKVQLGSWSRAEQYISDIIEN-LNHGLVAWLEWNLALNTQGGTNWKNNFLDAPI 390
W + S A + + +N +N + + + WNL + +
Sbjct: 241 KLWSSEDFSTINSNVGAGCWSRILNQNYINGNMTSTIAWNLVASYYEELPY--GRSGLMT 298
Query: 391 IVNAAKDEFYKQPMFYAIGHFSRFIKPGSRVLKANSRSRTVEVLATIDKDENHVVVVLFN 450
+ + H ++F +PG LK + ++ +++
Sbjct: 299 AQEPWSGHYVVASPIWVSAHTTQFTQPGWYYLKTVGHLEKGGSYVALTDGLGNLTIIIET 358
Score = 34.9 bits (79), Expect = 0.052
Identities = 13/87 (14%), Positives = 27/87 (31%), Gaps = 12/87 (13%)
Query: 16 LGPTIKTSNLA-TKIFMLDDQKVPLPWFITLMTADNSKVESYIDGVGIHWYWDQFIPVTV 74
L + L +I D+ I+ + ++ +D +G H+
Sbjct: 181 LRKMLDYQGLQRVRIIASDNLW----EPISSSLLLDQELWKVVDVIGAHYPGT------- 229
Query: 75 VDTVHKKYPRLLLINTEASIGISYAFG 101
+ K L ++E I+ G
Sbjct: 230 YTVWNAKMSGKKLWSSEDFSTINSNVG 256
>2y24_A Xylanase; hydrolase, GH5 family, aldotetraouronic acid; HET: XYP
GCV PG4 PGE; 1.39A {Erwinia chrysanthemi} PDB: 1nof_A*
Length = 383
Score = 123 bits (308), Expect = 2e-31
Identities = 53/360 (14%), Positives = 121/360 (33%), Gaps = 57/360 (15%)
Query: 94 IGISYAFGRVPIGGCDFSTRAYTYDDIPNDKKLE----KFNLTTEDFQYKIPLIQQANRL 149
G G I Y L + + + + ++P +QA L
Sbjct: 15 QGFGGMSGVGWINDLTTEQINTAYGSGVGQIGLSIMRVRIDPDSSKWNIQLPSARQAVSL 74
Query: 150 RGEPLRLVGSAWSAPAWMKTNNALTGRGELKTQYYQTWAQYLIMFLDFYKREQLSFWALT 209
+++ + WS PA+MK+NN+L G L Y + +L+ F + + +A++
Sbjct: 75 G---AKIMATPWSPPAYMKSNNSLINGGRLLPANYSAYTSHLLDFSKYMQTNGAPLYAIS 131
Query: 210 TGNEPINGDLPSFLPFVPKFNSMGWHPKSVATWIANNLGPTLRSSQHNATKILAIDDQRF 269
NEP + P + S W +++ + S+ + K++ + F
Sbjct: 132 IQNEP---------DWKPDYESCEWSGDEFKSYLKSQG------SKFGSLKVIVAESLGF 176
Query: 270 VLPWWLEQVCNIGLRMFQDKLPIPEKILRKDIPSMNVVERKYLFKLYILVYTAFAGIKGL 329
+ + + I + + + K L
Sbjct: 177 NPALTDPVLKDSDASKYVSI--IGGHLYGTTPKPYPLAQNAG---------------KQL 219
Query: 330 FSDKPWDLIKVQLGSWSRAEQYISDIIENLNHGLVAWLEWNLALNTQGGTNWKNNFLDAP 389
+ + + K +W+ A + +++ ++ A++ W + + T
Sbjct: 220 WMTEHYVDSKQSANNWTSAIEVGTELNASMVSNYSAYVWWYIRRSYGLLTEDGKVS---- 275
Query: 390 IIVNAAKDEFYKQPMFYAIGHFSRFIKPGSRVLKANSRSRT-VEVLATIDKDENHVVVVL 448
Y + ++RF++PG+ ++A ++ V + A + D V+V +
Sbjct: 276 -------------KRGYVMSQYARFVRPGALRIQATENPQSNVHLTAYKNTDGKMVIVAV 322
Score = 33.7 bits (76), Expect = 0.12
Identities = 13/101 (12%), Positives = 26/101 (25%), Gaps = 12/101 (11%)
Query: 1 MGWSPFALAKRVGDSLGPTIKTSNLATKIFMLDDQKVPLPWFITLMTADNSKVESYIDGV 60
WS + + + K+ + + +T +S Y+ +
Sbjct: 145 CEWSGDEFKSYLKS-----QGSKFGSLKVIVAESLG--FNPALTDPVLKDSDASKYVSII 197
Query: 61 GIHWYWDQFIPVTVVDTVHKKYPRLLLINTEASIGISYAFG 101
G H Y T + L TE + +
Sbjct: 198 GGHLYGT-----TPKPYPLAQNAGKQLWMTEHYVDSKQSAN 233
>3kl0_A Glucuronoxylanase XYNC; alpha beta barrel, (beta/alpha)8 barrel
(beta/alpha)8 + beta motif family, hydrolase; HET: TAR
HIS; 1.64A {Bacillus subtilis} PDB: 3gtn_A* 3kl3_A*
3kl5_A*
Length = 401
Score = 117 bits (294), Expect = 2e-29
Identities = 55/359 (15%), Positives = 105/359 (29%), Gaps = 51/359 (14%)
Query: 95 GISYAFGRVPIGGCDFSTRAYTYDDIPNDKKLEKFNLT-TEDFQYKIPLIQQANRLRGEP 153
G G + R + + N + E+ ++ A
Sbjct: 18 GFGGMNHPAWAGDLTAAQRETAFGNGQNQLGFSILRIHVDENRNNWYKEVETAKSAVKHG 77
Query: 154 LRLVGSAWSAPAWMKTN---NALTGRGELKTQYYQTWAQYLIMFLDFYKREQLSFWALTT 210
+ S W+ P+ M N T LK Y +AQ+L F+ F K ++ +A++
Sbjct: 78 AIVFASPWNPPSDMVETFNRNGDTSAKRLKYNKYAAYAQHLNDFVTFMKNNGVNLYAISV 137
Query: 211 GNEPINGDLPSFLPFVPKFNSMGWHPKSVATWIANNLGPTLRSSQHNATKILAIDDQRFV 270
NEP W P+ + ++ N G +++A + +++
Sbjct: 138 QNEPDYA-----------HEWTWWTPQEILRFMRENAGSI-------NARVIAPESFQYL 179
Query: 271 LPWWLEQVCNIGLRMFQDKLPIPEKILRKDIPSMNVVERKYLFKLYILVYTAFAGIKGLF 330
+ D P+ + DI ++ + Y L AG
Sbjct: 180 KNLSDP--------ILND----PQALANMDILGTHLYGTQVSQFPYPLFKQKGAGKDLWM 227
Query: 331 SDK-PWDLIKVQLGSWSRAEQYISDIIENLNHGLVAWLEWNLALNTQGGTNWKNNFLDAP 389
++ + W A I + G W + G
Sbjct: 228 TEVYYPNSDTNSADRWPEALDVSQHIHNAMVEGDFQAYVWWYIRRSYGPMKE-------- 279
Query: 390 IIVNAAKDEFYKQPMFYAIGHFSRFIKPGSRVLKANSRSRTVEVLATIDKDENHVVVVL 448
+ Y + HFS+F++PG + A ++ D V+V +
Sbjct: 280 --------DGTISKRGYNMAHFSKFVRPGYVRIDATKNPNANVYVSAYKGDNKVVIVAI 330
Score = 38.4 bits (88), Expect = 0.004
Identities = 12/95 (12%), Positives = 33/95 (34%), Gaps = 9/95 (9%)
Query: 1 MGWSPFALAKRVGDSLGPTIKTSNLATKIFMLDDQKVPLPWFITLMTADNSKVESYIDGV 60
W+P + + + ++ G + ++ + + ++ ++ + + +D +
Sbjct: 148 TWWTPQEILRFMRENAGS------INARVIAPESFQYLKNLSDPIL--NDPQALANMDIL 199
Query: 61 GIHWYWDQFIPVTVVDTVHKKYPRLLLINTEASIG 95
G H Y Q + +K L TE
Sbjct: 200 GTHLYGTQ-VSQFPYPLFKQKGAGKDLWMTEVYYP 233
>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 = 39.3 bits (91), Expect = 0.003
Identities = 59/412 (14%), Positives = 116/412 (28%), Gaps = 145/412 (35%)
Query: 109 DFS------TRAYTYDDIPNDKKLEKFNLTTEDFQYKIPLIQQANRLRGEPLRLVGSAWS 162
F+ T + DD P E L + Y L++ + G+ +++ +
Sbjct: 36 QFNKILPEPTEGFAADDEPTTP-AE---LVGKFLGYVSSLVEPSKV--GQFDQVLNLCLT 89
Query: 163 A--PAWMKTNN--ALTGRGELKTQYYQTWAQYLIMFLDFYKREQLSFWALTTGNEPINGD 218
+++ N+ AL + + + LI ++ A P +
Sbjct: 90 EFENCYLEGNDIHALAAKLLQENDTTLVKTKELI--KNYIT-------ARIMAKRPFDKK 140
Query: 219 LPSFL---------PFVPKF----NSMGW----------HPKSVATWI---ANNLGPTLR 252
S L V F N+ + + V I A L +R
Sbjct: 141 SNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIR 200
Query: 253 SSQHNATKIL--AIDDQRFVLPWWLEQVCNIGLRMFQDKLPIPEKILRKDIPSMNVVERK 310
++ +A K+ ++ WLE P + P +
Sbjct: 201 TT-LDAEKVFTQGLNILE-----WLEN---------------PS-----NTPDKD----- 229
Query: 311 YLFKLYILVYTAFAGIKGLFSDKPWDLIKVQLGSWSRAEQYISDIIENLNHGLVAWLEWN 370
YL L I + + I G+ +QL + ++ + G
Sbjct: 230 YL--LSIPI--SCPLI-GV----------IQLAHY-----VVTAKLLGFTPG-------E 262
Query: 371 LALNTQGGTNWKNNFLDAPIIVNAAK--DEFYKQP------MFYAIG-----HFSRFIKP 417
L +G T + A + + + F+ +F+ IG + P
Sbjct: 263 LRSYLKGATGHSQGLVTA-VAIAETDSWESFFVSVRKAITVLFF-IGVRCYEAYPNTSLP 320
Query: 418 GSRVLKANSRSRTV-------------EVLATIDK------DENHVVVVLFN 450
S + + + V +V ++K V + L N
Sbjct: 321 PSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN 372
Score = 34.3 bits (78), Expect = 0.095
Identities = 28/165 (16%), Positives = 47/165 (28%), Gaps = 46/165 (27%)
Query: 269 FVLP---WWLEQVCNIGLR-MFQDKLPIPEKILRKDIPSMNVVERKYLFKLYILVYTAF- 323
++P +++ L+ F LP P + D E L + L Y +
Sbjct: 20 LLVPTASFFIASQ----LQEQFNKILPEPTEGFAADDEPTTPAE---LVGKF-LGYVSSL 71
Query: 324 --AGIKGLFSDKPWDLIKVQLGSWSRAEQYIS--DIIENLNHGLVAWLEWNLALNTQGGT 379
G F ++ + L + Y+ DI H L A L
Sbjct: 72 VEPSKVGQFD----QVLNLCLTEFEN--CYLEGNDI-----HALAAKLLQENDTTLVKTK 120
Query: 380 NWKNNFLDAPIIVN-------------AAKDEFYKQPMFYAIGHF 411
N++ A I+ A + + AI F
Sbjct: 121 ELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQ---LVAI--F 160
Score = 30.8 bits (69), Expect = 1.0
Identities = 52/304 (17%), Positives = 90/304 (29%), Gaps = 100/304 (32%)
Query: 1 MGWSPFALAKRVGDSLGPTIKTSNL--ATKIFMLDDQKVPLPWFITLMTADNSKVESYID 58
+G++P L + G T + L A I D W ES+
Sbjct: 256 LGFTPGELRSYLK---GATGHSQGLVTAVAIAETDS------W------------ESFFV 294
Query: 59 GV--GIHW-YW-----DQFIPVTVVDTVHKKYPRLLLINTEASIGI-SYAFGRVPIGGCD 109
V I ++ + P T + P +L + E + G+ S
Sbjct: 295 SVRKAITVLFFIGVRCYEAYPNTSLP------PSILEDSLENNEGVPSPML--------- 339
Query: 110 FSTRAYTYDDIPNDKKLEKFNLTT-EDFQYKIPLIQQANR--LRGEPLRLVGSAWSAPAW 166
S T + + + K N Q +I L+ A + G P L G
Sbjct: 340 -SISNLTQEQV--QDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLN----LT 392
Query: 167 MKTNNALTGRGELKTQYYQTWAQYLIMFLDFYKREQLSFWALTTGNEPINGDLPSFLPF- 225
++ A +G + + + + L F R F LP PF
Sbjct: 393 LRKAKAPSGLDQSRIPFSE-------RKLKFSNR----F-------------LPVASPFH 428
Query: 226 -------VPKF------NSMGWHPKSVATWIANNL-GPTLRSSQHNATKILAIDDQRFVL 271
N++ ++ K + + + G LR + ++ + D L
Sbjct: 429 SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIV--DCIIRL 486
Query: 272 P--W 273
P W
Sbjct: 487 PVKW 490
>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 = 37.9 bits (87), Expect = 0.008
Identities = 45/268 (16%), Positives = 76/268 (28%), Gaps = 56/268 (20%)
Query: 44 TLMTADNSKVESYIDGVGIHWYWDQFIPVTVVDTVHKKYPRLLLINTEASIGISYAFGRV 103
L + KV+ +D I W + + ++ P +L + + Y
Sbjct: 167 ALDVCLSYKVQCKMDF-KIFW-----LNLKNCNS-----PETVLEMLQK---LLYQIDPN 212
Query: 104 PIGGCDFSTRAYTYDDIPNDKKLEKFNLTTEDFQYKIPLIQQANRLRGEPLRLVGSAWSA 163
D S+ + + E L Y+ L+ L V +A
Sbjct: 213 WTSRSDHSSN---IKLRIHSIQAELRRLLKSK-PYENCLLV---------LLNV---QNA 256
Query: 164 PAWMKTNNA----LTGRGELKTQYYQTWAQYLIMFLD----FYKREQLSFWALTTGNEPI 215
AW N + LT R + T + I E S P
Sbjct: 257 KAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP- 315
Query: 216 NGDLP----SFLPFVPKFNSMGWHPKS--VATWIANNLGPTLRSSQHNATKILAIDDQRF 269
DLP + P S+ +ATW +N + + +++
Sbjct: 316 -QDLPREVLTTNPRRL---SIIAESIRDGLATW--DNW-KHVNCDKLTTIIESSLN---- 364
Query: 270 VLPWWLEQVCNIGLRMFQDKLPIPEKIL 297
VL + L +F IP +L
Sbjct: 365 VLEPAEYRKMFDRLSVFPPSAHIPTILL 392
Score = 36.8 bits (84), Expect = 0.017
Identities = 36/260 (13%), Positives = 81/260 (31%), Gaps = 94/260 (36%)
Query: 4 SPFALA----------------KRVG-DSLGPTIKTS--NLATK----------IFMLDD 34
+P L+ K V D L I++S L +F
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFP-PS 384
Query: 35 QKVPLP-----WF-----ITLMTADNSKVESYIDG------VGIH-WYWDQFIPVTVVDT 77
+P WF ++ + S ++ + I Y + + +
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYA 444
Query: 78 VHKKYPRLLLINTEASIGISYAFGRV---------PIGGCDFSTRAYTYDDIPNDKKLEK 128
+H+ +++ Y + + +S + +I + +++
Sbjct: 445 LHRS-----IVD-------HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTL 492
Query: 129 FNLTTEDFQYKIPLIQQANRLRGEPLRLVGSAWSAPAWMKTNNALTGRGELKTQYYQ--- 185
F + DF++ ++Q +R +AW+A + N L +LK +Y+
Sbjct: 493 FRMVFLDFRF----LEQK-------IRHDSTAWNASGSI--LNTLQ---QLK--FYKPYI 534
Query: 186 -----TWAQYLIMFLDFYKR 200
+ + + LDF +
Sbjct: 535 CDNDPKYERLVNAILDFLPK 554
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.4 bits (65), Expect = 1.8
Identities = 16/68 (23%), Positives = 24/68 (35%), Gaps = 15/68 (22%)
Query: 143 IQQANRLRGEP--LRLVGSAWSAPAWMKTNNA-LTGRGELKTQYYQTWAQYLIMFL-DFY 198
I QA+RL EP +R W + L Q W + L ++
Sbjct: 74 IAQADRLTQEPESIR---------KWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWN 124
Query: 199 KR--EQLS 204
+R EQ+
Sbjct: 125 QRQSEQVE 132
>2x8n_A CV0863; non-uniform sampling, multidimensional decomposition,
abacus, fragment monte carlo, structural genomics; NMR
{Chromobacterium violaceum atcc 12472}
Length = 111
Score = 26.9 bits (59), Expect = 7.1
Identities = 4/31 (12%), Positives = 10/31 (32%), Gaps = 3/31 (9%)
Query: 37 VPLPWFITLMTA---DNSKVESYIDGVGIHW 64
A ++E G+G+++
Sbjct: 51 FRPDDLQATYGATPEQLREIEISPSGLGVYF 81
>3fqm_A NS5A, non-structural protein 5A; HCV, domain I, phosphoprotein,
RNA-binding, metal BIND protein; 1.90A {Hepatitis c
virus} PDB: 3fqq_A* 1zh1_A
Length = 177
Score = 27.3 bits (60), Expect = 7.1
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 9/33 (27%)
Query: 42 FITLMTADNSKVE---------SYIDGVGIHWY 65
++T MT DN K + +DGV +H Y
Sbjct: 99 YVTGMTTDNVKCPCQVPAPEFFTEVDGVRLHRY 131
>2iew_A Inositol polyphosphate multikinase; ATP-grAsp fold related,
transferase; 2.00A {Saccharomyces cerevisiae} PDB:
2if8_A*
Length = 363
Score = 27.9 bits (61), Expect = 7.6
Identities = 15/119 (12%), Positives = 33/119 (27%), Gaps = 17/119 (14%)
Query: 195 LDFYKREQLSFWALTTGNEPINGDLPSFLPFVPKFNSMGWHPKSVAT--WIANNLGPTLR 252
L+FYK Q+ + + ++P + + + A
Sbjct: 38 LEFYKAIQVRDVSRRKSSAD---GDAPLCSWMPTYLGVLNEGAKIEQSGDAALLKIDERL 94
Query: 253 SSQHNATKILAIDDQRFVLPWWLEQVCN-----------IGLRMFQDKLPIPEKILRKD 300
S + + + ++ LE + +G ++ K EK R
Sbjct: 95 SDSTDNLDSIPVKSEKSKQYLVLENLLYGFSKPNILDIKLGKTLYDSKAS-LEKRERMK 152
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 0.439
Gapped
Lambda K H
0.267 0.0460 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,107,630
Number of extensions: 422963
Number of successful extensions: 759
Number of sequences better than 10.0: 1
Number of HSP's gapped: 736
Number of HSP's successfully gapped: 29
Length of query: 450
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 353
Effective length of database: 3,993,456
Effective search space: 1409689968
Effective search space used: 1409689968
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: 59 (27.2 bits)