RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9878
(338 letters)
>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol
protease, UBL conjugation pathway, metal-binding,
zinc-finger,structural genomics; 2.80A {Homo sapiens}
Length = 854
Score = 147 bits (372), Expect = 1e-39
Identities = 47/347 (13%), Positives = 105/347 (30%), Gaps = 67/347 (19%)
Query: 11 CPYLDTINRQLLDFDFEKLCSVSLSRINVYACLVCG------KYFQGRGTNTFAYTHSVA 64
L ++ CS R N++ L G +YF G G N A H
Sbjct: 199 AFSLKQLDNPARIPPCGWKCSKCDMRENLWLNLTDGSILCGRRYFDGSGGNNHAVEHYRE 258
Query: 65 ESHHVFLNLHTLK-----FYCLPDNYEIVGTVAGPVVNRLCPYLDTINRQLLDFDFEKLC 119
+ + + L T+ Y ++ ++ P L
Sbjct: 259 TGYPLAVKLGTITPDGADVYSYDEDDMVLD-----------PSLAEHLSH---------- 297
Query: 120 SVSLSRINVYACLVCGKYFQDSSLDDIKYVLNPTFTTDQIKQLDLSDKMSRAIDGTLYLP 179
+ + D ++ +++ +N ++ + S L+ P
Sbjct: 298 ---------FGIDMLKMQKTDKTMTELEIDMNQRIGEWEL------IQESGVPLKPLFGP 342
Query: 180 GIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMR 239
G G+ N+ + Y N ++Q L + + ++ ++ P + Q +L
Sbjct: 343 GYTGIRNLGNSCYLNSVVQVLFSIPDFQRKYVDKLEKIFQNAPTDPTQDFSTQ-VAKLGH 401
Query: 240 KLW------------------NPRNFKSHVSPHEMLQAVVLWSRKQFQFTEQSDPIDFLS 281
L + + ++P M +A++ +F Q D +F
Sbjct: 402 GLLSGEYSKPVPESGDGERVPEQKEVQDGIAPR-MFKALIGKGHPEFSTNRQQDAQEFFL 460
Query: 282 WFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIPPVELEEKVRQ 328
+N + R ++ + + + T K+ + + + Q
Sbjct: 461 HLINMVERNCRSSENPNEVFRFLVEEKIKCLATEKVKYTQRVDYIMQ 507
>2gfo_A Ubiquitin carboxyl-terminal hydrolase 8; protease, thiol protease,
UBL conjugation pathway deubiquitinating enzyme, DUB,
zinc ribbon; 2.00A {Homo sapiens} SCOP: d.3.1.9 PDB:
3n3k_A
Length = 396
Score = 82.2 bits (203), Expect = 9e-18
Identities = 33/121 (27%), Positives = 51/121 (42%), Gaps = 6/121 (4%)
Query: 179 PGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRP-PGDSSFLLVQRFGEL 237
P + GL N+ Y N ILQ LC+ L DYF R + R + + FG +
Sbjct: 60 PALTGLRNLGNTCYMNSILQCLCNAPHLADYFNRNCYQDDINRSNLLGHKGEVAEEFGII 119
Query: 238 MRKLWNPRNFKSHVSPHEMLQAVVLWS-RKQFQFTEQSDPIDFLSWFLNTLHRALNGTKK 296
M+ LW + ++SP + + QF Q D + L + ++ LH LN
Sbjct: 120 MKALWTGQY--RYISPKDFKITI--GKINDQFAGYSQQDSQELLLFLMDGLHEDLNKADN 175
Query: 297 K 297
+
Sbjct: 176 R 176
>3nhe_A Ubiquitin carboxyl-terminal hydrolase 2; cysteine protease,
substrate ENZY complex, hydrolase-protein binding
complex; HET: CME; 1.26A {Homo sapiens} PDB: 2hd5_A
2ibi_A
Length = 348
Score = 81.8 bits (202), Expect = 1e-17
Identities = 34/119 (28%), Positives = 56/119 (47%), Gaps = 3/119 (2%)
Query: 179 PGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELM 238
G+ GL N+ + N ILQ L + LRDY L+ Y R ++ LV+ F +L+
Sbjct: 7 QGLAGLRNLGNTCFMNSILQCLSNTRELRDYCLQR-LYMRDLHHGSNAHTALVEEFAKLI 65
Query: 239 RKLWNPRNFKSHVSPHEMLQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKK 297
+ +W + VSP E + ++ +F Q D +FL + L+ LH +N +
Sbjct: 66 QTIWT-SSPNDVVSPSEFKTQIQRYA-PRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLR 122
>2y6e_A Ubiquitin carboxyl-terminal hydrolase 4; HET: CME; 2.40A {Homo
sapiens}
Length = 367
Score = 79.6 bits (196), Expect = 6e-17
Identities = 40/126 (31%), Positives = 63/126 (50%), Gaps = 6/126 (4%)
Query: 174 GTLYLPGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKR-PPGDSSFLLVQ 232
G PG+ GL N+ + N LQ L + PL DYFL++ A + R P + +
Sbjct: 1 GMHIQPGLCGLGNLGNTCFMNSALQCLSNTAPLTDYFLKDEYEAEINRDNPLGMKGEIAE 60
Query: 233 RFGELMRKLWNPRNFKSHVSPHEMLQAVVLWS-RKQFQFTEQSDPIDFLSWFLNTLHRAL 291
+ EL++++W+ R+ +HV+P V QF +Q D + L++ L+ LH L
Sbjct: 61 AYAELIKQMWSGRD--AHVAPRMFKTQV--GRFAPQFSGYQQQDSQELLAFLLDGLHEDL 116
Query: 292 NGTKKK 297
N KKK
Sbjct: 117 NRVKKK 122
>3i3t_A Ubiquitin carboxyl-terminal hydrolase 21; hydrolase, structural
genomics consortium, SGC, activator, alternative
splicing, chromatin regulator, nucleus, polymorphism,
protease; 2.59A {Homo sapiens} PDB: 2y5b_A 3mtn_A
Length = 355
Score = 78.9 bits (194), Expect = 1e-16
Identities = 37/164 (22%), Positives = 69/164 (42%), Gaps = 10/164 (6%)
Query: 180 GIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMR 239
G VGL N+ + N +LQ L PLRD+ LR R + P G + L + F +++
Sbjct: 2 GHVGLRNLGNTCFLNAVLQCLSSTRPLRDFCLR--RDFRQEVPGGGRAQELTEAFADVIG 59
Query: 240 KLWNPRNFKSHVSPHEMLQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKK-- 297
LW+P + ++ V+P + F Q D +FL + LH +N ++
Sbjct: 60 ALWHPDSCEA-VNPTRFRAVFQKYV-PSFSGYSQQDAQEFLKLLMERLHLEINRRGRRAP 117
Query: 298 ----DSSIVYKTFLGSMKVKTRKIPPVELEEKVRQRLLLTDNSY 337
+ + G ++ ++ + + +R L ++S
Sbjct: 118 PILANGPVPSPPRRGGALLEEPELSDDDRANLMWKRYLEREDSK 161
>3c5k_A HD6, histone deacetylase 6; HDAC6, zinc finger, actin-binding,
chromatin regulator, cytoplasm, hydrolase,
metal-binding, nucleus, phosphoprotein; 1.55A {Homo
sapiens} PDB: 3gv4_A 3phd_A
Length = 109
Score = 73.9 bits (181), Expect = 1e-16
Identities = 16/78 (20%), Positives = 27/78 (34%), Gaps = 1/78 (1%)
Query: 11 CPYLDTINR-QLLDFDFEKLCSVSLSRINVYACLVCGKYFQGRGTNTFAYTHSVAESHHV 69
CP+L + D + C + + CL C + + GR N H H +
Sbjct: 7 CPHLVAVCPIPAAGLDVTQPCGDCGTIQENWVCLSCYQVYCGRYINGHMLQHHGNSGHPL 66
Query: 70 FLNLHTLKFYCLPDNYEI 87
L+ L +C +
Sbjct: 67 VLSYIDLSAWCYYCQAYV 84
Score = 40.8 bits (95), Expect = 7e-05
Identities = 8/44 (18%), Positives = 15/44 (34%), Gaps = 1/44 (2%)
Query: 100 CPYLDTINR-QLLDFDFEKLCSVSLSRINVYACLVCGKYFQDSS 142
CP+L + D + C + + CL C + +
Sbjct: 7 CPHLVAVCPIPAAGLDVTQPCGDCGTIQENWVCLSCYQVYCGRY 50
>2ayn_A Ubiquitin carboxyl-terminal hydrolase 14; deubiquitinating enzymes,
DUB, USP14, proteasome, enzyme mechanism; 3.20A {Homo
sapiens} SCOP: d.3.1.9 PDB: 2ayo_A
Length = 404
Score = 68.1 bits (166), Expect = 6e-13
Identities = 24/161 (14%), Positives = 47/161 (29%), Gaps = 28/161 (17%)
Query: 178 LPGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGEL 237
+ GL N+ Y N +Q + V L+D R R + ++ +L
Sbjct: 11 MELPCGLTNLGNTCYMNATVQCIRSVPELKDALKRYAGALRASGEMASAQYITAA-LRDL 69
Query: 238 MRKLWNPRNFKSHVSPHEMLQAVVLWSRKQFQFT------EQSDPIDFLSWFLNTLHRAL 291
+ S + P +LQ + + QF Q D + + L + L
Sbjct: 70 FDSMDKTS---SSIPPIILLQFLHMAF-PQFAEKGEQGQYLQQDANECWIQMMRVLQQKL 125
Query: 292 NGTKKK-----------------DSSIVYKTFLGSMKVKTR 315
+ S++ + F + +
Sbjct: 126 EAIEDDSVKETDSSSASAATPSKKKSLIDQFFGVEFETTMK 166
>2uzg_A Ubiquitin carboxyl-terminal hydrolase 33; UBL conjugation
pathway, DE-ubiquitination, alternative splicing,
metal-binding, thiol protease; NMR {Homo sapiens} SCOP:
g.44.1.5
Length = 97
Score = 62.7 bits (152), Expect = 9e-13
Identities = 21/84 (25%), Positives = 37/84 (44%), Gaps = 6/84 (7%)
Query: 11 CPYLDTINRQLLDFDFEK---LCSV-SLSRINVYACL--VCGKYFQGRGTNTFAYTHSVA 64
CP+LD++ + +K C + N++ACL C G + HS
Sbjct: 6 CPHLDSVGEITKEDLIQKSLGTCQDCKVQGPNLWACLENRCSYVGCGESQVDHSTIHSQE 65
Query: 65 ESHHVFLNLHTLKFYCLPDNYEIV 88
H++ +NL TL+ +C + E+
Sbjct: 66 TKHYLTVNLTTLRVWCYACSKEVF 89
>3mhs_A Ubiquitin carboxyl-terminal hydrolase 8; multi-protein complex,
hydrolase-transcription regulator-Pro binding complex,
acetylation, cytoplasm; 1.89A {Saccharomyces cerevisiae}
PDB: 3mhh_A 3m99_A
Length = 476
Score = 67.3 bits (164), Expect = 1e-12
Identities = 35/184 (19%), Positives = 67/184 (36%), Gaps = 19/184 (10%)
Query: 147 KYVLNPTFTTDQIKQLDLSDKMSRAIDGTL-YLPGIVGLNNIKANDYCNVILQALCHVTP 205
Y+ N D I D ++ + ++ G+ GL N+ + + + ILQ L H
Sbjct: 106 DYIGNIDLINDAILAKYWDDVCTKTMVPSMERRDGLSGLINMGSTCFMSSILQCLIHNPY 165
Query: 206 LRDYFLREINYARVK-RPPGDSSFLLVQR-FGELMRKLWNPRNFKSHVSPHEMLQAVVLW 263
+ + +I+ K R P + + EL L + S S + + L
Sbjct: 166 FIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHELYGALNTKQASSSSTSTNRQTGFIYLL 225
Query: 264 SR-----KQFQFTEQSDPIDFLSWFLNTLHRALN-----------GTKKKDSSIVYKTFL 307
+ + Q D +F + +N +H++ K+ IV+ F
Sbjct: 226 TCAWKINQNLAGYSQQDAHEFWQFIINQIHQSYVLDLPNAKEVSRANNKQCECIVHTVFE 285
Query: 308 GSMK 311
GS++
Sbjct: 286 GSLE 289
Score = 33.0 bits (75), Expect = 0.14
Identities = 17/90 (18%), Positives = 30/90 (33%), Gaps = 5/90 (5%)
Query: 30 CSV--SLSRINVYACLVCGKYFQGRGTNTFAYTHSVAESHHVFLNLHTLKFYCLPDNYEI 87
C ++ + CL CG F G ++ +HS H +N + +C I
Sbjct: 51 CGTCHEINSGATFMCLQCG--FCGCWNHSHFLSHSKQIGHIFGINSNNGLLFCFKCEDYI 108
Query: 88 VGTVAGPVVNRLCPYLDTINRQLLDFDFEK 117
L Y D + + + E+
Sbjct: 109 GNIDLINDA-ILAKYWDDVCTKTMVPSMER 137
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP,
deubiquitinating enzyme, substrate recognition; 3.20A
{Homo sapiens}
Length = 522
Score = 57.3 bits (138), Expect = 2e-09
Identities = 27/136 (19%), Positives = 46/136 (33%), Gaps = 14/136 (10%)
Query: 180 GIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMR 239
G VGL N A Y N +LQ L LR + + S L L R
Sbjct: 174 GYVGLKNQGATCYMNSLLQTLFFTNQLRKA----VYMMPTEGDDSSKSVPL-----ALQR 224
Query: 240 KLWNPRNFKSHVSPHEMLQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDS 299
+ ++ V ++ ++ + + Q D + L+ + + GT +
Sbjct: 225 VFYELQHSDKPVGTKKLTKS---FGWETLDSFMQHDVQELCRVLLDNVENKMKGTCVEG- 280
Query: 300 SIVYKTFLGSMKVKTR 315
+ K F G M +
Sbjct: 281 -TIPKLFRGKMVSYIQ 295
>1nb8_A Ubiquitin carboxyl-terminal hydrolase 7; UBP, deubiquitination,
hausp, P53 binding; 2.30A {Homo sapiens} SCOP: d.3.1.9
PDB: 1nbf_A
Length = 353
Score = 56.4 bits (136), Expect = 3e-09
Identities = 30/137 (21%), Positives = 45/137 (32%), Gaps = 16/137 (11%)
Query: 180 GIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQR-FGELM 238
G VGL N A Y N +LQ L LR S L +QR F EL
Sbjct: 5 GYVGLKNQGATCYMNSLLQTLFFTNQLRKAV---YMMPTEGDDSSKSVPLALQRVFYELQ 61
Query: 239 RKLWNPRNFKSHVSPHEMLQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKD 298
V ++ ++ + + Q D + L+ + + GT +
Sbjct: 62 HS-------DKPVGTKKLTKS---FGWETLDSFMQHDVQELCRVLLDNVENKMKGTCVEG 111
Query: 299 SSIVYKTFLGSMKVKTR 315
+ K F G M +
Sbjct: 112 --TIPKLFRGKMVSYIQ 126
>2g45_A Ubiquitin carboxyl-terminal hydrolase 5; zinc finger, hydrolase;
1.99A {Homo sapiens} SCOP: g.44.1.5 PDB: 2g43_A 2l80_A
Length = 129
Score = 53.1 bits (127), Expect = 4e-09
Identities = 18/94 (19%), Positives = 33/94 (35%), Gaps = 16/94 (17%)
Query: 11 CPYLDTI----NRQLLDFDFEKLCSVSLSRINVYACLVCG------KYFQGRGTNTFAYT 60
+ ++ N + K CS R N++ L G +YF G G N A
Sbjct: 15 SKHAFSLKQLDNPARIPPCGWK-CSKCDMRENLWLNLTDGSILCGRRYFDGSGGNNHAVE 73
Query: 61 HSVAESHHVFLNLHTL-----KFYCLPDNYEIVG 89
H + + + L T+ Y ++ ++
Sbjct: 74 HYRETGYPLAVKLGTITPDGADVYSYDEDDMVLD 107
Score = 30.4 bits (68), Expect = 0.38
Identities = 8/41 (19%), Positives = 14/41 (34%), Gaps = 5/41 (12%)
Query: 100 CPYLDTI----NRQLLDFDFEKLCSVSLSRINVYACLVCGK 136
+ ++ N + K CS R N++ L G
Sbjct: 15 SKHAFSLKQLDNPARIPPCGWK-CSKCDMRENLWLNLTDGS 54
>2i50_A Ubiquitin carboxyl-terminal hydrolase 16; alpha/beta zinc-finger,
ring-finger, ZNF-UBP, metalloprotein, ubiquitin-binding
protein, USP; NMR {Homo sapiens}
Length = 126
Score = 52.4 bits (125), Expect = 7e-09
Identities = 19/82 (23%), Positives = 33/82 (40%), Gaps = 9/82 (10%)
Query: 10 LCPYLDTINRQLLDFDFEKLCSVSLSRINVYACLVCGKYFQGRGT-NTFAYTHSVA---E 65
+C T N+ +K + + +V+ CL CG GR + A H + E
Sbjct: 30 ICQDCKTDNK-----VKDKAEEETEEKPSVWLCLKCGHQGCGRNSQEQHALKHYLTPRSE 84
Query: 66 SHHVFLNLHTLKFYCLPDNYEI 87
H + L+L +C + E+
Sbjct: 85 PHCLVLSLDNWSVWCYVCDNEV 106
Score = 32.4 bits (73), Expect = 0.076
Identities = 12/65 (18%), Positives = 22/65 (33%), Gaps = 9/65 (13%)
Query: 74 HTLKFYCLPDNYEIVGTVAGPVVNRLCPYLDTINRQLLDFDFEKLCSVSLSRINVYACLV 133
H K + + + V + C T N+ +K + + +V+ CL
Sbjct: 9 HIRKGLEQGNLKKALVNVEWNI----CQDCKTDNK-----VKDKAEEETEEKPSVWLCLK 59
Query: 134 CGKYF 138
CG
Sbjct: 60 CGHQG 64
>1vjv_A Ubiquitin carboxyl-terminal hydrolase 6; YFR010W, structural
genomics, JCSG, PSI, protein structure initiative; HET:
MSE; 1.74A {Saccharomyces cerevisiae} SCOP: d.3.1.9
Length = 415
Score = 51.4 bits (122), Expect = 2e-07
Identities = 28/135 (20%), Positives = 43/135 (31%), Gaps = 11/135 (8%)
Query: 182 VGLNNIKANDYCNVILQALCHVTPLRDYFLR---EINYARVKRPPGDSSFLLVQRFGELM 238
VG N+ Y N LQAL V LRD L + + +V
Sbjct: 25 VGFKNMGNTCYLNATLQALYRVNDLRDMILNYNPSQGVSNSGAQDEEIHKQIVIEMKRCF 84
Query: 239 RKLWNPRNFKSHVSPHEMLQAV------VLWSRKQFQFTEQSDPIDFLSWFLNTLHRALN 292
L N V P +L + Q F +Q D + + +++
Sbjct: 85 ENLQNKS--FKSVLPVVLLNTLRKCYPQFAERDSQGGFYKQQDAEELFTQLFHSMSIVFG 142
Query: 293 GTKKKDSSIVYKTFL 307
+D I +KT +
Sbjct: 143 DKFSEDFRIQFKTTI 157
>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 = 43.1 bits (101), Expect = 1e-04
Identities = 42/225 (18%), Positives = 70/225 (31%), Gaps = 41/225 (18%)
Query: 2 VTGPVVNRLCPYLDTINRQLLDFDFEKLCSVSLSRINVYACLVCGKYFQGRGTNTFAYTH 61
++ ++ Y++ N L K V +S +N LV G
Sbjct: 341 ISNLTQEQVQDYVNKTNSHL---PAGK--QVEISLVNGAKNLVVS------GP------- 382
Query: 62 SVAES-HHVFLNLHTLKFYCLPDNYEIVGTVAGPVV-NR-L-------CPYL----DTIN 107
+S + + L L K D I + NR L L D IN
Sbjct: 383 --PQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLIN 440
Query: 108 RQLLDFDFEKLCSVSLSRINVYACLVCGKYFQDSSLDDIKYVLNPTFTTDQIK-QLDLSD 166
+ L+ + + + +I VY G + S I + +K +
Sbjct: 441 KDLVKNNVS-FNAKDI-QIPVY-DTFDGSDLRVLS-GSISERIVDCIIRLPVKWETTTQF 496
Query: 167 KMSRAID-GTLYLPGIVGL-NNIKANDYCNVILQALCHVTPLRDY 209
K + +D G G+ L + K VI+ + P DY
Sbjct: 497 KATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDY 541
Score = 35.4 bits (81), Expect = 0.029
Identities = 21/106 (19%), Positives = 35/106 (33%), Gaps = 39/106 (36%)
Query: 206 LRDYFLREINYARV--KRP---PGDSSFL---------LVQRFG----------ELMRKL 241
+++Y AR+ KRP +S+ LV FG EL R L
Sbjct: 123 IKNYI-----TARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEEL-RDL 176
Query: 242 WNPRNFKSHVSP-----HEMLQAVVLWSRKQFQFTEQSDPIDFLSW 282
+ + V E L ++ + + Q ++ L W
Sbjct: 177 YQT--YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQG--LNILEW 218
Score = 32.7 bits (74), Expect = 0.22
Identities = 51/277 (18%), Positives = 87/277 (31%), Gaps = 112/277 (40%)
Query: 136 KYFQDS---SLDDIKYVL-NPT-----FTTDQIKQL-DLSDKMSRA--IDGTLYLPGIVG 183
+F+D+ S+ DI V+ NP F ++ K++ + M +DG L I
Sbjct: 1651 NHFKDTYGFSILDI--VINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFK 1708
Query: 184 LNNIKANDYC----NVIL------Q-ALC-------------HVTPLRDYF----LREIN 215
N + Y +L Q AL + P F L E
Sbjct: 1709 EINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGE-- 1766
Query: 216 Y------ARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSH-------VSPHEM------ 256
Y A V ++ R G M+ PR+ ++P +
Sbjct: 1767 YAALASLADVM-SIESLVEVVFYR-GMTMQVA-VPRDELGRSNYGMIAINPGRVAASFSQ 1823
Query: 257 --LQAVVLWSRKQFQFTEQSDPIDFLSWFL---NTLHRALN---------GTKK---KDS 299
LQ VV + +++ W + N N G + +
Sbjct: 1824 EALQYVVE------RVGKRTG------WLVEIVN-----YNVENQQYVAAGDLRALDTVT 1866
Query: 300 SIVYKTFLGSMKVKTRKIPPVELE-----EKVRQRLL 331
++ L +K++ KI +EL+ E+V L
Sbjct: 1867 NV-----LNFIKLQ--KIDIIELQKSLSLEEVEGHLF 1896
>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 = 40.2 bits (93), Expect = 8e-04
Identities = 43/250 (17%), Positives = 80/250 (32%), Gaps = 64/250 (25%)
Query: 139 QDSSLDDIKYVLNPTFTTDQIKQLDLSD--KMSRAIDGTLYLPGIVGLNNIKANDYCNVI 196
DI V F + D D M ++I + I+ + + +
Sbjct: 14 HQYQYKDILSVFEDAF----VDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTL--RL 67
Query: 197 LQALC-HVTPLRDYFLREI---NY----ARVKRPPGDSSFLLVQRFGELMRKLWN-PRNF 247
L + F+ E+ NY + +K S ++ + + E +L+N + F
Sbjct: 68 FWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPS-MMTRMYIEQRDRLYNDNQVF 126
Query: 248 -KSHVS----------------P------HEM-------LQAVVLWSRK---QFQF---- 270
K +VS P + + V S K + F
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFW 186
Query: 271 ---TEQSDPIDFLSWFLNTLHRA-LNGTKKKDSSIVYKTFLGSMKVKTRKIPPVELEEKV 326
+ P L L++ N T + D S K + S++ + R++ L+ K
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL----LKSKP 242
Query: 327 RQR-LLLTDN 335
+ LL+ N
Sbjct: 243 YENCLLVLLN 252
>1eg5_A Aminotransferase; PLP-dependent enzymes, iron-sulfur-cluster
synthesis, C-S BE transferase; HET: PLP; 2.00A
{Thermotoga maritima} SCOP: c.67.1.3 PDB: 1ecx_A*
Length = 384
Score = 31.3 bits (72), Expect = 0.45
Identities = 15/70 (21%), Positives = 24/70 (34%), Gaps = 18/70 (25%)
Query: 170 RAIDGTLYLPGIVGLNNIKANDYCNVILQAL----CHVTPLRDYFLREI-------NYAR 218
R+ GT +PGIVG +A + ++ L H+ LR + +
Sbjct: 235 RS--GTQNVPGIVGAA--RA---MEIAVEELSEAAKHMEKLRSKLVSGLMNLGAHIITPL 287
Query: 219 VKRPPGDSSF 228
P S
Sbjct: 288 EISLPNTLSV 297
>3a9z_A Selenocysteine lyase; PLP, cytoplasm, pyridoxal phosphate,
transferase; HET: PLP SLP; 1.55A {Rattus norvegicus}
PDB: 3a9x_A* 3a9y_A* 3gzd_A* 3gzc_A* 2hdy_A*
Length = 432
Score = 29.9 bits (68), Expect = 1.1
Identities = 19/87 (21%), Positives = 30/87 (34%), Gaps = 25/87 (28%)
Query: 170 RAIDGTLYLPGIVGLNNIKANDYCNVILQAL----CHVTPLRDYFLREI----------- 214
R GT P I GL KA +++ + H+ +RDY +
Sbjct: 281 RP--GTENTPMIAGLG--KA---ADLVSENCETYEAHMRDIRDYLEERLEAEFGKRIHLN 333
Query: 215 -NYARVKRPPGDS--SFLLVQRFGELM 238
+ V+R P S Q G ++
Sbjct: 334 SRFPGVERLPNTCNFSIQGSQLRGYMV 360
>3lvm_A Cysteine desulfurase; structural genomics, montreal-kingston
bacterial structural genomics initiative, BSGI,
transferase; HET: PLP; 2.05A {Escherichia coli} PDB:
3lvk_A* 3lvl_B* 3lvj_A* 1p3w_B*
Length = 423
Score = 29.8 bits (68), Expect = 1.3
Identities = 11/67 (16%), Positives = 24/67 (35%), Gaps = 17/67 (25%)
Query: 174 GTLYLPGIVGLNNIKANDYCNVILQAL----CHVTPLRDYF---LREINYARV-----KR 221
GTL + IVG+ +A + + + + LR+ +++I +
Sbjct: 261 GTLPVHQIVGMG--EA---YRIAKEEMATEMERLRGLRNRLWNGIKDIEEVYLNGDLEHG 315
Query: 222 PPGDSSF 228
P +
Sbjct: 316 APNILNV 322
>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 = 28.8 bits (63), Expect = 1.5
Identities = 10/34 (29%), Positives = 12/34 (35%), Gaps = 10/34 (29%)
Query: 158 QIKQLDLSDKMSRAIDGTLYLPGIV-GLNNIKAN 190
+K+L S K LY L IKA
Sbjct: 21 ALKKLQASLK--------LYADDSAPAL-AIKAT 45
>4eb5_A Probable cysteine desulfurase 2; scaffold, transferase-metal
binding protein complex; HET: PLP EPE; 2.53A
{Archaeoglobus fulgidus} PDB: 4eb7_A*
Length = 382
Score = 29.4 bits (67), Expect = 1.9
Identities = 15/71 (21%), Positives = 24/71 (33%), Gaps = 19/71 (26%)
Query: 170 RAIDGTLYLPGIVGLNNIKANDYCNVILQAL----CHVTPLRDYFLREI--------NYA 217
R+ G+ +P IVG KA + + LRD + + N
Sbjct: 231 RS--GSENVPSIVGFG--KA---AEITAMEWREEAERLRRLRDRIIDNVLKIEESYLNGH 283
Query: 218 RVKRPPGDSSF 228
KR P + +
Sbjct: 284 PEKRLPNNVNV 294
>3dpt_A ROCO, RAB family protein; alpha-beta-protein, signaling protein;
2.90A {Chlorobaculum tepidum}
Length = 332
Score = 28.2 bits (62), Expect = 3.6
Identities = 25/155 (16%), Positives = 51/155 (32%), Gaps = 21/155 (13%)
Query: 137 YFQDSSLDDIKYVLNPTFTTDQIKQLDLSDKMSRAIDGTLYLPGIVGLNNIKANDYCNVI 196
YF+ L +I YVL+P + T + ++ S K T L I+ I+ ++Y
Sbjct: 70 YFEALDLSEI-YVLDPHWVTIGVYRIINSSKTKNGHLNTSALGYILNEEQIRCDEYDPAK 128
Query: 197 LQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEM 256
+ + Y L ++++F EL P ++
Sbjct: 129 NNKFTYTLLEQRYLLD-----------------IMKQF-ELCYDEGKGLFIIPSNLPTQI 170
Query: 257 LQAVVLWSRKQFQFTEQSD--PIDFLSWFLNTLHR 289
+ + +F + D P + + +
Sbjct: 171 DNEPEITEGEPLRFIMKYDYLPSTIIPRLMIAMQH 205
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
0.325 0.140 0.430
Gapped
Lambda K H
0.267 0.0853 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,218,286
Number of extensions: 305218
Number of successful extensions: 1154
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1127
Number of HSP's successfully gapped: 34
Length of query: 338
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 244
Effective length of database: 4,077,219
Effective search space: 994841436
Effective search space used: 994841436
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 58 (25.9 bits)