RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9085
(394 letters)
>3rzv_A STAM-binding protein; ubiquitin hydrolase, endosome-associated
deubiquitinat enzyme, hydrolase; 1.67A {Homo sapiens}
PDB: 3rzu_A
Length = 211
Score = 175 bits (444), Expect = 2e-53
Identities = 29/190 (15%), Positives = 60/190 (31%), Gaps = 26/190 (13%)
Query: 83 KYDRKRQQDMIAAKPWEKDPHFFKDIKISALALLKMVMHARSG--GTLEVMGLLLGKIDA 140
DR + ++ + + + + + A + + G+L GK+
Sbjct: 19 VVDRSLKPGALSNSESIPTIDGLRHVVVPGRLCPQFLQLASANTARGVATCGILCGKLMR 78
Query: 141 NSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAIGWYHSHPGYGCWL 200
N + N + + ++ + + +GW H+HP +L
Sbjct: 79 NEFTITHVLIPKQSAGSDYCNTENEEELFL-------IQDQQGLITLGWIHTHPTQTAFL 131
Query: 201 SGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYK-----------PA 249
S +D+ T Q VAIV P G F+ G + P
Sbjct: 132 SSVDLHTHCSYQMMLPESVAIVCSPKFQE------TGFFKLTDHGLEEISSCRQKGFHPH 185
Query: 250 NEEPSEYQTI 259
+++P + +
Sbjct: 186 SKDPPLFCSC 195
>2znr_A AMSH-like protease; metal binding protein, alternative splicing,
hydrolase, metal-binding, metalloprotease, UBL
conjugation pathway, zinc; 1.20A {Homo sapiens} PDB:
2znv_A
Length = 178
Score = 151 bits (381), Expect = 2e-44
Identities = 33/193 (17%), Positives = 55/193 (28%), Gaps = 33/193 (17%)
Query: 102 PHFFKDIKISALALLKMVMHARSG--GTLEVMGLLLGKIDANSMIVMDAFALPVEGTETR 159
+ + + K + A S +E G+L GK+ N +
Sbjct: 5 MEGLRCVVLPEDLCHKFLQLAESNTVRGIETCGILCGKLTHNEFTITHVIVPKQSAGPDY 64
Query: 160 VNAQAQAYEYMTAYIEAAKEVGRLENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFV 219
+ + + +GW H+HP +LS +D+ T Q +
Sbjct: 65 CDMENVEELFNVQDQ-------HDLLTLGWIHTHPTQTAFLSSVDLHTHCSYQLMLPEAI 117
Query: 220 AIVIDPVRTISAGKVCLGSFRTYP-----------KGYKPANEEPSEYQTIPLNKIEDFG 268
AIV P G FR KG+ P +EP +
Sbjct: 118 AIVCSPKHK------DTGIFRLTNAGMLEVSACKKKGFHPHTKEPRLFSIC-------KH 164
Query: 269 VHCKQYYSLDVSY 281
V K + +
Sbjct: 165 VLVKDIKIIVLDL 177
>2o95_A 26S proteasome non-ATPase regulatory subunit 7; PSMD7, MOV34,
JAB1/MPN, metal-free dimer, UN function; HET: SO4 12P
ETE PG4 PGE; 1.95A {Homo sapiens} PDB: 2o96_A
Length = 187
Score = 135 bits (340), Expect = 3e-38
Identities = 30/160 (18%), Positives = 65/160 (40%), Gaps = 10/160 (6%)
Query: 106 KDIKISALALLKMVMH----ARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVN 161
+ + + L LL +V H + G V+G+LLG + V ++FA+P + + +
Sbjct: 8 QKVVVHPLVLLSVVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDDKDDS 67
Query: 162 AQAQAYEYMTAYIEAAKEVGRLENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAI 221
++Y+ K+V E +GWYH+ P L D++ L + + V +
Sbjct: 68 VWFLDHDYLENMYGMFKKVNARERIVGWYHTGPK----LHKNDIAINELMKRYCPNSVLV 123
Query: 222 VIDPVRTISAGKVCLGSFRTYPKGYKPANEEPSEYQTIPL 261
+ID + ++ + + + ++ +
Sbjct: 124 IIDV--KPKDLGLPTEAYISVEEVHDDGTPTSKTFEHVTS 161
>2kks_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein
structure initiati northeast structural genomics
consortium; NMR {Desulfitobacterium hafniense}
Length = 146
Score = 112 bits (281), Expect = 4e-30
Identities = 30/171 (17%), Positives = 54/171 (31%), Gaps = 30/171 (17%)
Query: 108 IKISALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAY 167
I ++ + +M+ HAR E GLL G+ D + V + L N
Sbjct: 2 ITLTKKQMEEMLAHARQALPNEACGLLGGRRDGDDRWVERVYPLN--------NLDQSPE 53
Query: 168 EYMTA---YIEAAKEV-GRLENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVI 223
+ + A K++ +G +HSHP S D + +P ++ +I
Sbjct: 54 HFSMDPREQLTAVKDMRKNGWVMLGNFHSHPATPARPSAEDK------RLAFDPSLSYLI 107
Query: 224 DPVRTISAGKVCLGSFRTYPKGYKPANEEPSEYQTIPLNKIEDFGVHCKQY 274
+ K SF + + E+ H +
Sbjct: 108 --ISLAEPQKPVCKSFLI----------KKDGVDEEEIILKEELEHHHHHH 146
>4e0q_A COP9 signalosome complex subunit 6; MPN (MPR1P and PAD1P
N-terminal) domain, unknown function; 2.50A {Drosophila
melanogaster}
Length = 141
Score = 104 bits (262), Expect = 2e-27
Identities = 27/139 (19%), Positives = 53/139 (38%), Gaps = 13/139 (9%)
Query: 108 IKISALALLKMVMH-----ARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNA 162
I + L ++ + H A+ G +V G L+GK ++ +M++F L +
Sbjct: 8 ISLHPLVIMNISEHWTRFRAQHGEPRQVYGALIGKQKGRNIEIMNSFELKTDVIGDETVI 67
Query: 163 QAQAYEYMTAYIEAAKEVGRLENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIV 222
Y + K+V + IGWY + + D+ Q E + +
Sbjct: 68 NKDYYNKK---EQQYKQVFSDLDFIGWYTTGDN----PTADDIKIQRQIAAINECPIMLQ 120
Query: 223 IDPVRTISAGKVCLGSFRT 241
++P+ S + L F +
Sbjct: 121 LNPLSR-SVDHLPLKLFES 138
>2kcq_A MOV34/MPN/PAD-1 family; NESG, structure, structural genomics,
PSI-2, protein structure initiative; NMR {Salinibacter
ruber dsm 13855}
Length = 153
Score = 102 bits (254), Expect = 3e-26
Identities = 32/161 (19%), Positives = 55/161 (34%), Gaps = 21/161 (13%)
Query: 108 IKISALALLKMVMHARSGGTLEVMGLLLGKI--DANSMIVMDAFALPVEGTETRVNAQAQ 165
+K + L ++ +H E G LLG + D ++ + A + +
Sbjct: 1 MKTTPDILDQIRVHGADAYPEEGCGFLLGTVTDDGDNRVAALHRATNRRSEQRTRRYELT 60
Query: 166 AYEYMTAYIEAAKEVGRLENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDP 225
A +Y A A + + + +G YHSHP + S D+ + P VI
Sbjct: 61 ADDYRAADAAAQE---QGLDVVGVYHSHPDHPARPSATDL------EEATFPGFTYVI-- 109
Query: 226 VRTISAGKVCLGSFRTYPKGY--------KPANEEPSEYQT 258
V L ++ P +P E P E+
Sbjct: 110 VSVRDGAPEALTAWALAPDRSEFHREDIVRPDPEAPLEHHH 150
>3izc_K 60S ribosomal protein RPL16 (L13P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins; NMR {Saccharomyces cerevisiae} PDB:
3izs_K 3o58_P 3o5h_P 3u5e_O 3u5i_O
Length = 199
Score = 44.5 bits (105), Expect = 3e-06
Identities = 3/47 (6%), Positives = 7/47 (14%), Gaps = 12/47 (25%)
Query: 1 MAPRYELAVGLKKGHRNTKIKWANSLAQKTSKIVKMRPSRLKGNGSQ 47
M+ + + K V +
Sbjct: 1 MSVEPVVVIDGKGHLVGRL------------ASVVAKQLLNGQKIVV 35
>1oi0_A AF2198, hypothetical protein AF2198; proteasome, deubiquitination,
archaea, hydrolase; 1.5A {Archaeoglobus fulgidus} SCOP:
c.97.3.1 PDB: 1r5x_A
Length = 124
Score = 40.8 bits (95), Expect = 1e-04
Identities = 23/100 (23%), Positives = 34/100 (34%), Gaps = 17/100 (17%)
Query: 108 IKISALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAY 167
+KIS L ++ A+S E + LL G ++ + LP A +
Sbjct: 4 MKISRGLLKTILEAAKSAHPDEFIALLSGS----KDVMDELIFLPFVSGSVS----AVIH 55
Query: 168 EYMTAYIEAAKEVGRLENAIGWYHSHPGYGCWLSGIDVST 207
M + G HSHP C S D+S
Sbjct: 56 LDM---------LPIGMKVFGTVHSHPSPSCRPSEEDLSL 86
>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 = 42.9 bits (100), Expect = 2e-04
Identities = 52/351 (14%), Positives = 107/351 (30%), Gaps = 114/351 (32%)
Query: 31 SKIVKMRPSRLKGNGSQLVNI--FLI--LGCTIIFQNKTW-------------IMENNIE 73
K + RP L +++ + + +I TW I+E+++
Sbjct: 308 LKYLDCRPQDLP---REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN 364
Query: 74 TLSATDEIFKYDRKRQQDM-IAAKPWEKDPHFFKDIKISALALLKMVMHARSGGTLEVMG 132
L + RK + + F I LL ++ +
Sbjct: 365 VLEPAEY-----RKMFDRLSV----------FPPSAHIPT-ILLSLIW---FDVIKSDVM 405
Query: 133 LLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEV---GRLENA-IG 188
+++ K+ S++ P E T + Y+E ++ L + +
Sbjct: 406 VVVNKLHKYSLVEKQ----PKEST----------ISIPSIYLELKVKLENEYALHRSIVD 451
Query: 189 WYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKP 248
Y+ + D+ L+Q F + I G+
Sbjct: 452 HYNIPKTFDSD----DLIPPYLDQYF---YSHI-----------------------GHHL 481
Query: 249 ANEEPSEYQTIPLNKIEDFGVHCKQYYSLDVSYFKSSLDRRLLDSLWNKYWVNTLSSSSL 308
N E E ++ F + + LD + + + R + WN + S +
Sbjct: 482 KNIEHPE-------RMTLF----RMVF-LDFRFLEQKI--RHDSTAWNA----SGSILNT 523
Query: 309 LTNADYLTGQMCDLSDKLEQAESALVRNFLISESQERRPETKLMKATKDCC 359
L + +CD K E+ +A++ +FL + E L+ +K
Sbjct: 524 LQQLKFYKPYICDNDPKYERLVNAIL-DFL------PKIEENLIC-SKYTD 566
Score = 42.5 bits (99), Expect = 2e-04
Identities = 49/381 (12%), Positives = 93/381 (24%), Gaps = 130/381 (34%)
Query: 41 LKGNGSQLVNIFLILGCTIIFQNKTWIMEN-NIETLSATDEIFKYDRKRQQDMIAAKPWE 99
L ++V F+ ++ N ++M E + Y +R
Sbjct: 71 LLSKQEEMVQKFVE---EVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD-------RLY 120
Query: 100 KDPHFFKDIKIS----ALALLKMVMHARSGGTLEVMGLL-LGKIDANSMIVMDAFALPVE 154
D F +S L L + ++ R + + G+L GK + + +D
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK----TWVALDV------ 170
Query: 155 GTETRVNAQAQAYEYMTAYIEAAKEVGRLENAIGWYHSHPGYGCWLSGIDVSTQMLNQNF 214
+Y K +++ I W + S V + +
Sbjct: 171 ---------CLSY----------KVQCKMDFKIFWLN----LKNCNSPETVLEMLQKLLY 207
Query: 215 QEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKPANEEPSEYQTIPLNK----------- 263
Q IDP T + E +
Sbjct: 208 Q-------IDPNWTSRSD-----HSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN 255
Query: 264 ---IEDFGVHCKQYYSLDVSYFKSSLDRRLLDSLWNKYWVNTLSSSSLLTNADYLTGQ-- 318
F + CK L ++ D+L+
Sbjct: 256 AKAWNAFNLSCK-----------------------------ILLTTRFKQVTDFLSAATT 286
Query: 319 ----MCDLSDKLEQAES-ALVRNFLISESQERRPETKLMKATKDCCKTTIECIHGLMAQM 373
+ S L E +L+ +L Q+ E + +
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREV---------LT-----TNPRRLSI 332
Query: 374 IKQQLFNH-----NMKHVETE 389
I + + + N KHV +
Sbjct: 333 IAESIRDGLATWDNWKHVNCD 353
Score = 39.8 bits (92), Expect = 0.002
Identities = 38/289 (13%), Positives = 85/289 (29%), Gaps = 65/289 (22%)
Query: 7 LAVGL----KKGHRNTKIKWANSLAQKTSKIVKMRPSRLKGNGSQLVNIFLILGCTIIFQ 62
+ + + T W + K + I++ + L+ + +F L +F
Sbjct: 328 RRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYR--KMFDRLS---VFP 382
Query: 63 NKTWIMENNIETLSATDEIFKYDRKRQQDMIAAKPWEKDPHFFKDIKISALALLKMVMHA 122
I + + W + ++ L +V
Sbjct: 383 PSAHIPTILLSLI----------------------WFDVIKSDVMVVVNKLHKYSLVEKQ 420
Query: 123 RSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQA-QAYEYMTAYIEAAKEVG 181
T+ + + L + +E E ++ Y +
Sbjct: 421 PKESTISIPSIYL------------ELKVKLEN-EYALHRSIVDHYNIPKTFDSDDLIPP 467
Query: 182 RLENAIGWYHSHPGY---GCWLSGIDVSTQMLNQNFQEPFVA--IVIDPVRTISAGKVC- 235
L+ +++SH G+ +M+ +F+ F+ I D ++G +
Sbjct: 468 YLDQ---YFYSHIGHHLKNIEHPERMTLFRMVFLDFR--FLEQKIRHDSTAWNASGSILN 522
Query: 236 -LGSFRTYPKGYKPANEEPSEYQTIPLNKIEDF----GVHCKQYYSLDV 279
L + Y K Y N+ +Y+ + +N I DF + D+
Sbjct: 523 TLQQLKFY-KPYICDNDP--KYERL-VNAILDFLPKIEENLICSKYTDL 567
>3iz5_K 60S ribosomal protein L13A (L13P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
PDB: 3izr_K
Length = 206
Score = 40.0 bits (93), Expect = 2e-04
Identities = 3/46 (6%), Positives = 8/46 (17%), Gaps = 12/46 (26%)
Query: 2 APRYELAVGLKKGHRNTKIKWANSLAQKTSKIVKMRPSRLKGNGSQ 47
+ V + H ++ + L
Sbjct: 5 SGVCAKRVVVDARHHMLG------------RLASIVAKELLNGQRV 38
>2og4_A PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN domain,
protein-PR interaction, PRP8P, pseudoenzyme, spliceosome
activation; 2.00A {Saccharomyces cerevisiae}
Length = 254
Score = 40.7 bits (95), Expect = 4e-04
Identities = 19/111 (17%), Positives = 40/111 (36%), Gaps = 9/111 (8%)
Query: 187 IGWYHSHPGYGCWLSGIDVSTQM-LNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKG 245
+GW H+ +++ +V+T L + + + I I + G V L ++ +G
Sbjct: 113 LGWIHTQTEELKFMAASEVATHSKLFADKKRDCIDISI----FSTPGSVSLSAYNLTDEG 168
Query: 246 YKPANEEPSEYQTIPLNKIEDFGVHCKQYYSLDVSYFKSSLDRRLLDSLWN 296
Y+ E + F H + S ++ ++WN
Sbjct: 169 YQWGEENKDIMNVLSEGFEPTFSTHAQLLLSDRITGNFIIPS----GNVWN 215
>2p8r_A PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, translation; 2.10A
{Caenorhabditis elegans} PDB: 2p87_A
Length = 273
Score = 38.4 bits (89), Expect = 0.002
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 9/66 (13%)
Query: 187 IGWYHSHPGYGCWLSGIDVSTQ--MLNQNFQ---EPFVAIVIDPVRTISAGKVCLGSFRT 241
+GW H+ P LS DV+T +L N E V I + + G V L +++
Sbjct: 112 LGWMHTQPNELPQLSPQDVTTHAKLLTDNISWDGEKTVMITC----SFTPGSVSLTAYKL 167
Query: 242 YPKGYK 247
P GY+
Sbjct: 168 TPSGYE 173
>3sbg_A PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain, JAB1/MPN domain;
3.28A {Saccharomyces cerevisiae}
Length = 565
Score = 37.4 bits (86), Expect = 0.007
Identities = 14/87 (16%), Positives = 32/87 (36%), Gaps = 12/87 (13%)
Query: 187 IGWYHSHPGYGCWLSGIDVSTQM-LNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKG 245
+GW H+ +++ +V+T L + + + I I + G V L ++ +G
Sbjct: 424 LGWIHTQTEELKFMAASEVATHSKLFADKKRDCIDISI----FSTPGSVSLSAYNLTDEG 479
Query: 246 YK-------PANEEPSEYQTIPLNKIE 265
Y+ N ++ +
Sbjct: 480 YQWGEENKDIMNVLSEGFEPTFSTHAQ 506
>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 = 37.7 bits (87), Expect = 0.008
Identities = 40/230 (17%), Positives = 75/230 (32%), Gaps = 67/230 (29%)
Query: 147 DAFA--LPVEGTETRV--NAQAQAYE-------YMTAYIEAAK-----EVGRLENAIGWY 190
+ F LP E TE + E Y+++ +E +K +V L + +
Sbjct: 35 EQFNKILP-EPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQV--LNLCLTEF 91
Query: 191 HSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKPAN 250
+ C+L G D+ A ++ T L + Y A
Sbjct: 92 EN-----CYLEGNDIHA----------LAAKLLQENDTTLVKTKEL--IKNYITARIMAK 134
Query: 251 EE-PSEYQTIPLNKIED--------FGVHCKQYYSLDVSYFKSSLDRRLLDSLWNKY--W 299
+ + + + FG Q + D YF+ L L+ Y
Sbjct: 135 RPFDKKSNSALFRAVGEGNAQLVAIFG---GQGNTDD--YFEE------LRDLYQTYHVL 183
Query: 300 VNTL--SSSSLL-------TNADYLTGQMCDLSDKLEQAESALVRNFLIS 340
V L S+ L +A+ + Q ++ + LE + +++L+S
Sbjct: 184 VGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS 233
Score = 35.0 bits (80), Expect = 0.050
Identities = 23/139 (16%), Positives = 41/139 (29%), Gaps = 50/139 (35%)
Query: 134 LLGKIDANSMIVMDA-----------FALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGR 182
LL A+ +I D +PV T + + + ++
Sbjct: 431 LLV--PASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCI----- 483
Query: 183 LENAIGW------YHSH-----PGYGCWLSGIDVSTQMLNQNFQ---EPFVAIVIDPVRT 228
+ + W +H PG SG+ + ++N VR
Sbjct: 484 IRLPVKWETTTQFKATHILDFGPGG---ASGL---GVLTHRNKDGTG----------VRV 527
Query: 229 ISAGKVCLGSFRTYPKGYK 247
I AG + + Y G+K
Sbjct: 528 IVAGTLDINPDDDY--GFK 544
Score = 33.9 bits (77), Expect = 0.10
Identities = 29/165 (17%), Positives = 55/165 (33%), Gaps = 43/165 (26%)
Query: 203 IDVSTQML---NQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKPANEEPSEYQTI 259
+ V T +Q QE F I+ +P +A ++EP+
Sbjct: 20 LLVPTASFFIASQ-LQEQFNKILPEPTEGFAA------------------DDEPT--TPA 58
Query: 260 PLNKIEDFGVHCKQYYSLDVSYFKSSLDRRLLDSLWNKYWVNTLSSSSLLTNADY--LTG 317
L + F Y S V K ++L+ ++ + L D L
Sbjct: 59 EL--VGKF----LGYVSSLVEPSKVGQFDQVLNLCLTEF------ENCYLEGNDIHALAA 106
Query: 318 QMCDLSDKLEQAESALVRNFLISESQERRPETK-----LMKATKD 357
++ +D L++N++ + +RP K L +A +
Sbjct: 107 KLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGE 151
Score = 31.2 bits (70), Expect = 0.75
Identities = 63/374 (16%), Positives = 112/374 (29%), Gaps = 137/374 (36%)
Query: 7 LAVGLKKGHRNTKIKW---------ANSLAQKTSKIVKMRPSRL-KGNGSQLVNIFLILG 56
LA L + + T +K A +A++ K S L + G + I G
Sbjct: 104 LAAKLLQENDTTLVKTKELIKNYITARIMAKR--PFDKKSNSALFRAVGEGNAQLVAIFG 161
Query: 57 CTIIFQNKTWIMENNIETLSATDEIFKYDRKRQQDMIAAKPWEKDPHFFKD-IKISALAL 115
Q N + +E+ +D+ ++ D IK SA L
Sbjct: 162 G----QG------NTDDYF---EEL--------RDL-----YQTYHVLVGDLIKFSAETL 195
Query: 116 LKMVMHARS-----GGTLEVMGLLLGKIDANSMIVMD--AFALPVEGTETRVNAQAQAYE 168
+++ L ++ L + + + P+ G Q
Sbjct: 196 SELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGV-------IQ--- 245
Query: 169 YMTAYIEAAKEVGRLENAIGWYHSHPG-YGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVR 227
+ Y+ AK +G PG +L G +Q L A+ I
Sbjct: 246 -LAHYVVTAKLLGF----------TPGELRSYLKGATGHSQGL-------VTAVAI---- 283
Query: 228 TISAGKVCLGSFRTYPKGYKPANEEPSEYQTIPLNKIED-F--GVHCKQYY---SLDVSY 281
+ + S + ++ I F GV C + Y SL S
Sbjct: 284 --AE-----------------TDSWESFFVSV-RKAITVLFFIGVRCYEAYPNTSLPPSI 323
Query: 282 FKSSLDRR-------LLDSLWNKYWVNTLSSSSLL-----TNADYLTGQMCDLSDKLEQA 329
+ SL+ L ++ L+ + TN+ +L +Q
Sbjct: 324 LEDSLENNEGVPSPMLS--------ISNLTQEQVQDYVNKTNS-HLPAG--------KQV 366
Query: 330 ESALV---RNFLIS 340
E +LV +N ++S
Sbjct: 367 EISLVNGAKNLVVS 380
>4a18_Q RPL36, 60S ribosomal protein L36; ribosome, eukaryotic initiation
factor 6, EIF6, transla large ribosomal subunit, rRNA;
3.52A {Tetrahymena thermophila} PDB: 4a19_Q 4a1b_Q
4a1d_Q
Length = 104
Score = 33.0 bits (75), Expect = 0.037
Identities = 10/41 (24%), Positives = 16/41 (39%), Gaps = 9/41 (21%)
Query: 7 LAVGLKKGHRNTKIKWANSLAQKTSKIVKMRPSRLKGNGSQ 47
AVG+ KG T++ K+ K + KG +
Sbjct: 5 QAVGINKGFITTQL---------EKKLQKHSAVQRKGKLGK 36
>3hn2_A 2-dehydropantoate 2-reductase; PSI-2, NYSGXRC, structural GE
protein structure initiative; 2.50A {Geobacter
metallireducens}
Length = 312
Score = 30.6 bits (70), Expect = 0.71
Identities = 5/53 (9%), Positives = 10/53 (18%), Gaps = 3/53 (5%)
Query: 282 FKSSLDRRLLDSLWNKYWVN-TLSSSSLLTNADYLTGQMCDLSDKLEQAESAL 333
L + W K N + L + + +
Sbjct: 171 VDCRTTDDLKRARWEKLVWNIPFNGLCALLQQPV--NLILARDVSRKLVRGIM 221
>3va7_A KLLA0E08119P; carboxylase, ligase; HET: BTI; 2.60A {Kluyveromyces
lactis}
Length = 1236
Score = 30.4 bits (69), Expect = 1.1
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 13/60 (21%)
Query: 139 DANSMIVMDA-FALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAIGWYHSHPGYG 197
D S V DA F++ + G A+ Y + I AAK+ G AI PGYG
Sbjct: 65 DKYSQHVTDADFSVALHGR-----TAAETYLDIDKIINAAKKTG--AQAI-----IPGYG 112
>3ghy_A Ketopantoate reductase protein; oxidoreductase, NAD-binding domain,
PSI-2, NYSGXRC, structur genomics, protein structure
initiative; 2.00A {Ralstonia solanacearum}
Length = 335
Score = 30.0 bits (68), Expect = 1.2
Identities = 10/41 (24%), Positives = 19/41 (46%), Gaps = 3/41 (7%)
Query: 282 FKSSLDRRLLDSLWNKYWVN-TLSSSSLLTNADYLTGQMCD 321
++ + +W K W N T++ S+LT A ++ D
Sbjct: 191 LQAECSEAIQRDIWFKLWGNMTMNPVSVLTGATC--DRILD 229
>2qyt_A 2-dehydropantoate 2-reductase; APC81190, porphyromonas gingi W83,
structural genomics, PSI-2; HET: MSE; 2.15A
{Porphyromonas gingivalis}
Length = 317
Score = 29.5 bits (67), Expect = 1.9
Identities = 2/41 (4%), Positives = 14/41 (34%), Gaps = 3/41 (7%)
Query: 282 FKSSLDRRLLDSLWNKYWVN-TLSSSSLLTNADYLTGQMCD 321
++ + + K+ + ++++ + G +
Sbjct: 186 IRAYNPTDIDWYIMKKFMMISVTATATAYFDKPI--GSILT 224
>4e3x_A Delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial; amino
acid metabolism, proline inhibition, oxidoreductase;
HET: 16P PGE; 1.24A {Mus musculus} PDB: 3v9k_A* 3v9l_A*
3v9j_A* 3v9g_A 3v9h_A 3v9i_A
Length = 563
Score = 29.5 bits (67), Expect = 2.1
Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 2/39 (5%)
Query: 152 PVEGTETRVNA--QAQAYEYMTAYIEAAKEVGRLENAIG 188
P E T +A A+A+ + ++E A+ L G
Sbjct: 380 PAEDFGTFFSAVIDAKAFARIKKWLEHARSSPSLSILAG 418
>3u9t_A MCC alpha, methylcrotonyl-COA carboxylase, alpha-subunit; biotin
carboxylase, carboxyltransferase, BT domain, BCCP DOM
ligase; 2.90A {Pseudomonas aeruginosa} PDB: 3u9s_A
Length = 675
Score = 29.6 bits (67), Expect = 2.3
Identities = 17/55 (30%), Positives = 20/55 (36%), Gaps = 11/55 (20%)
Query: 147 DAFALPVEGTETRVN----AQAQAYEYMTAYIEAAKEVGRLENAIGWYHSHPGYG 197
D A V + V+ A +Y I AA G AI HPGYG
Sbjct: 62 DRHARHVAEADIAVDLGGAKPADSYLRGDRIIAAALASG--AQAI-----HPGYG 109
>3hwr_A 2-dehydropantoate 2-reductase; YP_299159.1, PANE/APBA family
ketopantoate reductase, struct genomics, joint center
for structural genomics; HET: NDP BCN; 2.15A {Ralstonia
eutropha}
Length = 318
Score = 28.4 bits (64), Expect = 4.8
Identities = 8/53 (15%), Positives = 17/53 (32%), Gaps = 3/53 (5%)
Query: 282 FKSSLDRRLLDSLWNKYWVN-TLSSSSLLTNADYLTGQMCDLSDKLEQAESAL 333
+ +LW K +N ++ S +T Y G++ +
Sbjct: 182 VPVETSDNVRGALWAKLILNCAYNALSAITQLPY--GRLVRGEGVEAVMRDVM 232
>3v5u_A Uncharacterized membrane protein MJ0091; lipid cubic phase,
cation protein complex, sodium,calcium EX membrane
protein; HET: OLC MYS 1PE; 1.90A {Methanocaldococcus
jannaschii} PDB: 3v5s_A*
Length = 320
Score = 28.4 bits (64), Expect = 4.9
Identities = 10/21 (47%), Positives = 13/21 (61%), Gaps = 2/21 (9%)
Query: 43 GN--GSQLVNIFLILGCTIIF 61
GN GS + NI L+LG + I
Sbjct: 72 GNAIGSCICNIGLVLGLSAII 92
>2qf7_A Pyruvate carboxylase protein; multi-domain, multi-functional,
biotin-dependent, ligase; HET: KCX COA AGS; 2.00A
{Rhizobium etli} PDB: 3tw6_A* 3tw7_A*
Length = 1165
Score = 28.4 bits (64), Expect = 5.8
Identities = 13/43 (30%), Positives = 17/43 (39%), Gaps = 7/43 (16%)
Query: 155 GTETRVNAQAQAYEYMTAYIEAAKEVGRLENAIGWYHSHPGYG 197
R ++Y + I AK G +AI HPGYG
Sbjct: 67 PHLARDLGPIESYLSIDEVIRVAKLSG--ADAI-----HPGYG 102
>3qan_A 1-pyrroline-5-carboxylate dehydrogenase 1; proline oxidation, redox
control, apoptosis, NAD binding, oxidoreductase,
PSI-biology; 1.95A {Bacillus halodurans} PDB: 3rjl_A
Length = 538
Score = 28.0 bits (63), Expect = 6.6
Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 157 ETRVNAQ--AQAYEYMTAYIEAAKEVGRLENAIGWYHSHPGY 196
+ + +A+E + +YIE K+ GRL G S G+
Sbjct: 357 DNYMGPVIDEKAFEKIMSYIEIGKKEGRLM-TGGEGDSSTGF 397
>2ew2_A 2-dehydropantoate 2-reductase, putative; alpha-structure,
alpha-beta structure, structural genomics, protein
structure initiative; HET: MSE; 2.00A {Enterococcus
faecalis}
Length = 316
Score = 27.6 bits (62), Expect = 7.0
Identities = 9/53 (16%), Positives = 19/53 (35%), Gaps = 3/53 (5%)
Query: 282 FKSSLDRRLLDSLWNKYWVN-TLSSSSLLTNADYLTGQMCDLSDKLEQAESAL 333
S + S+W K VN TL+ + + + + L ++ +
Sbjct: 176 LNPSYSSNVRYSIWRKACVNGTLNGLCTILDCNI--AEFGALPVSESLVKTLI 226
>3n6r_A Propionyl-COA carboxylase, alpha subunit; protein complex,
biotin-dependent carboxylase, ligase; HET: BTI; 3.20A
{Ruegeria pomeroyi}
Length = 681
Score = 27.7 bits (62), Expect = 7.4
Identities = 10/34 (29%), Positives = 15/34 (44%), Gaps = 7/34 (20%)
Query: 164 AQAYEYMTAYIEAAKEVGRLENAIGWYHSHPGYG 197
Q+Y + + A + G A+ HPGYG
Sbjct: 57 NQSYIVIDKVMAAIRATG--AQAV-----HPGYG 83
>2dzd_A Pyruvate carboxylase; biotin carboxylase, ligase; 2.40A
{Geobacillus thermodenitrificans}
Length = 461
Score = 27.5 bits (62), Expect = 8.2
Identities = 13/33 (39%), Positives = 16/33 (48%), Gaps = 7/33 (21%)
Query: 165 QAYEYMTAYIEAAKEVGRLENAIGWYHSHPGYG 197
+AY + IE AK +AI HPGYG
Sbjct: 63 EAYLDIEGIIEIAKAHD--VDAI-----HPGYG 88
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
0.319 0.132 0.393
Gapped
Lambda K H
0.267 0.0754 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,769,139
Number of extensions: 332497
Number of successful extensions: 708
Number of sequences better than 10.0: 1
Number of HSP's gapped: 693
Number of HSP's successfully gapped: 35
Length of query: 394
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 298
Effective length of database: 4,021,377
Effective search space: 1198370346
Effective search space used: 1198370346
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 (21.8 bits)
S2: 58 (26.1 bits)