RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 018437
(356 letters)
>3hbx_A GAD 1, glutamate decarboxylase 1; calmodulin-binding, lyase,
pyridoxal phosphate; HET: LLP; 2.67A {Arabidopsis
thaliana}
Length = 502
Score = 434 bits (1118), Expect = e-151
Identities = 287/338 (84%), Positives = 317/338 (93%)
Query: 1 MVISTTETDSREILSSTFASRYVRAAIPRFKMPDNSMPKEAAYQVINDELMLDGNPRLNL 60
MV+S ++S + STFASRYVR ++PRFKMP+NS+PKEAAYQ+INDELMLDGNPRLNL
Sbjct: 1 MVLSHAVSESDVSVHSTFASRYVRTSLPRFKMPENSIPKEAAYQIINDELMLDGNPRLNL 60
Query: 61 ASFVTTWMEPECDKLVMASINKNYVDMDEYPVTTELQNRCVNMIAHLFNTPVADDKTAVG 120
ASFVTTWMEPECDKL+M+SINKNYVDMDEYPVTTELQNRCVNMIAHLFN P+ + +TAVG
Sbjct: 61 ASFVTTWMEPECDKLIMSSINKNYVDMDEYPVTTELQNRCVNMIAHLFNAPLEEAETAVG 120
Query: 121 VGTVGSSEAIMLAGLAFKRKWQQKRKEQGKPYDKPNIVTGANVQVCWEKFARYFEVELKE 180
VGTVGSSEAIMLAGLAFKRKWQ KRK +GKP DKPNIVTGANVQVCWEKFARYFEVELKE
Sbjct: 121 VGTVGSSEAIMLAGLAFKRKWQNKRKAEGKPVDKPNIVTGANVQVCWEKFARYFEVELKE 180
Query: 181 VKLEEGYYVMNPVKAVELVDENTICVAAILGSTLTGEFEDVKLLHDLLTKKNEETGWDTP 240
VKL EGYYVM+P +AV++VDENTICVAAILGSTL GEFEDVKLL+DLL +KN+ETGWDTP
Sbjct: 181 VKLSEGYYVMDPQQAVDMVDENTICVAAILGSTLNGEFEDVKLLNDLLVEKNKETGWDTP 240
Query: 241 IHVDAASGGFIAPFLYPDLEWDFRLPLVKSINVSGHKYGLVYAGVGWVVWRTKDDLPDEL 300
IHVDAASGGFIAPFLYP+LEWDFRLPLVKSINVSGHKYGLVYAG+GWV+WR K+DLP+EL
Sbjct: 241 IHVDAASGGFIAPFLYPELEWDFRLPLVKSINVSGHKYGLVYAGIGWVIWRNKEDLPEEL 300
Query: 301 VFHINYLGSDQPTFTLNFSKGSSQIIAQYYQFIRLGFE 338
+FHINYLG+DQPTFTLNFSKGSSQ+IAQYYQ IRLG E
Sbjct: 301 IFHINYLGADQPTFTLNFSKGSSQVIAQYYQLIRLGHE 338
>2dgk_A GAD-beta, GADB, glutamate decarboxylase beta; gadbd1-14,
autoinhibition, substituted aldamine, lyase; HET: PLP;
1.90A {Escherichia coli} PDB: 2dgm_A* 1pmo_A* 2dgl_A*
1pmm_A* 3fz6_A* 3fz7_A 3fz8_A* 1xey_A*
Length = 452
Score = 430 bits (1107), Expect = e-150
Identities = 161/323 (49%), Positives = 220/323 (68%), Gaps = 1/323 (0%)
Query: 16 STFASRYVRAAIPRFKMPDNSMPKEAAYQVINDELMLDGNPRLNLASFVTTWMEPECDKL 75
S F ++ + + P + M + A+Q+INDEL LDGN R NLA+F TW + KL
Sbjct: 2 SRFGAKSISTIAESKRFPLHEMRDDVAFQIINDELYLDGNARQNLATFCQTWDDENVHKL 61
Query: 76 VMASINKNYVDMDEYPVTTELQNRCVNMIAHLFNTPVADDKTAVGVGTVGSSEAIMLAGL 135
+ SINKN++D +EYP + + RCVNM+A L++ P + AVG T+GSSEA ML G+
Sbjct: 62 MDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACMLGGM 121
Query: 136 AFKRKWQQKRKEQGKPYDKPNIVTGANVQVCWEKFARYFEVELKEVKLEEGYYVMNPVKA 195
A K +W+++ + GKP DKPN+V G VQ+CW KFARY++VEL+E+ + G M+P +
Sbjct: 122 AMKWRWRKRMEAAGKPTDKPNLVCGP-VQICWHKFARYWDVELREIPMRPGQLFMDPKRM 180
Query: 196 VELVDENTICVAAILGSTLTGEFEDVKLLHDLLTKKNEETGWDTPIHVDAASGGFIAPFL 255
+E DENTI V G T TG +E + LHD L K +TG D +H+DAASGGF+APF+
Sbjct: 181 IEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGFLAPFV 240
Query: 256 YPDLEWDFRLPLVKSINVSGHKYGLVYAGVGWVVWRTKDDLPDELVFHINYLGSDQPTFT 315
PD+ WDFRLP VKSI+ SGHK+GL G GWV+WR ++ LP ELVF+++YLG TF
Sbjct: 241 APDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQIGTFA 300
Query: 316 LNFSKGSSQIIAQYYQFIRLGFE 338
+NFS+ + Q+IAQYY+F+RLG E
Sbjct: 301 INFSRPAGQVIAQYYEFLRLGRE 323
>3f9t_A TDC, L-tyrosine decarboxylase MFNA; NP_247014.1, L-tyrosine
decarboxylase MFNA (EC 4.1.1.25), ST genomics; HET: PLP;
2.11A {Methanocaldococcus jannaschii}
Length = 397
Score = 379 bits (976), Expect = e-131
Identities = 67/316 (21%), Positives = 125/316 (39%), Gaps = 24/316 (7%)
Query: 32 MPDNSMPKEAAYQVINDELMLDGNPR-LNLASFVTTWMEPECDKLVMASINKNYVDMDEY 90
M + + ++ + + LD N+ + + + P K+V + N D +
Sbjct: 5 MQEKGVSEKEILEELKKYRSLDLKYEDGNIFGSMCSNVLPITRKIVDIFLETNLGDPGLF 64
Query: 91 PVTTELQNRCVNMIAHLFNTPVADDKTAVGVGTVGSSEAIMLAGLAFKRKWQQKRKEQGK 150
T L+ + V ++ L N A G G +EA ++A K W++KR++
Sbjct: 65 KGTKLLEEKAVALLGSLLNNK-----DAYGHIVSGGTEANLMALRCIKNIWREKRRKGLS 119
Query: 151 PYDKPNIVTGANVQVCWEKFARYFEVELKEVKLEEGYYVMNPVKAVELVDENTI-CVAAI 209
+ P I+ +EK ++E ++E Y ++ + V++ + + I
Sbjct: 120 KNEHPKIIVPITAHFSFEKGREMMDLEYIYAPIKED-YTIDEKFVKDAVEDYDVDGIIGI 178
Query: 210 LGSTLTGEFEDVKLLHDLLTKKNEETGWDTPIHVDAASGGFIAPFLYP-------DLEWD 262
G+T G ++++ L + + N IHVDAA GG + PFL + ++D
Sbjct: 179 AGTTELGTIDNIEELSKIAKENN------IYIHVDAAFGGLVIPFLDDKYKKKGVNYKFD 232
Query: 263 FRLPLVKSINVSGHKYGLVYAGVGWVVWRTKDDLPDELVFHINYLGSDQPTFTLNFSKGS 322
F L V SI + HK G G ++++ L YL + T+ ++
Sbjct: 233 FSLG-VDSITIDPHKMGHCPIPSGGILFKDI-GYKRYLDVDAPYLTETRQA-TILGTRVG 289
Query: 323 SQIIAQYYQFIRLGFE 338
Y LG E
Sbjct: 290 FGGACTYAVLRYLGRE 305
>3mad_A Sphingosine-1-phosphate lyase; carboxy-lyase activity, pyridoxal
phosphate; HET: LLP; 2.00A {Symbiobacterium
thermophilum} PDB: 3maf_A* 3mau_A* 3mbb_A*
Length = 514
Score = 351 bits (903), Expect = e-118
Identities = 73/339 (21%), Positives = 121/339 (35%), Gaps = 25/339 (7%)
Query: 8 TDSREILSSTFASRYVRAAIPRFKMPDNSMPKEAAYQVINDELMLDGNPRLNLASFVTTW 67
R + A +PR +P + E A + AS
Sbjct: 52 ASLRSQIKPYRDRFPSHARLPRAGLPRAEILAEIAAMGAAESPAWRDG----YASGAVYH 107
Query: 68 MEPECDKLV----MASINKNYVDMDEYPVTTELQNRCVNMIAHLFNTPVADDKTAVGVGT 123
+ + N + D +P T + + V M AH+ A T G T
Sbjct: 108 GDEHHIAFLNEVYALQSQSNPLHPDLWPSTAKFEAEVVAMTAHMLGGD-AAGGTVCGTVT 166
Query: 124 VGSSEAIMLAGLAFKRKWQQKRKEQGKPYDKPNIVTGANVQVCWEKFARYFEVELKEVKL 183
G +E+++LA ++ + K P V + ++K A+YF ++L L
Sbjct: 167 SGGTESLLLAMKTYRDWARAT-----KGITAPEAVVPVSAHAAFDKAAQYFGIKLVRTPL 221
Query: 184 EEGYYVMNPVKAVELVDENTICVAAILGSTLTGEFEDVKLLHDLLTKKNEETGWDTPIHV 243
+ Y + E + NT+ VA G + + + L + HV
Sbjct: 222 DA-DYRADVAAMREAITPNTVVVAGSAPGYPHGVVDPIPEIAALAAEHG------IGCHV 274
Query: 244 DAASGGFIAPFL----YPDLEWDFRLPLVKSINVSGHKYGLVYAGVGWVVWRTKDDLPDE 299
DA GGFI P+ YP +DFRL V S++ HKYG G +++R D L +
Sbjct: 275 DACLGGFILPWAERLGYPVPPFDFRLEGVTSVSADTHKYGYGAKGTSVILYRRPDLLHYQ 334
Query: 300 LVFHINYLGSDQPTFTLNFSKGSSQIIAQYYQFIRLGFE 338
++ G + T S+ + + + LG E
Sbjct: 335 YFIAADWPGGLYFSPTFAGSRPGALSATAWAAMLSLGEE 373
>3mc6_A Sphingosine-1-phosphate lyase; carboxy-lyase activity, pyridoxyl
phosphate; HET: LLP; 3.15A {Saccharomyces cerevisiae}
Length = 497
Score = 341 bits (875), Expect = e-114
Identities = 71/329 (21%), Positives = 140/329 (42%), Gaps = 25/329 (7%)
Query: 21 RYVRAAIPRFKMPDNSMPKEAAYQVIND--ELMLDGNPRLNLASFVTTWMEPECDKLVMA 78
R + ++P N +P++ + +N +L+ + S + L
Sbjct: 27 RSDSQLMNFPQLPSNGIPQDDVIEELNKLNDLIPHTQWKEGKVSGAVYHGGDDLIHLQTI 86
Query: 79 SINK----NYVDMDEYPVTTELQNRCVNMIAHLFNTPVADDKTAVGVGTVGSSEAIMLAG 134
+ K N + D +P ++++ V+M+ +FN P T G T G +E+++LA
Sbjct: 87 AYEKYCVANQLHPDVFPAVRKMESEVVSMVLRMFNAP---SDTGCGTTTSGGTESLLLAC 143
Query: 135 LAFKRKWQQKRKEQGKPYDKPNIVTGANVQVCWEKFARYFEVELKEVKLEEGYYVMNPVK 194
L+ K R +P I+ ++K A YF ++L+ V+L+ Y ++ K
Sbjct: 144 LSAKMYALHHRG-----ITEPEIIAPVTAHAGFDKAAYYFGMKLRHVELDPTTYQVDLGK 198
Query: 195 AVELVDENTICVAAILGSTLTGEFEDVKLLHDLLTKKNEETGWDTPIHVDAASGGFIAPF 254
+ +++NT+ + + G +D++ L + K + P+HVD+ G FI F
Sbjct: 199 VKKFINKNTVLLVGSAPNFPHGIADDIEGLGKIAQK------YKLPLHVDSCLGSFIVSF 252
Query: 255 LYPDL-----EWDFRLPLVKSINVSGHKYGLVYAGVGWVVWRTKDDLPDELVFHINYLGS 309
+ DFR+P V SI+ HKYG G +++R D + + + G
Sbjct: 253 MEKAGYKNLPLLDFRVPGVTSISCDTHKYGFAPKGSSVIMYRNSDLRMHQYYVNPAWTGG 312
Query: 310 DQPTFTLNFSKGSSQIIAQYYQFIRLGFE 338
+ TL S+ + ++ + + +G
Sbjct: 313 LYGSPTLAGSRPGAIVVGCWATMVNMGEN 341
>2z67_A O-phosphoseryl-tRNA(SEC) selenium transferase; selenocysteine
biosynthesis, seven-stranded BETE-strand, PYR
5'-phosphate; HET: PLP; 2.50A {Methanococcus
maripaludis} SCOP: c.67.1.9
Length = 456
Score = 80.5 bits (198), Expect = 6e-17
Identities = 26/214 (12%), Positives = 60/214 (28%), Gaps = 30/214 (14%)
Query: 91 PVTTELQNRCVNMIAHLFNTPVADDKTAVGVGTVGSSEAIMLAGLAFKRKWQQKRKEQGK 150
+ + ++ F + T S+ + L+ RK
Sbjct: 126 SGASIMYALTNKILESFFKQL---GLNVHAIATPISTGMSISLCLSAARKK--------- 173
Query: 151 PYDKPNIVTGANVQVCWEKFARYFEVELKEV--KLEEGYYVMNPVKAVELVDE-----NT 203
Y ++ K + + ++ V L+ + + + N
Sbjct: 174 -YGSNVVIYPYASHKSPIKAVSFVGMNMRLVETVLDGDRVYVPVEDIENAIKKEIELGNR 232
Query: 204 ICVAAILGSTLTGEFEDVKLLHDLLTKKNEETGWDTPIHVDAASGGFIAPFL-YPDLEWD 262
CV + L +D+ + + +D P ++ A +L +
Sbjct: 233 PCVLSTLTFFPPRNSDDIVEIAKICEN------YDIPHIINGAYAIQNNYYLEKLKKAFK 286
Query: 263 FRLPLVKSINVSGHKYGLVYAGVGWVVWRTKDDL 296
+R+ ++ S K L G G V + +
Sbjct: 287 YRVD---AVVSSSDKNLLTPIGGGLVYSTDAEFI 317
>4e1o_A HDC, histidine decarboxylase; lyase; HET: PLP PVH; 1.80A {Homo
sapiens}
Length = 481
Score = 72.4 bits (178), Expect = 3e-14
Identities = 57/321 (17%), Positives = 112/321 (34%), Gaps = 34/321 (10%)
Query: 22 YVRAAIPRFKMPDNSMPKEAAYQVINDELMLD----GNPRLNLASFVTTWMEPE-CDKLV 76
Y+RA +P P++ ++ + I +M +P A + P ++
Sbjct: 42 YLRAQLPES-APEDPDSWDSIFGDIERIIMPGVVHWQSPH-MHAYYPALTSWPSLLGDML 99
Query: 77 MASINKNYVDMDEYPVTTELQNRCVNMIAHLFNTP-----VADDKTAVGVGTVGSSEAIM 131
+IN P TEL+ ++ +A + P GV SE+ +
Sbjct: 100 ADAINCLGFTWASSPACTELEMNVMDWLAKMLGLPEHFLHHHPSSQGGGVLQSTVSESTL 159
Query: 132 LAGLAFKRKWQQKRKEQGKPYDKPN------IVTGANVQVCWEKFARYFEVELKEVKLEE 185
+A LA ++ + K D+ + EK V++K + +++
Sbjct: 160 IALLAARKNKILEMKTSEPDADESSLNARLVAYASDQAHSSVEKAGLISLVKMKFLPVDD 219
Query: 186 GYYVMNPVKAVELVDENT------ICVAAILGSTLTGEFEDVKLLHDLLTKKNEETGWDT 239
+ + + ++E+ + V A LG+T F+ + L + E W
Sbjct: 220 NF-SLRGEALQKAIEEDKQRGLVPVFVCATLGTTGVCAFDCLSELGPIC---AREGLW-- 273
Query: 240 PIHVDAASGGFIAPFLYPDLEWDFR-LPLVKSINVSGHKYGLVYAGVGWVVWRTKDDLPD 298
+H+DAA G FL P+ + + S + K+ +V+ + K L
Sbjct: 274 -LHIDAAYAG--TAFLCPEFRGFLKGIEYADSFTFNPSKWMMVHFDCTGFWVKDKYKLQQ 330
Query: 299 ELVFHINYLGSDQPTFTLNFS 319
+ YL +F
Sbjct: 331 TFSVNPIYLRHANSGVATDFM 351
>3k40_A Aromatic-L-amino-acid decarboxylase; PLP dependent protein, alpha
beta protein, alternative splicing, catecholamine
biosynthesis, lyase; HET: LLP; 1.75A {Drosophila
melanogaster}
Length = 475
Score = 67.8 bits (166), Expect = 1e-12
Identities = 58/329 (17%), Positives = 109/329 (33%), Gaps = 52/329 (15%)
Query: 22 YVRAAIPRFKMPDNSMPKEAAYQVINDELMLDGNPRLNLASFVTTWMEPEC--------- 72
Y++ IP P+ + Q I +M VT W P+
Sbjct: 37 YLKPLIPDA-APEKPEKWQDVMQDIERVIMPG----------VTHWHSPKFHAYFPTANS 85
Query: 73 -----DKLVMASINKNYVDMDEYPVTTELQNRCVNMIAHLFNTP----VADDKTAVGVGT 123
++ +I P TEL+ ++ + + P GV
Sbjct: 86 YPAIVADMLSGAIACIGFTWIASPACTELEVVMMDWLGKMLELPAEFLACSGGKGGGVIQ 145
Query: 124 VGSSEAIMLAGLAFKRKWQQKRKEQGKPYDKPN------IVTGANVQVCWEKFARYFEVE 177
+SE+ ++A L K K ++ KE +D+ E+ V+
Sbjct: 146 GTASESTLVALLGAKAKKLKEVKELHPEWDEHTILGKLVGYCSDQAHSSVERAGLLGGVK 205
Query: 178 LKEVKLEEGYYVMNPVKAVELVDENT------ICVAAILGSTLTGEFEDVKLLHDLLTKK 231
L+ V+ E + M + ++++ LG+T + F+ + +
Sbjct: 206 LRSVQSEN--HRMRGAALEKAIEQDVAEGLIPFYAVVTLGTTNSCAFDYLDECGPVG--- 260
Query: 232 NEETGWDTPIHVDAASGGFIAPFLYPDLEWDFR-LPLVKSINVSGHKYGLVYAGVGWVVW 290
N+ W IHVDAA G + F+ P+ + + S N + HK+ LV +
Sbjct: 261 NKHNLW---IHVDAAYAG--SAFICPEYRHLMKGIESADSFNFNPHKWMLVNFDCSAMWL 315
Query: 291 RTKDDLPDELVFHINYLGSDQPTFTLNFS 319
+ + + YL D ++
Sbjct: 316 KDPSWVVNAFNVDPLYLKHDMQGSAPDYR 344
>1js3_A DDC;, DOPA decarboxylase; carbidopa, parkinson'S disease, vitamin;
HET: PLP 142; 2.25A {Sus scrofa} SCOP: c.67.1.6 PDB:
1js6_A* 3rch_A* 3rbl_A 3rbf_A*
Length = 486
Score = 67.8 bits (166), Expect = 1e-12
Identities = 62/321 (19%), Positives = 105/321 (32%), Gaps = 51/321 (15%)
Query: 22 YVRAAIPRFKMPDNSMPKEAAYQVINDELMLDGNPRLNLASFVTTWMEPEC--------- 72
Y+R IP P E Q + +M VT W P
Sbjct: 37 YLRPLIP-ATAPQEPDTFEDILQDVEKIIM----------PGVTHWHSPYFFAYFPTASS 85
Query: 73 -----DKLVMASINKNYVDMDEYPVTTELQNRCVNMIAHLFNTP----VADDKTAVGVGT 123
++ +I P TEL+ ++ + + P + GV
Sbjct: 86 YPAMLADMLCGAIGCIGFSWAASPACTELETVMMDWLGKMLQLPEAFLAGEAGEGGGVIQ 145
Query: 124 VGSSEAIMLAGLA----FKRKWQQKRKEQGKPYDKPNIV--TGANVQVCWEKFARYFEVE 177
+SEA ++A LA R+ Q + +V E+ V+
Sbjct: 146 GSASEATLVALLAARTKVVRRLQAASPGLTQGAVLEKLVAYASDQAHSSVERAGLIGGVK 205
Query: 178 LKEVKLEEGYYVMNPVKAVELVDENT------ICVAAILGSTLTGEFEDVKLLHDLLTKK 231
LK + + + M E ++ + V A LG+T F+++ + +
Sbjct: 206 LKAIPSDGKF-AMRASALQEALERDKAAGLIPFFVVATLGTTSCCSFDNLLEVGPIC--- 261
Query: 232 NEETGWDTPIHVDAASGGFIAPFLYPDLEWDFR-LPLVKSINVSGHKYGLVYAGVGWVVW 290
+EE W +HVDAA G + F+ P+ + S N + HK+ LV +
Sbjct: 262 HEEDIW---LHVDAAYAG--SAFICPEFRHLLNGVEFADSFNFNPHKWLLVNFDCSAMWV 316
Query: 291 RTKDDLPDELVFHINYLGSDQ 311
+ + DL YL
Sbjct: 317 KRRTDLTGAFKLDPVYLKHSH 337
>2qma_A Diaminobutyrate-pyruvate transaminase and L-2,4- diaminobutyrate
decarboxylase; structural genomics, APC91511.1,
glutamate decarboxylase; HET: MSE; 1.81A {Vibrio
parahaemolyticus}
Length = 497
Score = 63.1 bits (154), Expect = 4e-11
Identities = 49/318 (15%), Positives = 108/318 (33%), Gaps = 58/318 (18%)
Query: 22 YVRAAIPRFKMPDNSMPKEAAYQVINDELMLDGNPRLNLASFVTTWMEPEC--------- 72
+ AI + + + P ++ + + + P+C
Sbjct: 63 ALEDAINAVDLDNKNAPLKSVIDDVAELVA----------KNAIFTQHPDCIAHLHTPPL 112
Query: 73 ------DKLVMASINKNYVDMDEYPVTTELQNRCVNMIAHLFNTPVADDKTAVGVGTVGS 126
+ ++A++N++ D+ T ++ + VN + ++ + A G+ T G
Sbjct: 113 MPAVAAE-AMIAALNQSMDSWDQASSATYVEQKVVNWLCDKYDLS----EKADGIFTSGG 167
Query: 127 SEAIMLAGLA-----FKRKWQQKRKEQGKPYDKPN--IVTGANVQVCWEKFARYF---EV 176
+++ + + + ++ G P IV +K A + E
Sbjct: 168 TQSNQMGLMLARDWIADKLSGHSIQKLGLPDYADKLRIVCSKKSHFTVQKSASWMGLGEK 227
Query: 177 ELKEVKLEEGYYVMNPV---KAV-ELVDENTI--CVAAILGSTLTGEFEDVKLLHDLLTK 230
+ V M+ + + + E I + G+T G +D+ + D+
Sbjct: 228 AVMTVDANAD-GTMDITKLDEVIAQAKAEGLIPFAIVGTAGTTDHGAIDDLDFIADMA-- 284
Query: 231 KNEETGWDTPIHVDAASGGFIAPFLYPDLEWDFR-LPLVKSINVSGHKYGLVYAGVGWVV 289
+ W +HVD A GG + + + + SI+V HK G ++
Sbjct: 285 -VKHDMW---MHVDGAYGG---ALILSSHKSRLKGVERAHSISVDFHKLFYQTISCGALL 337
Query: 290 WRTKDDLPDELVFHINYL 307
K + L+ H +YL
Sbjct: 338 VNDKSNF-KFLLHHADYL 354
>2okj_A Glutamate decarboxylase 1; PLP-dependent decarboxylase, lyase; HET:
LLP PLZ; 2.30A {Homo sapiens} PDB: 2okk_A*
Length = 504
Score = 62.8 bits (153), Expect = 5e-11
Identities = 52/310 (16%), Positives = 101/310 (32%), Gaps = 44/310 (14%)
Query: 22 YVRAAIPRF--KMPDNSMPKEAAYQVINDELMLD---GNPR--------LNLASFVTTWM 68
+ + F ++ D+ E D L G+PR L++ W+
Sbjct: 54 QLLEGMEGFNLELSDHPESLEQILVDCRDTLKYGVRTGHPRFFNQLSTGLDIIGLAGEWL 113
Query: 69 EPECDKLVMASINKNYVDMDEYPVTTELQNRCVNMIAHLFNTPVADDKTAVGVGTVGSSE 128
++ N N + PV ++ + + + K G+ + G +
Sbjct: 114 --------TSTANTNMFTYEIAPVFVLMEQITLKKMREIVGWS---SKDGDGIFSPGGAI 162
Query: 129 AIMLAGLAFKRKWQQKRKEQGKP-YDKPNIVTGANVQVCWEKFARYF---EVELKEVKLE 184
+ M + +A + K+ + K +G K + T +K + +K
Sbjct: 163 SNMYSIMAARYKYFPEVKTKGMAAVPKLVLFTSEQSHYSIKKAGAALGFGTDNVILIKCN 222
Query: 185 EGYYVMNPVKAVELVDENT------ICVAAILGSTLTGEFEDVKLLHDLLTKKNEETGWD 238
E + P + E V A G+T+ G F+ ++ + D+ + W
Sbjct: 223 E-RGKIIPADFEAKILEAKQKGYVPFYVNATAGTTVYGAFDPIQEIADIC---EKYNLW- 277
Query: 239 TPIHVDAASGGFIAPFLYPDLEWDFR-LPLVKSINVSGHKYGLVYAGVGWVVWRTKDDLP 297
+HVDAA GG + + S+ + HK V ++ + K L
Sbjct: 278 --LHVDAAWGG--GLLMSRKHRHKLNGIERANSVTWNPHKMMGVLLQCSAILVKEKGILQ 333
Query: 298 DELVFHINYL 307
YL
Sbjct: 334 GCNQMCAGYL 343
>2jis_A Cysteine sulfinic acid decarboxylase; pyridoxal phosphate,
alternative splicing, pyridoxal phosphate (PLP),
structural genomics consortium (SGC); HET: PLP; 1.6A
{Homo sapiens}
Length = 515
Score = 58.9 bits (143), Expect = 9e-10
Identities = 47/309 (15%), Positives = 99/309 (32%), Gaps = 46/309 (14%)
Query: 22 YVRAAIPRFKMPDNSMPKEAAYQVINDELMLD---GNPR--------LNLASFVTTWMEP 70
++ + ++ ++ + + G+PR L+ + +
Sbjct: 73 ELKQLLD-LELRSQGESQKQILERCRAVIRYSVKTGHPRFFNQLFSGLDPHALAGRII-- 129
Query: 71 ECDKLVMASINKNYVDMDEYPVTTELQNRCVNMIAHLFNTPVADDKTAVGVGTVGSSEAI 130
S+N + + PV ++ + + L D G+ G S +
Sbjct: 130 ------TESLNTSQYTYEIAPVFVLMEEEVLRKLRALVGWSSGD-----GIFCPGGSISN 178
Query: 131 MLAGLAFKRKWQQKRKEQG-KPYDKPNIVTGANVQVCWEKFARYF---EVELKEVKLEEG 186
M A + + K++G + + T +K A + ++ VK +E
Sbjct: 179 MYAVNLARYQRYPDCKQRGLRTLPPLALFTSKECHYSIQKGAAFLGLGTDSVRVVKADER 238
Query: 187 YYVMNPVKAVELVDENT------ICVAAILGSTLTGEFEDVKLLHDLLTKKNEETGWDTP 240
M P + V+A G+T+ G F+ ++ + D+ W
Sbjct: 239 -GKMVPEDLERQIGMAEAEGAVPFLVSATSGTTVLGAFDPLEAIADVC---QRHGLW--- 291
Query: 241 IHVDAASGGFIAPFLYPDLEWDFR-LPLVKSINVSGHKYGLVYAGVGWVVWRTKDD-LPD 298
+HVDAA GG + L + S+ + HK ++ + + L
Sbjct: 292 LHVDAAWGG--SVLLSQTHRHLLDGIQRADSVAWNPHKLLAAGLQCSALLLQDTSNLLKR 349
Query: 299 ELVFHINYL 307
+YL
Sbjct: 350 CHGSQASYL 358
>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 = 46.0 bits (108), Expect = 2e-05
Identities = 52/371 (14%), Positives = 112/371 (30%), Gaps = 136/371 (36%)
Query: 6 TETDSREILSSTFASRYVRAAIPRFKMPDNSMPKEAAYQVINDELMLDGNPRL------N 59
T + + +L +Y+ +P+E L NPR +
Sbjct: 299 TPDEVKSLLL-----KYL-------DCRPQDLPREV----------LTTNPRRLSIIAES 336
Query: 60 LASFVTTW---MEPECDKLVMASINKNYVDMDEYPVTTELQNRCVNMIAHLF--NTPVAD 114
+ + TW CDKL +I ++ +++ E E + + + ++ +F + +
Sbjct: 337 IRDGLATWDNWKHVNCDKL--TTIIESSLNVLE---PAEYR-KMFDRLS-VFPPSAHI-- 387
Query: 115 DKTAVGVGTVGSSEAIMLAGLAFKRKWQQKRKEQGKPYDKPNIVTGANVQVCWEKFARYF 174
I+L+ + W D +V K +Y
Sbjct: 388 -------------PTILLSLI-----WFDV-----IKSDVMVVV---------NKLHKYS 415
Query: 175 EVELKEVKLEEGYYVMNPVKAVELVDENTICVAAILGSTLTGEFEDVKLLHD-LLTKKNE 233
VE K+ K E + + + L + E+ LH ++ N
Sbjct: 416 LVE-KQPK-ESTISIPS------------------IYLELKVKLENEYALHRSIVDHYNI 455
Query: 234 ETGWD----TPIHVDAASGGFIA---------------PFLYPDLEWDFRLPLVKSINVS 274
+D P ++D I ++ D + ++
Sbjct: 456 PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF------LEQ---- 505
Query: 275 GHKYGLVYAGVGWVVWRTKDDLPDELVFHINYLGSDQPTFT------LNFSKGSSQ--II 326
K + + W + + +L F+ Y+ + P + L+F + I
Sbjct: 506 --K--IRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLIC 561
Query: 327 AQYYQFIRLGF 337
++Y +R+
Sbjct: 562 SKYTDLLRIAL 572
>3hl2_A O-phosphoseryl-tRNA(SEC) selenium transferase; selenocysteine,
sepsecs, protein-RNA complex, alternative splicing,
cytoplasm, protein biosynthesis, pyridoxal phosphate,
selenium; HET: PLR SEP; 2.81A {Homo sapiens}
Length = 501
Score = 37.0 bits (85), Expect = 0.009
Identities = 31/223 (13%), Positives = 68/223 (30%), Gaps = 24/223 (10%)
Query: 100 CVNMIAHLFNTPVADDKTAVGVGTVGSSEAIMLAGLAFKRKWQQKRKEQGKPYDKPNIVT 159
+++ + V + + ++ L L + K + + I+
Sbjct: 118 TNSLVLDIIKLAGVHTVANCFVVPMATGMSLTLCFLTLRHKRPKAKY----------IIW 167
Query: 160 GANVQVCWEKFARY--FEVELKEVKLEEGYYVMNPVKAVELVDE----NTICVAAILGST 213
Q K FE + E LE + V E +C+ +
Sbjct: 168 PRIDQKSCFKSMITAGFEPVVIENVLEGDELRTDLKAVEAKVQELGPDCILCIHSTTSCF 227
Query: 214 LTGEFEDVKLLHDLLTKKNEETGWDTPIHVDAASGGFIAPFLYPDLEWDFRLPLVKSINV 273
+ ++ L + +D P V+ A G + ++ ++ R+ + +
Sbjct: 228 APRVPDRLEELAVICAN------YDIPHIVNNAYGVQSSKCMH-LIQQGARVGRIDAFVQ 280
Query: 274 SGHKYGLVYAGVGWVVWRTKDDLPDELVFHINYLGSDQPTFTL 316
S K +V G G ++ D E+ S P+ +
Sbjct: 281 SLDKNFMVPVG-GAIIAGFNDSFIQEISKMYPGRASASPSLDV 322
>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 = 32.7 bits (74), Expect = 0.25
Identities = 15/66 (22%), Positives = 26/66 (39%), Gaps = 4/66 (6%)
Query: 289 VWRTKDD-LPDELVFHINYLGSDQPT-FTLNFSKGSSQIIAQYYQFIRLGFEEITFTFIS 346
VW D+ D F I + + P T++F + I + Y + FE I +
Sbjct: 1645 VWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENY--SAMIFETIVDGKLK 1702
Query: 347 SLKVCP 352
+ K+
Sbjct: 1703 TEKIFK 1708
>1g5b_A Serine/threonine protein phosphatase; bacteriophage lambda, Ser/Thr
protein phosphatase, ppase, manganese, sulfate, viral
protein; 2.15A {Enterobacteria phage lambda} SCOP:
d.159.1.3
Length = 221
Score = 30.5 bits (69), Expect = 0.56
Identities = 8/80 (10%), Positives = 20/80 (25%)
Query: 220 DVKLLHDLLTKKNEETGWDTPIHVDAASGGFIAPFLYPDLEWDFRLPLVKSINVSGHKYG 279
+ ++ L + N LPL+ + KY
Sbjct: 77 EQMMIDGLSERGNVNHWLLNGGGWFFNLDYDKEILAKALAHKADELPLIIELVSKDKKYV 136
Query: 280 LVYAGVGWVVWRTKDDLPDE 299
+ +A + + + +
Sbjct: 137 ICHADYPFDEYEFGKPVDHQ 156
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 2.2
Identities = 12/87 (13%), Positives = 32/87 (36%), Gaps = 25/87 (28%)
Query: 127 SEAIMLAGLAFKRKWQQKRKEQGKPYD------KPNIVTGANVQVCWEKFARYFEVELKE 180
E+I RKW+++++++ + D + A E++ + ++++
Sbjct: 84 PESI--------RKWREEQRKRLQELDAASKVMEQEWREKAKKD--LEEWNQRQSEQVEK 133
Query: 181 VKLEEGYYVMNPVKAVELV---DENTI 204
K+ N + D + I
Sbjct: 134 NKIN------NRIADKAFYQQPDADII 154
>2e7j_A SEP-tRNA:Cys-tRNA synthase; seven-stranded BETE-strand, lyase,
structural genomics; HET: PLP; 2.40A {Archaeoglobus
fulgidus} SCOP: c.67.1.9 PDB: 2e7i_A*
Length = 371
Score = 28.1 bits (63), Expect = 5.1
Identities = 31/194 (15%), Positives = 57/194 (29%), Gaps = 54/194 (27%)
Query: 123 TVGSSEAIMLAGLAFKRKWQQKRKEQGKPYDKPNIVTGAN----VQVCWEKFARYFEVEL 178
T G+ EA + K +V N V E+ + +
Sbjct: 75 TNGAREAKFAVMHSL-----------AKKDAW--VVMDENCHYSSYVAAER----AGLNI 117
Query: 179 KEVKL-EEGYYVMNPVKAVELVDENTICVAAIL-----GSTLTGEFEDVKLLHDLLTKKN 232
V + Y + P + ++E +L G DVK + + ++ +
Sbjct: 118 ALVPKTDYPDYAITPENFAQTIEETKKRGEVVLALITYPDGNYGNLPDVKKIAKVCSEYD 177
Query: 233 EETGWDTPIHVDAASGGFIAPFLYPDLEWDFRLPLVKSINV-----SGHKYGLVYAGVGW 287
P+ V+ A + +K I SGHK A G
Sbjct: 178 ------VPLLVNGAYA---IGRMPVS---------LKEIGADFIVGSGHK---SMAASGP 216
Query: 288 V-VWRTKDDLPDEL 300
+ V K++ + +
Sbjct: 217 IGVMGMKEEWAEIV 230
>1gqe_A Release factor 2, RF2; protein synthesis, ribosome, macromolecular
mimicry, translation; 1.81A {Escherichia coli} SCOP:
e.38.1.1 PDB: 1mi6_A 1ml5_Z*
Length = 365
Score = 27.6 bits (62), Expect = 7.4
Identities = 16/75 (21%), Positives = 30/75 (40%), Gaps = 8/75 (10%)
Query: 168 EKFARYFEVELKEVKLEEGYYVM-------NPVKAVELVDENTICVAAILG-STLTGEFE 219
+ Y + + K+ +LEE + P +A L E + A + + E
Sbjct: 19 DVLRGYLDYDAKKERLEEVNAELEQPDVWNEPERAQALGKERSSLEAVVDTLDQMKQGLE 78
Query: 220 DVKLLHDLLTKKNEE 234
DV L +L + ++E
Sbjct: 79 DVSGLLELAVEADDE 93
>2x7q_A Ca3427, possible thiamine biosynthesis enzyme; unknown function;
2.00A {Candida albicans} PDB: 2x7p_A
Length = 321
Score = 27.0 bits (59), Expect = 9.7
Identities = 20/113 (17%), Positives = 37/113 (32%), Gaps = 15/113 (13%)
Query: 112 VADDK--TAVGVGTVGSSEAIMLAGLAFKRKWQQKRKEQGKPYDKPNIVTGANVQ----- 164
V D K +GV +GS +M LA + + Q + N+ N++
Sbjct: 112 VTDAKQLKRIGVSRIGSGSYVMSFVLAHQLGVPSFDQFQVL-SNFKNLRDSVNLKDGVEG 170
Query: 165 ---VCWEKFARYFEVELKEVKLEEGYYVMNPVKAV----ELVDENTICVAAIL 210
WE F + E+K + Y V + + + + +
Sbjct: 171 SDAFMWEYFTSKKYYDNHEIKQIDQIYTPWSSWVVATSSDSLQAKSDVIKNFI 223
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
0.320 0.136 0.410
Gapped
Lambda K H
0.267 0.0679 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,594,080
Number of extensions: 340964
Number of successful extensions: 819
Number of sequences better than 10.0: 1
Number of HSP's gapped: 776
Number of HSP's successfully gapped: 28
Length of query: 356
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 261
Effective length of database: 4,049,298
Effective search space: 1056866778
Effective search space used: 1056866778
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 (26.2 bits)