RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2072
(294 letters)
>3i4u_A ATP-dependent RNA helicase DHX8; splicing, ATP-binding, hydrolase,
mRNA processing, splicing, nucleotide-binding, nucleus,
phosphoprotein, SPLI; 2.10A {Homo sapiens}
Length = 270
Score = 153 bits (390), Expect = 2e-45
Identities = 38/99 (38%), Positives = 59/99 (59%), Gaps = 4/99 (4%)
Query: 90 RPNEAKKAADDAKMRFAHIDGDHLTLLNVYHAFKQNQEDPQWCYDNFVNYRSLKSADNVR 149
RP + + AD K +F +GDHLTLL VY+++K N+ WCY+NF+ RSL+ A ++R
Sbjct: 86 RPKDKQALADQKKAKFHQTEGDHLTLLAVYNSWKNNKFSNPWCYENFIQARSLRRAQDIR 145
Query: 150 QQLSRIMDRFNLKRSSTEFTSKDYYINIRKSLVTGFFMQ 188
+Q+ IMDR L S + ++K++ +GFF
Sbjct: 146 KQMLGIMDRHKLDVVSCG----KSTVRVQKAICSGFFRN 180
Score = 90.0 bits (224), Expect = 2e-21
Identities = 21/63 (33%), Positives = 35/63 (55%), Gaps = 4/63 (6%)
Query: 207 QEDPQWCYDNFVNYRSLKSADNVRQQLSRIMDRFNLKRSSTEFTSKDYYINIRKSLVTGF 266
+ WCY+NF+ RSL+ A ++R+Q+ IMDR L S + ++K++ +GF
Sbjct: 122 KFSNPWCYENFIQARSLRRAQDIRKQMLGIMDRHKLDVVSCG----KSTVRVQKAICSGF 177
Query: 267 FMQ 269
F
Sbjct: 178 FRN 180
>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase,
ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET:
ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*
Length = 773
Score = 156 bits (397), Expect = 2e-43
Identities = 58/103 (56%), Positives = 79/103 (76%), Gaps = 4/103 (3%)
Query: 90 RPNEAKKAADDAKMRFAHIDGDHLTLLNVYHAFKQNQED----PQWCYDNFVNYRSLKSA 145
RP + KK ADDAK FAH DGDH+TLLNVYHAFK ++ +WC D+++NYRSL +A
Sbjct: 557 RPTKDKKRADDAKNIFAHPDGDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLSAA 616
Query: 146 DNVRQQLSRIMDRFNLKRSSTEFTSKDYYINIRKSLVTGFFMQ 188
DN+R QL R+M+R+NL+ ++T++ S Y+ NIRK+L +GFFMQ
Sbjct: 617 DNIRSQLERLMNRYNLELNTTDYESPKYFDNIRKALASGFFMQ 659
Score = 96.6 bits (241), Expect = 1e-22
Identities = 32/64 (50%), Positives = 50/64 (78%)
Query: 206 DQEDPQWCYDNFVNYRSLKSADNVRQQLSRIMDRFNLKRSSTEFTSKDYYINIRKSLVTG 265
+ +WC D+++NYRSL +ADN+R QL R+M+R+NL+ ++T++ S Y+ NIRK+L +G
Sbjct: 596 EYGIHKWCRDHYLNYRSLSAADNIRSQLERLMNRYNLELNTTDYESPKYFDNIRKALASG 655
Query: 266 FFMQ 269
FFMQ
Sbjct: 656 FFMQ 659
>3bc8_A O-phosphoseryl-tRNA(SEC) selenium transferase; disorder-order
transition, phosphate-loop, pyridoxal phospha
selenocysteine synthase (SECS, sepsecs); HET: LLP; 1.65A
{Mus musculus} SCOP: c.67.1.9 PDB: 3bca_A* 3bcb_A*
Length = 450
Score = 120 bits (303), Expect = 2e-31
Identities = 48/88 (54%), Positives = 70/88 (79%)
Query: 3 LHPIVIETLMSGDELRTDLVSLESQMATLGSDNIVCVLTTTSCFAPRVADNLDPIAALCQ 62
P+VIE ++ GDELRTDL ++E+++ LG ++I+C+ +TT+CFAPRV D L+ +A +C
Sbjct: 166 FEPVVIENVLEGDELRTDLKAVEAKIQELGPEHILCLHSTTACFAPRVPDRLEELAVICA 225
Query: 63 RYNIPHVINNAYGLQSTRLMKLIQEAAR 90
Y+IPHV+NNAYGLQS++ M LIQ+ AR
Sbjct: 226 NYDIPHVVNNAYGLQSSKCMHLIQQGAR 253
>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 = 117 bits (293), Expect = 6e-30
Identities = 48/88 (54%), Positives = 69/88 (78%)
Query: 3 LHPIVIETLMSGDELRTDLVSLESQMATLGSDNIVCVLTTTSCFAPRVADNLDPIAALCQ 62
P+VIE ++ GDELRTDL ++E+++ LG D I+C+ +TTSCFAPRV D L+ +A +C
Sbjct: 184 FEPVVIENVLEGDELRTDLKAVEAKVQELGPDCILCIHSTTSCFAPRVPDRLEELAVICA 243
Query: 63 RYNIPHVINNAYGLQSTRLMKLIQEAAR 90
Y+IPH++NNAYG+QS++ M LIQ+ AR
Sbjct: 244 NYDIPHIVNNAYGVQSSKCMHLIQQGAR 271
>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 = 88.6 bits (219), Expect = 6e-20
Identities = 27/91 (29%), Positives = 57/91 (62%), Gaps = 1/91 (1%)
Query: 1 MSLHPIVIETLMSGDELRTDLVSLESQMAT-LGSDNIVCVLTTTSCFAPRVADNLDPIAA 59
+ ++ ++ET++ GD + + +E+ + + N CVL+T + F PR +D++ IA
Sbjct: 196 VGMNMRLVETVLDGDRVYVPVEDIENAIKKEIELGNRPCVLSTLTFFPPRNSDDIVEIAK 255
Query: 60 LCQRYNIPHVINNAYGLQSTRLMKLIQEAAR 90
+C+ Y+IPH+IN AY +Q+ ++ +++A +
Sbjct: 256 ICENYDIPHIINGAYAIQNNYYLEKLKKAFK 286
>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 = 45.6 bits (107), Expect = 1e-05
Identities = 34/260 (13%), Positives = 90/260 (34%), Gaps = 50/260 (19%)
Query: 50 VADNLDPIAALCQRYNIPHVINNAYGLQSTRLMKLIQEAARPNEAKKAADDAKMRFAHID 109
D D ++ + I H+I + + T + + + +K ++ +
Sbjct: 35 CKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEV------LR 88
Query: 110 GDHLTLLNVYHAFKQNQEDPQWCYDNFVNYRSLKSADNVRQQLSRIMDRFNLKRSSTEFT 169
++ L++ K Q P ++ R DN ++ ++N+ R
Sbjct: 89 INYKFLMS---PIKTEQRQPSMMTRMYIEQRDRLYNDN------QVFAKYNVSR------ 133
Query: 170 SKDYYINIRKSLVTGFFMQL----IIVLAYPI-----SSLPTVSLDQEDPQWCYDN--F- 217
Y+ +R++L ++L +++ + + + Q D F
Sbjct: 134 -LQPYLKLRQAL-----LELRPAKNVLI-DGVLGSGKTWVALDVCLSYKVQCKMDFKIFW 186
Query: 218 VNYRSLKSADNVRQQLSRIMDRFNLKRSSTEFTSKDYYINIR--KSLVTGFFMQDYY--- 272
+N ++ S + V + L +++ + + +S S + + I ++ + Y
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC 246
Query: 273 --I--NIR-KSLVTGFFMQC 287
+ N++ F + C
Sbjct: 247 LLVLLNVQNAKAWNAFNLSC 266
Score = 36.8 bits (84), Expect = 0.010
Identities = 54/311 (17%), Positives = 98/311 (31%), Gaps = 64/311 (20%)
Query: 7 VIETLMSGDELRTDLVSLESQMATLGSDNIVCVL---TTTSCFA-PRVADNLDP-----I 57
V + L + T +SL+ TL D + +L PR +P I
Sbjct: 277 VTDFLSAA---TTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSII 333
Query: 58 AALCQRYNIPHVINNAYGLQSTRLMKLIQ---EAARPNEAKKAADDAKMRF---AHIDGD 111
A + + +N + +L +I+ P E +K D + F AHI
Sbjct: 334 AESIR--DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV-FPPSAHIPTI 390
Query: 112 HLTLL-------------NVYH----AFKQNQEDPQWCYDNFVNYRSLKSADNVRQQL-S 153
L+L+ N H KQ +E Y LK L
Sbjct: 391 LLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI---YLELKVKLENEYALHR 447
Query: 154 RIMDRFNLKRSSTEFTSKDYYINIRKSLVTGFFMQLIIVLAYPISSLPTVSLDQEDPQWC 213
I+D +N+ ++ F S D + + +F I + + ++
Sbjct: 448 SIVDHYNIPKT---FDSDD----LIPPYLDQYFYSHI---GHHLKNIEHPERMTLFRMV- 496
Query: 214 YDNFVNYR----SLKSADNVRQQLSRIMDRFN-LKRSSTEFTSKD-YYINIRKSLVTGFF 267
F+++R ++ I++ LK D Y + +++ F
Sbjct: 497 ---FLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILD--F 551
Query: 268 MQDYYINIRKS 278
+ N+ S
Sbjct: 552 LPKIEENLICS 562
>1ax4_A Tryptophanase; tryptophan biosynthesis, tryptophan indole-lyase,
pyridoxal 5'-phosphate, monovalent cation binding site;
HET: LLP; 2.10A {Proteus vulgaris} SCOP: c.67.1.2
Length = 467
Score = 40.9 bits (95), Expect = 3e-04
Identities = 18/95 (18%), Positives = 42/95 (44%), Gaps = 7/95 (7%)
Query: 20 DLVSLESQMATLGSDNIVCVLTTTSCFA----PRVADNLDPIAALCQRYNIPHVINNAYG 75
D+ L+ +A G+DNIV +++T +C + P NL + + +++ I V+++A
Sbjct: 168 DIKKLKENIAQHGADNIVAIVSTVTCNSAGGQPVSMSNLKEVYEIAKQHGIFVVMDSARF 227
Query: 76 LQSTRLMKLIQEAARPNEAKKAADDAKMRFAHIDG 110
++ +K + + + + D
Sbjct: 228 CENAYFIKARDPKY---KNATIKEVIFDMYKYADA 259
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 39.0 bits (91), Expect = 0.001
Identities = 8/54 (14%), Positives = 15/54 (27%), Gaps = 2/54 (3%)
Query: 90 RPNEAKKAADDAKMRFAHIDGDHLTLLNVYHAFKQNQEDPQWCYDNFVNYRSLK 143
PNE ++ ++ G L + +F + S K
Sbjct: 379 GPNEHLLLENNQEIEVWTRQGQRRVLKPRWL--DGRITSDHLNLKSFKEFASGK 430
>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 = 38.5 bits (89), Expect = 0.002
Identities = 22/110 (20%), Positives = 49/110 (44%), Gaps = 27/110 (24%)
Query: 169 TSKDYYINIRKSLVTGFFMQLIIVLAYPISSL-PTVSLDQED-------PQWCYDNFVNY 220
+ + +++++RK++ FF+ + AYP +SL P++ D + P ++
Sbjct: 288 SWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM------LSI 341
Query: 221 RSLKSADNVRQQLSRIMDRFNLKRSSTEFTSKDYYI---NIRKSLV-TGF 266
+L ++Q+ +++ N + K I N K+LV +G
Sbjct: 342 SNLT-----QEQVQDYVNKTNSHLPA----GKQVEISLVNGAKNLVVSGP 382
Score = 35.0 bits (80), Expect = 0.032
Identities = 28/165 (16%), Positives = 54/165 (32%), Gaps = 63/165 (38%)
Query: 149 RQQLSRIMDRFNLKRSSTEFTSKDYYINIRKSLVTG---FFMQLIIVLAYPISSLPTVSL 205
++Q+ +++ N + + + I SLV G V++ P SL L
Sbjct: 346 QEQVQDYVNKTNSHLPAGK------QVEI--SLVNGAKNL------VVSGPPQSL--YGL 389
Query: 206 DQEDPQWCYDNFVNYRSLKSADNVRQQLSRI---------MDRF---------------- 240
+ R K+ + Q SRI +RF
Sbjct: 390 NL-----------TLRKAKAPSGLDQ--SRIPFSERKLKFSNRFLPVASPFHSHLLVPAS 436
Query: 241 -----NLKRSSTEFTSKDYYINIRKSLVTGFFMQDYYINIRKSLV 280
+L +++ F +KD I + G ++ +I + +V
Sbjct: 437 DLINKDLVKNNVSFNAKDIQIPV-YDTFDGSDLRVLSGSISERIV 480
Score = 33.9 bits (77), Expect = 0.074
Identities = 44/306 (14%), Positives = 91/306 (29%), Gaps = 109/306 (35%)
Query: 17 LRTDLVSLESQMATLGSDNIVCVLTTTSCFAPRVADNLDPIAALCQRYNIPHVINNAYGL 76
L L E+ L ++I + A L +I N
Sbjct: 84 LNLCLTEFENCY--LEGNDIHAL-----------AAKLLQENDTTLV-KTKELIKNYI-- 127
Query: 77 QSTRLMKLIQEAARPNEAK--KAADDAKMRFAHI---DGDHLTLLNVYHAFKQNQEDPQW 131
+ + K + + + + +A + + I G+ + Y F++ ++
Sbjct: 128 TARIMAK--RPFDKKSNSALFRAVGEGNAQLVAIFGGQGN----TDDY--FEELRD---- 175
Query: 132 CYDNFVNYRSLKSA--DNVRQQLSRIMDRFNLKRSSTEFTSKDYY---INIRKSLV---- 182
Y Y L + LS + T ++ + +NI + L
Sbjct: 176 LYQT---YHVLVGDLIKFSAETLSEL--------IRTTLDAEKVFTQGLNILEWLENPSN 224
Query: 183 ---TGFFMQLIIVLAYPISSLPTVSLDQEDPQWCYDNFVNY----RSL-KSADNVRQQLS 234
+ L+ PIS P + + Q +Y + L + +R L
Sbjct: 225 TPDKDYL------LSIPIS-CPLIGVIQ---------LAHYVVTAKLLGFTPGELRSYL- 267
Query: 235 RIMDRFNLKRSSTEFTSKDYYINIRKSLVTGFFM------QDYYINIRKSLVTGFFMQCL 288
+ +T + LVT + + +++++RK++ FF
Sbjct: 268 ---------KGAT---------GHSQGLVTAVAIAETDSWESFFVSVRKAITVLFF---- 305
Query: 289 LGIIGF 294
IG
Sbjct: 306 ---IGV 308
>3l2p_A DNA ligase 3; DNA ligase, DNA repair, ATP-binding, cell cycle, cell
divisi damage; HET: DNA AMP; 3.00A {Homo sapiens}
Length = 579
Score = 35.9 bits (83), Expect = 0.015
Identities = 16/87 (18%), Positives = 24/87 (27%), Gaps = 14/87 (16%)
Query: 52 DNLDPIAALCQRYNIPHVINNAYGLQSTRLMKLIQEAARPNEAKKAAD------------ 99
D L + +P VI Y L +++KL N A D
Sbjct: 43 DGFHGDVYLTVKLLLPGVIKTVYNLNDKQIVKLFSRIFNCNPDDMARDLEQGDVSETIRV 102
Query: 100 --DAKMRFAHIDGDHLTLLNVYHAFKQ 124
+ F LT+ V +
Sbjct: 103 FFEQSKSFPPAAKSLLTIQEVDEFLLR 129
>2ez2_A Beta-tyrosinase, tyrosine phenol-lyase; PLP-dependent enzyme,
pyridoxal-5'-phosphate, domain lyase; 1.85A {Citrobacter
freundii} PDB: 2ez1_A 2vlf_A* 2vlh_A* 2yct_A* 1tpl_A
2tpl_A* 2ycn_A* 2yhk_A* 2ycp_A* 1c7g_A*
Length = 456
Score = 35.1 bits (80), Expect = 0.023
Identities = 18/95 (18%), Positives = 35/95 (36%), Gaps = 7/95 (7%)
Query: 20 DLVSLESQMATLGSDNIVCVLTTTSCF----APRVADNLDPIAALCQRYNIPHVINNAYG 75
DL L+ + G++NI + + P N+ + L + + I +
Sbjct: 159 DLKKLQKLIDEKGAENIAYICLAVTVNLAGGQPVSMANMRAVRELTEAHGIKVFYDAT-- 216
Query: 76 LQSTRLMKLIQEAARPNEAKKAADDAKMRFAHIDG 110
+ I+E + E K A+ F++ DG
Sbjct: 217 -RCVENAYFIKEQEQGFENKSIAEIVHEMFSYADG 250
>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 = 33.5 bits (77), Expect = 0.069
Identities = 18/72 (25%), Positives = 27/72 (37%), Gaps = 21/72 (29%)
Query: 12 MSGDELRTDLVSLESQ-------MATLGSDNIVCVLTTTSCFAPRVADNLDPIAALCQRY 64
M G L + ++ + TLG TT SC D LD + ++
Sbjct: 216 MRGAALEKAIEQDVAEGLIPFYAVVTLG--------TTNSC----AFDYLDECGPVGNKH 263
Query: 65 NI-PHVINNAYG 75
N+ HV + AY
Sbjct: 264 NLWIHV-DAAYA 274
>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 = 33.4 bits (77), Expect = 0.073
Identities = 16/72 (22%), Positives = 29/72 (40%), Gaps = 21/72 (29%)
Query: 12 MSGDELRTDLVSLESQ-------MATLGSDNIVCVLTTTSCFAPRVADNLDPIAALCQRY 64
M +L + +++ + T G TT D+LD IA + ++
Sbjct: 240 MDITKLDEVIAQAKAEGLIPFAIVGTAG--------TTDHG----AIDDLDFIADMAVKH 287
Query: 65 NI-PHVINNAYG 75
++ HV + AYG
Sbjct: 288 DMWMHV-DGAYG 298
>4e1o_A HDC, histidine decarboxylase; lyase; HET: PLP PVH; 1.80A {Homo
sapiens}
Length = 481
Score = 33.2 bits (76), Expect = 0.091
Identities = 16/72 (22%), Positives = 27/72 (37%), Gaps = 21/72 (29%)
Query: 12 MSGDELRTDLVSLESQ-------MATLGSDNIVCVLTTTSCFAPRVADNLDPIAALCQRY 64
+ G+ L+ + + + ATLG TT C D L + +C R
Sbjct: 223 LRGEALQKAIEEDKQRGLVPVFVCATLG--------TTGVC----AFDCLSELGPICARE 270
Query: 65 NI-PHVINNAYG 75
+ H+ + AY
Sbjct: 271 GLWLHI-DAAYA 281
>2okj_A Glutamate decarboxylase 1; PLP-dependent decarboxylase, lyase; HET:
LLP PLZ; 2.30A {Homo sapiens} PDB: 2okk_A*
Length = 504
Score = 33.1 bits (76), Expect = 0.093
Identities = 15/72 (20%), Positives = 28/72 (38%), Gaps = 21/72 (29%)
Query: 12 MSGDELRTDLVSLESQ-------MATLGSDNIVCVLTTTSCFAPRVADNLDPIAALCQRY 64
+ + ++ + + AT G TT D + IA +C++Y
Sbjct: 227 IIPADFEAKILEAKQKGYVPFYVNATAG--------TTVYG----AFDPIQEIADICEKY 274
Query: 65 NI-PHVINNAYG 75
N+ HV + A+G
Sbjct: 275 NLWLHV-DAAWG 285
>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 = 33.2 bits (76), Expect = 0.11
Identities = 19/72 (26%), Positives = 28/72 (38%), Gaps = 21/72 (29%)
Query: 12 MSGDELRTDLVSLESQ-------MATLGSDNIVCVLTTTSCFAPRVADNLDPIAALCQRY 64
M L+ L ++ +ATLG TT+ C DNL + +C
Sbjct: 217 MRASALQEALERDKAAGLIPFFVVATLG--------TTSCC----SFDNLLEVGPICHEE 264
Query: 65 NI-PHVINNAYG 75
+I HV + AY
Sbjct: 265 DIWLHV-DAAYA 275
>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 = 32.7 bits (75), Expect = 0.12
Identities = 19/72 (26%), Positives = 30/72 (41%), Gaps = 21/72 (29%)
Query: 12 MSGDELRTDLVSLESQ-------MATLGSDNIVCVLTTTSCFAPRVADNLDPIAALCQRY 64
M ++L + E++ AT G TT D L+ IA +CQR+
Sbjct: 241 MVPEDLERQIGMAEAEGAVPFLVSATSG--------TTVLG----AFDPLEAIADVCQRH 288
Query: 65 NI-PHVINNAYG 75
+ HV + A+G
Sbjct: 289 GLWLHV-DAAWG 299
>3gde_A DNA ligase; DNA-binding domain, adenylation domain, OB-fold
domain, ATP-binding, cell cycle, cell division, DNA
damage, DNA recombination; HET: DNA; 2.30A
{Archaeoglobus fulgidus}
Length = 558
Score = 32.3 bits (74), Expect = 0.17
Identities = 4/49 (8%), Positives = 14/49 (28%)
Query: 51 ADNLDPIAALCQRYNIPHVINNAYGLQSTRLMKLIQEAARPNEAKKAAD 99
+L + P G+ L + ++ + ++ +
Sbjct: 39 ERDLYDVVLFITGKVYPPWDERELGVGIGLLYEALENVSGVKRSEIESM 87
>2oqx_A Tryptophanase; lyase, pyridoxal phosphate, tryptophan catabolism;
HET: CME EPE; 1.90A {Escherichia coli} SCOP: c.67.1.2
PDB: 2c44_A 2v1p_A* 2v0y_A*
Length = 467
Score = 32.3 bits (73), Expect = 0.18
Identities = 19/101 (18%), Positives = 39/101 (38%), Gaps = 19/101 (18%)
Query: 20 DLVSLESQMATLGSDNIVCVLTTTSCF----APRVADNLDPIAALCQRYNIPHVI----- 70
DL LE + +G +N+ ++ T + P NL + ++ ++Y+IP V+
Sbjct: 168 DLEGLERGIEEVGPNNVPYIVATITSNSAGGQPVSLANLKAMYSIAKKYDIPVVMDSARF 227
Query: 71 -NNAYGLQSTRLMKLIQEAARPNEAKKAADDAKMRFAHIDG 110
NAY I++ + + + + D
Sbjct: 228 AENAY---------FIKQREAEYKDWTIEQITRETYKYADM 259
>3mc6_A Sphingosine-1-phosphate lyase; carboxy-lyase activity, pyridoxyl
phosphate; HET: LLP; 3.15A {Saccharomyces cerevisiae}
Length = 497
Score = 31.4 bits (71), Expect = 0.36
Identities = 13/65 (20%), Positives = 31/65 (47%), Gaps = 6/65 (9%)
Query: 12 MSGDELRTDLVSLESQMATLGSDNIVCVLTTTSCFAPRVADNLDPIAALCQRYNIP-HVI 70
+ + DL ++ + N V ++ + F +AD+++ + + Q+Y +P HV
Sbjct: 187 LDPTTYQVDL----GKVKKFINKNTVLLVGSAPNFPHGIADDIEGLGKIAQKYKLPLHV- 241
Query: 71 NNAYG 75
++ G
Sbjct: 242 DSCLG 246
>3g7q_A Valine-pyruvate aminotransferase; NP_462565.1, structur genomics,
joint center for structural genomics, JCSG, prote
structure initiative; HET: MSE; 1.80A {Salmonella
typhimurium}
Length = 417
Score = 30.7 bits (70), Expect = 0.58
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 51 ADNLDPIAALCQRYNIPHVINNAYGL 76
+ L + L ++NIP VI+NAYG+
Sbjct: 199 DEELMKLDRLANQHNIPLVIDNAYGV 224
>1x9n_A DNA ligase I; 5'-adenylated nicked DNA, protein-DNA complex, L
complex; HET: DNA DOC AMP; 3.00A {Homo sapiens} SCOP:
a.235.1.1 b.40.4.6 d.142.2.1
Length = 688
Score = 30.7 bits (69), Expect = 0.68
Identities = 8/44 (18%), Positives = 15/44 (34%)
Query: 52 DNLDPIAALCQRYNIPHVINNAYGLQSTRLMKLIQEAARPNEAK 95
+L P+ L + P G+ L+K + +A
Sbjct: 94 PDLLPVLYLSLNHLGPPQQGLELGVGDGVLLKAVAQATGRQLES 137
>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 = 30.3 bits (68), Expect = 0.72
Identities = 12/50 (24%), Positives = 20/50 (40%)
Query: 26 SQMATLGSDNIVCVLTTTSCFAPRVADNLDPIAALCQRYNIPHVINNAYG 75
+ M + N V V + + V D + IAAL + I ++ G
Sbjct: 230 AAMREAITPNTVVVAGSAPGYPHGVVDPIPEIAALAAEHGIGCHVDACLG 279
>2cfm_A Thermostable DNA ligase; protein-nucleotide complex, cell cycle,
cell division, DNA damage, DNA recombination, DNA
repair, DNA replication; HET: AMP; 1.8A {Pyrococcus
furiosus} PDB: 3rr5_A*
Length = 561
Score = 29.7 bits (67), Expect = 1.4
Identities = 9/45 (20%), Positives = 16/45 (35%)
Query: 51 ADNLDPIAALCQRYNIPHVINNAYGLQSTRLMKLIQEAARPNEAK 95
D+L+ I L P G+ L+K + A + +
Sbjct: 35 DDHLEFIPYLILGEVFPEWDERELGVGEKLLIKAVAMATGIDAKE 79
>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 = 29.2 bits (66), Expect = 1.8
Identities = 6/49 (12%), Positives = 19/49 (38%), Gaps = 1/49 (2%)
Query: 22 VSLESQMATLGSDNIVCVLTTTSCFAPRVADNLDPIAALCQRYNIP-HV 69
+ + + ++ ++ DN++ ++ + + NI HV
Sbjct: 158 IDEKFVKDAVEDYDVDGIIGIAGTTELGTIDNIEELSKIAKENNIYIHV 206
>3aek_B Light-independent protochlorophyllide reductase S; iron/sulfur
cluster, oxidoreductase, bacteriochlorophyll
biosynthesis; HET: PMR; 2.30A {Rhodobacter capsulatus}
PDB: 3aeq_B* 3aer_B 3aes_B* 3aeu_B 3aet_B
Length = 525
Score = 29.0 bits (65), Expect = 2.1
Identities = 11/57 (19%), Positives = 21/57 (36%), Gaps = 2/57 (3%)
Query: 60 LCQRYNIPHVINNAYGLQSTR--LMKLIQEAARPNEAKKAADDAKMRFAHIDGDHLT 114
L + P G+ +TR L ++ + P ++ A +D +LT
Sbjct: 223 LERACKQPFTKIVPIGVGATRDFLAEVSKITGLPVVTDESTLRQPWWSASVDSTYLT 279
>3if2_A Aminotransferase; YP_265399.1, structura genomics, joint center for
structural genomics, JCSG, prote structure initiative,
PSI-2; HET: PLP; 2.50A {Psychrobacter arcticus 273-4}
Length = 444
Score = 28.5 bits (64), Expect = 2.6
Identities = 10/25 (40%), Positives = 19/25 (76%)
Query: 52 DNLDPIAALCQRYNIPHVINNAYGL 76
+ + +A + +RY+IP +I+NAYG+
Sbjct: 226 EEMAHLAEIAKRYDIPLIIDNAYGM 250
>3arc_E Cytochrome B559 subunit alpha; PSII, membrane-protein complex,
transmembrane alpha-helix, E transport, photosynthesis;
HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG
HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 1izl_E*
3kzi_E* 3bz1_E* 1s5l_E* 1w5c_E* 2axt_E* 3bz2_E* 3prq_E*
3prr_E* 3a0b_E* 3a0h_E*
Length = 83
Score = 26.5 bits (58), Expect = 3.3
Identities = 9/39 (23%), Positives = 15/39 (38%)
Query: 133 YDNFVNYRSLKSADNVRQQLSRIMDRFNLKRSSTEFTSK 171
YD F R ++ + + DRF K+ F +
Sbjct: 43 YDVFGTPRPDSYYAQEQRSIPLVTDRFEAKQQVETFLEQ 81
Score = 26.5 bits (58), Expect = 3.3
Identities = 9/39 (23%), Positives = 15/39 (38%)
Query: 214 YDNFVNYRSLKSADNVRQQLSRIMDRFNLKRSSTEFTSK 252
YD F R ++ + + DRF K+ F +
Sbjct: 43 YDVFGTPRPDSYYAQEQRSIPLVTDRFEAKQQVETFLEQ 81
>1whr_A Hypothetical KIAA1002 protein; R3H domain, structural genomics,
riken structural genomics/proteomics initiative, RSGI,
unknown function; NMR {Homo sapiens} SCOP: d.68.7.1
Length = 124
Score = 27.0 bits (59), Expect = 4.6
Identities = 12/72 (16%), Positives = 27/72 (37%), Gaps = 4/72 (5%)
Query: 1 MSLHPIVIETLMSGDELRTDLVSLESQMATLGSDNIVCVLTTTSCFAPRVADNLDPIAAL 60
+ LH ++ TL R L+ LE ++ +DN F + + + +
Sbjct: 13 IDLHEFLVNTLKKNPRDRMMLLKLEQEILEFINDNN----NQFKKFPQMTSYHRMLLHRV 68
Query: 61 CQRYNIPHVINN 72
+ + H ++
Sbjct: 69 AAYFGMDHNVDQ 80
>2efe_A Similarity to vacuolar protein sorting-associated VPS9; GEF,
GTPase, VPS9, nucleotide, transport protein; HET: GNH;
2.08A {Arabidopsis thaliana} PDB: 2efd_A 2efc_A* 2efh_A*
Length = 267
Score = 27.4 bits (60), Expect = 6.3
Identities = 7/62 (11%), Positives = 21/62 (33%), Gaps = 3/62 (4%)
Query: 204 SLDQEDPQWCYDNFVNYRSLKSADNVRQQLSRIMDRFNLKRSSTEFTSK---DYYINIRK 260
S++ D +F+ SA + + + + F+ E +++ +
Sbjct: 2 SMENTDVFLGLHDFLERMRKPSAGDFVKSIKSFIVSFSNNAPDPEKDCAMVQEFFSKMEA 61
Query: 261 SL 262
+
Sbjct: 62 AF 63
>3dr4_A Putative perosamine synthetase; deoxysugar, pyridoxal phosphate,
aspartate aminotransferase, O-antigen; HET: G4M; 1.60A
{Caulobacter crescentus} PDB: 3dr7_A* 3bn1_A*
Length = 391
Score = 27.1 bits (61), Expect = 7.2
Identities = 7/18 (38%), Positives = 13/18 (72%), Gaps = 1/18 (5%)
Query: 53 NLDPIAALCQRYNIPHVI 70
++DPI + +R+N+ VI
Sbjct: 159 DMDPILEVARRHNLL-VI 175
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
0.324 0.136 0.399
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: 4,284,924
Number of extensions: 241644
Number of successful extensions: 854
Number of sequences better than 10.0: 1
Number of HSP's gapped: 841
Number of HSP's successfully gapped: 48
Length of query: 294
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 201
Effective length of database: 4,105,140
Effective search space: 825133140
Effective search space used: 825133140
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 (21.5 bits)
S2: 57 (25.8 bits)