RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 014311
(427 letters)
>2g6v_A Riboflavin biosynthesis protein RIBD; RIBD APO structure,
structural genomics, structural proteomi europe, spine,
hydrolase, oxidoreductase; 2.60A {Escherichia coli} PDB:
2obc_A* 2o7p_A*
Length = 402
Score = 324 bits (834), Expect = e-108
Identities = 122/394 (30%), Positives = 183/394 (46%), Gaps = 73/394 (18%)
Query: 76 DDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGE 135
D +YM R ++LA + +T PNP VGCVIVKDG+IVGEG+H +AG+PHAEV ALR AGE
Sbjct: 29 QDEYYMARALKLAQRGRFTTHPNPNVGCVIVKDGEIVGEGYHQRAGEPHAEVHALRMAGE 88
Query: 136 LAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGID 195
A+GATAYV+LEPC+H+GRTPPC +ALI A V +VV M DPNP V +GL RL+ AGID
Sbjct: 89 KAKGATAYVTLEPCSHHGRTPPCCDALIAAGVARVVASMQDPNPQVAGRGLYRLQQAGID 148
Query: 196 VTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEGVAESGGYYSQ--- 252
V+ G+ ++LN+ F+ R+ TG P+ L+ S++G GE SQ
Sbjct: 149 VSHGLMMSEAEQLNKGFLKRMRTGFPYIQLKLGASLDGRTAMASGE---------SQWIT 199
Query: 253 ----------LLQEYDAIILSA--------------SSTKKYSIPASQEPDANQPFRIIT 288
L + AI+ S+ S + + + + QP RI+
Sbjct: 200 SPQARRDVQLLRAQSHAILTSSATVLADDPALTVRWSELDEQTQALYPQQNLRQPIRIV- 258
Query: 289 VSNHASPIRIPGLSE--ESSSKVIVFTDGEITVEPDMGTKGIETVNL----HQLNLKAVL 342
+ + R+ + + + E + + + T+ + L+L ++
Sbjct: 259 IDSQN---RVTPVHRIVQQPGETWFARTQE---DSREWPETVRTLLIPEHKGHLDLVVLM 312
Query: 343 DYCYSHGFCSVLVDLRGNYGDLEMLLKEG--------IEQNLLQKIVVEVLPVWNGSDGG 394
S+ V E ++ L+ +++V + P GSD
Sbjct: 313 MQLGKQQINSIWV--------------EAGPTLAGALLQAGLVDELIVYIAPKLLGSDAR 358
Query: 395 NPHTL--LNSLGKRLILKNLQPKMSSQSIVLEGY 426
TL L L K + + + L
Sbjct: 359 GLCTLPGLEKLADAPQFKFKEIRHVGPDVCLHLV 392
>2b3z_A Riboflavin biosynthesis protein RIBD; alpha/beta/alpha, deaminase
domain and reductase domain, hydrolase, oxidoreductase;
2.41A {Bacillus subtilis} SCOP: c.71.1.2 c.97.1.2 PDB:
2d5n_A* 3ex8_A*
Length = 373
Score = 322 bits (827), Expect = e-108
Identities = 110/381 (28%), Positives = 173/381 (45%), Gaps = 44/381 (11%)
Query: 71 QNNDKDDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFAL 130
++ + +YM+ ++LA + G T NP+VG V+VKDG+IVG G H K G+ HAEV A+
Sbjct: 8 HHHGSMEEYYMKLALDLAKQGEGQTESNPLVGAVVVKDGQIVGMGAHLKYGEAHAEVHAI 67
Query: 131 RDAGELAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLR 190
AG AEGA YV+LEPC+HYG+TPPC E +I + +K+V V M DPNP+V +G+ ++
Sbjct: 68 HMAGAHAEGADIYVTLEPCSHYGKTPPCAELIINSGIKRVFVAMRDPNPLVAGRGISMMK 127
Query: 191 DAGIDVTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEGVAESGG-- 248
+AGI+V G+ + +RLNE F+H + TG P+ TL+ S++G + G+ +
Sbjct: 128 EAGIEVREGILADQAERLNEKFLHFMRTGLPYVTLKAAASLDGKIATSTGDSKWITSEAA 187
Query: 249 -YYSQLL-QEYDAIILSASSTKKYSIP---ASQEPDANQPFRIITVSNHASPIRIPG--- 300
+Q + + + IL T K P QP R+I + IP
Sbjct: 188 RQDAQQYRKTHQS-ILVGVGTVKADNPSLTCRLPNVTKQPVRVI-LDTVL---SIPEDAK 242
Query: 301 LSEESSSKVIVFTDGEITVE--PDMGTKGIETVNLH--QLNLKAVLDYCYSHGFCSVLVD 356
+ + + +FT E + G+ L ++ + VL G SV V
Sbjct: 243 VICDQIAPTWIFTTARADEEKKKRLSAFGVNIFTLETERIQIPDVLKILAEEGIMSVYV- 301
Query: 357 LRGNYGDLEMLLKEG--------IEQNLLQKIVVEVLPVWNGSDGGNP---HTLLNSLGK 405
EG +++ Q+I+ P G S+
Sbjct: 302 -------------EGGSAVHGSFVKEGCFQEIIFYFAPKLIGGTHAPSLISGEGFQSMKD 348
Query: 406 RLILKNLQPKMSSQSIVLEGY 426
+L+ + I L
Sbjct: 349 VPLLQFTDITQIGRDIKLTAK 369
>2hxv_A Diaminohydroxyphosphoribosylaminopyrimidine deami
amino-6-(5-phosphoribosylamino)uracil...;
oxidoreductase, structural genomics; HET: NDP; 1.80A
{Thermotoga maritima} SCOP: c.71.1.2 c.97.1.2
Length = 360
Score = 320 bits (823), Expect = e-107
Identities = 108/368 (29%), Positives = 173/368 (47%), Gaps = 32/368 (8%)
Query: 71 QNNDKDDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFAL 130
++ +M+R +ELA K +G +PNP VG V+VKDG+I+ EGFHP G PHAE A+
Sbjct: 8 HHHHHMYETFMKRAIELAKKGLGRVNPNPPVGAVVVKDGRIIAEGFHPYFGGPHAERMAI 67
Query: 131 RDA---GELAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLE 187
A GE GAT V+LEPC+H+G+TPPCT+ +I++ +K VV+G DPNP V+ G+E
Sbjct: 68 ESARKKGEDLRGATLIVTLEPCDHHGKTPPCTDLIIESGIKTVVIGTRDPNP-VSGNGVE 126
Query: 188 RLRDAGIDVTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEGVAESG 247
+ R+ GI+V GV +E K+L E FI + +PF L+Y +++G + D G+ +
Sbjct: 127 KFRNHGIEVIEGVLEEEVKKLCEFFITYVTKKRPFVALKYASTLDGKIADHRGDSKWITD 186
Query: 248 G--YYSQLL-QEYDAIILSASSTKKYSIPA--SQEPDANQPFRIITVSNHASPIRIPGLS 302
+ + Y A +L + T P + + P R+I ++ +
Sbjct: 187 KLRFKVHEMRNIYSA-VLVGAGTVLKDNPQLTCRLKEGRNPVRVILDRKGVLSGKVFRVF 245
Query: 303 EESSSKVIVFTDGEITVEPDMGTKGIETVNLHQLNLKAVLDYCYSHGFCSVLV----DLR 358
EE +++VIVFT+ E P K + +++++L Y SVLV +
Sbjct: 246 EE-NARVIVFTESEEAEYPPHVEKALS-----DCSVESILRNLYERDIDSVLVEGGSKVF 299
Query: 359 GNYGDLEMLLKEGIEQNLLQKIVVEVLPVWNGSDGGNPHTLLNSLGKRLILKNLQPKMSS 418
L + G L+ + K + + S
Sbjct: 300 SE------FLDHA------DVVFGFYSTKIFGKGLDVFSGYLSDVSVPPKFKVVNVEFSD 347
Query: 419 QSIVLEGY 426
++E
Sbjct: 348 SEFLVEMR 355
>1wkq_A Guanine deaminase; domain SWAP, the cytidine deaminase superfamily,
substrate specificity, structural plasticity, hydrolase;
1.17A {Bacillus subtilis} SCOP: c.97.1.2 PDB: 1tiy_A
Length = 164
Score = 92.4 bits (230), Expect = 2e-22
Identities = 36/114 (31%), Positives = 49/114 (42%), Gaps = 22/114 (19%)
Query: 76 DDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGF-------HPKAGQPHAEVF 128
+ +++R V LA + V + P G VIVKDG I+ EG P A HAEV
Sbjct: 10 NHETFLKRAVTLACEGVNAGIGGP-FGAVIVKDGAIIAEGQNNVTTSNDPTA---HAEVT 65
Query: 129 ALRDAGELA-----EGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDP 177
A+R A ++ + Y S EPC P C A+ A+ K V
Sbjct: 66 AIRKACKVLGAYQLDDCILYTSCEPC------PMCLGAIYWARPKAVFYAAEHT 113
>1z3a_A TRNA-specific adenosine deaminase; tRNA adenosine deaminase, dimer,
zinc, metalloenzyme, structural genomics, PSI, protein
structure initiative; 2.03A {Escherichia coli} SCOP:
c.97.1.2 PDB: 3ocq_A
Length = 168
Score = 87.2 bits (217), Expect = 2e-20
Identities = 48/177 (27%), Positives = 74/177 (41%), Gaps = 52/177 (29%)
Query: 74 DKDDGFYMRRCVELATKA-----VGSTSPNPMVGCVIVKDGKIVGEGF-HPKAGQ-P--H 124
+ ++MR + LA +A V P VG V+V + +++GEG+ P P H
Sbjct: 6 EFSHEYWMRHALTLAKRAWDEREV------P-VGAVLVHNNRVIGEGWNRPIGRHDPTAH 58
Query: 125 AEVFALRDAGELA-----EGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNP 179
AE+ ALR G + AT YV+LEPC C A+I +++ +VV G D
Sbjct: 59 AEIMALRQGGLVMQNYRLIDATLYVTLEPC------VMCAGAMIHSRIGRVVFGARDA-- 110
Query: 180 IVNSKG------LERLRDAG----IDVTVGVEDELCKRLNEAFIHRIVTGKPFATLR 226
K ++ L G +++T G+ + C L F F R
Sbjct: 111 ----KTGAAGSLMDVLHHPGMNHRVEITEGILADECAALLSDF---------FRMRR 154
>1p6o_A Cytosine deaminase; hydrolase, dimer, inhibitor bound; 1.14A
{Saccharomyces cerevisiae} SCOP: c.97.1.2 PDB: 1ox7_A
1rb7_A 1ysd_A 1ysb_A 2o3k_A 1uaq_A
Length = 161
Score = 86.9 bits (216), Expect = 2e-20
Identities = 40/161 (24%), Positives = 61/161 (37%), Gaps = 42/161 (26%)
Query: 73 NDKDDGFYMRRCVELATKA-----VGSTSPNPMVGCVIV--KDGKIVGEGFHP--KAGQP 123
K D M E A V P +G ++ KDG ++G G + + G
Sbjct: 10 ASKWDQKGMDIAYEEAALGYKEGGV------P-IGGCLINNKDGSVLGRGHNMRFQKGSA 62
Query: 124 --HAEVFALRDAGELA----EGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDP 177
H E+ L + G L + T Y +L PC CT A+I + + VVG
Sbjct: 63 TLHGEISTLENCGRLEGKVYKDTTLYTTLSPC------DMCTGAIIMYGIPRCVVGENVN 116
Query: 178 -----NPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAFI 213
+ ++G V V+DE CK++ + FI
Sbjct: 117 FKSKGEKYLQTRG---------HEVVVVDDERCKKIMKQFI 148
>2b3j_A TRNA adenosine deaminase; mixed alpha-beta, protein-RNA complex,
RNA stem-loop, hydrol complex; HET: P5P; 2.00A
{Staphylococcus aureus subsp} SCOP: c.97.1.2
Length = 159
Score = 86.4 bits (215), Expect = 2e-20
Identities = 47/176 (26%), Positives = 70/176 (39%), Gaps = 52/176 (29%)
Query: 75 KDDGFYMRRCVELATKA-----VGSTSPNPMVGCVIVKDGKIVGEGF-HPKAGQ-P--HA 125
+D ++M +E A KA V P +G +I KD +++ + Q P HA
Sbjct: 5 TNDIYFMTLAIEEAKKAAQLGEV------P-IGAIITKDDEVIARAHNLRETLQQPTAHA 57
Query: 126 EVFALRDAGELA-----EGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPI 180
E A+ A ++ EG T YV+LEPC C ++ +++ +VV G DP
Sbjct: 58 EHIAIERAAKVLGSWRLEGCTLYVTLEPC------VMCAGTIVMSRIPRVVYGADDP--- 108
Query: 181 VNSKG------LERLRDAG----IDVTVGVEDELCKRLNEAFIHRIVTGKPFATLR 226
KG + L+ + V GV E C L F F LR
Sbjct: 109 ---KGGCSGSLMNLLQQSNFNHRAIVDKGVLKEACSTLLTTF---------FKNLR 152
>2nx8_A TRNA-specific adenosine deaminase; TAD, hydrolase; 2.00A
{Streptococcus pyogenes serotype M6}
Length = 179
Score = 86.1 bits (214), Expect = 4e-20
Identities = 29/119 (24%), Positives = 56/119 (47%), Gaps = 27/119 (22%)
Query: 73 NDKDDGFYMRRCVELATKA-----VGSTSPNPMVGCVIVKDGKIVGEGF-HPKAGQ-P-- 123
+ ++ ++M+ ++ + K+ + P +GCVIVKDG+I+G G +
Sbjct: 12 SLEEQTYFMQEALKESEKSLQKAEI------P-IGCVIVKDGEIIGRGHNAREESNQAIM 64
Query: 124 HAEVFALRDAGELA-----EGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDP 177
HAE+ A+ +A T +V++EPC C+ A+ A++ V+ G +
Sbjct: 65 HAEMMAINEANAHEGNWRLLDTTLFVTIEPC------VMCSGAIGLARIPHVIYGASNQ 117
>1wwr_A TRNA adenosine deaminase TADA; homodimer, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, hydrolase; 1.80A {Aquifex aeolicus} SCOP:
c.97.1.2
Length = 171
Score = 85.7 bits (213), Expect = 6e-20
Identities = 41/186 (22%), Positives = 70/186 (37%), Gaps = 65/186 (34%)
Query: 71 QNNDKDDGFYMRRCVELATKA-----VGSTSPNPMVGCVIVKDGKIVGEGF-------HP 118
+ + ++++ + A +A V P VG +IVK+G+I+ + P
Sbjct: 17 RGSHMGKEYFLKVALREAKRAFEKGEV------P-VGAIIVKEGEIISKAHNSVEELKDP 69
Query: 119 KAGQPHAEVFALRDAGELA-----EGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVG 173
A HAE+ A+++A EG YV+LEPC C+ AL+ ++++KV+
Sbjct: 70 TA---HAEMLAIKEACRRLNTKYLEGCELYVTLEPC------IMCSYALVLSRIEKVIFS 120
Query: 174 MLDP-------------NPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAFIHRIVTGK 220
LD P +N + + +E L F
Sbjct: 121 ALDKKHGGVVSVFNILDEPTLNHR---------VKWEYYPLEE-ASELLSEF-------- 162
Query: 221 PFATLR 226
F LR
Sbjct: 163 -FKKLR 167
>2a8n_A Cytidine and deoxycytidylate deaminase; RNA editing, RNA binding
protein; 1.60A {Agrobacterium tumefaciens} SCOP:
c.97.1.2
Length = 144
Score = 83.7 bits (208), Expect = 1e-19
Identities = 30/117 (25%), Positives = 48/117 (41%), Gaps = 27/117 (23%)
Query: 75 KDDGFYMRRCVELATKA-----VGSTSPNPMVGCVIVKDGKIVGEGF-HPKAGQ-P--HA 125
+ +M + A A V P +G V+V DG+++ + HA
Sbjct: 2 AERTHFMELALVEARSAGERDEV------P-IGAVLVLDGRVIARSGNRTRELNDVTAHA 54
Query: 126 EVFALRDAGELA-----EGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDP 177
E+ +R A E GA YV+LEPC C A+ A+++++ G DP
Sbjct: 55 EIAVIRMACEALGQERLPGADLYVTLEPC------TMCAAAISFARIRRLYYGAQDP 105
>3dh1_A TRNA-specific adenosine deaminase 2; zinc-binding protein, TRA tRNA
processing, hydrolase, structural genomics, structural
consortium, SGC; 2.80A {Homo sapiens}
Length = 189
Score = 82.7 bits (205), Expect = 9e-19
Identities = 29/126 (23%), Positives = 49/126 (38%), Gaps = 39/126 (30%)
Query: 75 KDDGFYMRRCVELATKA-----VGSTSPNPMVGCVIVKDGKIVGEGF-------HPKAGQ 122
++ +M + +A +A V P VGC++V + ++VG+G +
Sbjct: 24 EETEKWMEEAMHMAKEALENTEV------P-VGCLMVYNNEVVGKGRNEVNQTKNATR-- 74
Query: 123 PHAEVFALRDAGELA-----------EGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVV 171
HAE+ A+ + E YV++EPC C AL K+ VV
Sbjct: 75 -HAEMVAIDQVLDWCRQSGKSPSEVFEHTVLYVTVEPC------IMCAAALRLMKIPLVV 127
Query: 172 VGMLDP 177
G +
Sbjct: 128 YGCQNE 133
>2g84_A Cytidine and deoxycytidylate deaminase zinc-bindi; zinc-binding
region, structural genomics, PSI, protein structure
initiative; 1.40A {Nitrosomonas europaea} SCOP: c.97.1.2
Length = 197
Score = 79.8 bits (197), Expect = 1e-17
Identities = 29/166 (17%), Positives = 45/166 (27%), Gaps = 42/166 (25%)
Query: 76 DDGFYMRRCVELATKAVGSTS-PNPMVGCVIVK--DGKIVGEGF-------HPKAGQPHA 125
M +EL + + P + + G ++ G A HA
Sbjct: 27 APEARMGYVLELVRANIAADGGP---FAAAVFERDSGLLIAAGTNRVVPGRCSAA---HA 80
Query: 126 EVFALRDAGE----------LAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGML 175
E+ AL A S EPC C A+I + V+ +V
Sbjct: 81 EILALSLAQAKLDTHDLSADGLPACELVTSAEPC------VMCFGAVIWSGVRSLVCAAR 134
Query: 176 DP---------NPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAF 212
P + GI VT G+ + L +
Sbjct: 135 SDDVEAIGFDEGPRPENWMGGLE-ARGITVTTGLLRDAACALLREY 179
>2hvw_A Deoxycytidylate deaminase; 3-layer (alpha-beta)-sandwich,
protein-liand complex, hydrolase; HET: DCP DDN; 1.67A
{Streptococcus mutans} PDB: 2hvv_A*
Length = 184
Score = 71.3 bits (175), Expect = 9e-15
Identities = 35/171 (20%), Positives = 62/171 (36%), Gaps = 34/171 (19%)
Query: 49 LAKSLTSTRKCRGGYRIRCGQVQNNDKDDGFYMRRCVELATKAVGSTSPNPMVGCVIVKD 108
L + GG ++ G + N ++M ++ + ST VG V+VK+
Sbjct: 14 LVPRGSHMASMTGGQQMGRGSMTNRLSWQDYFMANAELISKR---STCNRAYVGAVLVKN 70
Query: 109 GKIVGEGF--------HPKAGQP-----------HAEVFALRDA---GELAEGATAYVSL 146
+I+ G+ + HAE+ AL G A YV+
Sbjct: 71 NRIIATGYNGGVADTDNCDDVGHEMEDGHCIRTVHAEMNALIQCAKEGISANNTEIYVTH 130
Query: 147 EPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDVT 197
PC + CT+AL++A VKK+ + +E + ++
Sbjct: 131 FPCIN------CTKALLQAGVKKITYNTAYRI---HPFAIELMTQKEVEYV 172
>2w4l_A DCMP deaminse, deoxycytidylate deaminase; pyrimidine metabolism,
nucleotide biosynthesis, zinc, hexamer, hydrolase,
metal-binding, phosphoprotein; 2.10A {Homo sapiens}
Length = 178
Score = 60.1 bits (146), Expect = 6e-11
Identities = 33/146 (22%), Positives = 54/146 (36%), Gaps = 35/146 (23%)
Query: 77 DGFYMRRCVELATKAVGSTSPNPMVGCVIV-KDGKIVGEGF-----------HPKAGQP- 123
++M A + S PN VG IV + KIVG G+ P
Sbjct: 13 PEYFMAVAFLSAQR---SKDPNSQVGACIVNSENKIVGIGYNGMPNGCSDDVLPWRRTAE 69
Query: 124 -----------HAEVFALRDA-GELAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVV 171
HAE+ A+ + +G + YV+L PCN C + +I+A +K+V+
Sbjct: 70 NKLDTKYPYVCHAELNAIMNKNLTDVKGCSMYVALFPCNE------CAKLIIQAGIKEVI 123
Query: 172 -VGMLDPNPIVNSKGLERLRDAGIDV 196
+ + + AG+
Sbjct: 124 FMSDKYHDSDEATAARLLFNMAGVTF 149
>1vq2_A DCMP deaminase, deoxycytidylate deaminase; hydrolase; HET: DDN;
2.20A {Enterobacteria phage T4} SCOP: c.97.1.2
Length = 193
Score = 53.8 bits (129), Expect = 1e-08
Identities = 35/151 (23%), Positives = 54/151 (35%), Gaps = 17/151 (11%)
Query: 71 QNNDKDDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQP-----HA 125
N D + A+ V + E + HA
Sbjct: 46 GVNCCDYAAEQGWLLNKPKHAIIQGHKPECVSFGSTDRFVLAKEHRSAHSEWSSKNEIHA 105
Query: 126 EVFALRDA---GELAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVN 182
E+ A+ A G EGAT YV+L PC C +A+ ++ +KK+V +
Sbjct: 106 ELNAILFAAENGSSIEGATMYVTLSPCPD------CAKAIAQSGIKKLVY--CETYDKNK 157
Query: 183 SKGLERLRDAGIDVTVGVEDELCKRLNEAFI 213
+ LR+AGI+V V + +LN I
Sbjct: 158 PGWDDILRNAGIEV-FNVPKKNLNKLNWENI 187
>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 = 50.2 bits (119), Expect = 1e-06
Identities = 53/378 (14%), Positives = 106/378 (28%), Gaps = 123/378 (32%)
Query: 83 RCVELATKAVGSTSPNP------MVGCVIVKDGK--IVGEGFHPKAGQPHAEVFALRDAG 134
+ +A+ P ++G GK + +
Sbjct: 135 QPYLKLRQALLELRPAKNVLIDGVLGS-----GKTWVALD--------------VCLSYK 175
Query: 135 ELA--EGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDA 192
+ +++L+ CN E +++ K ++ +DPN S ++
Sbjct: 176 VQCKMDFKIFWLNLKNCN-------SPETVLEMLQK--LLYQIDPNWTSRSDHSSNIKL- 225
Query: 193 GIDVTVGVEDELCKRLNEAFIHR------IV--------TGKPFA----TLRYTLSVNGH 234
+ L + +V F L T
Sbjct: 226 -------RIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQ-- 276
Query: 235 VLDQLGEGVAESGGYYSQLLQEYDAIILSASSTK----KY-SIPASQEPDANQPFRIITV 289
V D L S + + ++ ++ L+ K KY P +
Sbjct: 277 VTDFL------SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP--REVLTT--- 325
Query: 290 SNHASPIRIPGLSEESSSKVIVFTDGEITVEPDMGTKGIETVNLHQLN---LKAVLDYCY 346
+P R+ ++E DG T + N +N L +++
Sbjct: 326 ----NPRRLSIIAES-------IRDGLATWD-----------NWKHVNCDKLTTIIESSL 363
Query: 347 SHGFCSVL--VDLRGNYGDLEMLLKEGIEQNLLQKIVVEVLPV-WNGSDGGNPHTLLNSL 403
+ VL + R + L + I +L + W + ++N L
Sbjct: 364 N-----VLEPAEYRKMFDRLSVFPPS-------AHIPTILLSLIWFDVIKSDVMVVVNKL 411
Query: 404 GKRLILKNLQPKMSSQSI 421
K +++ QPK S+ SI
Sbjct: 412 HKYSLVEK-QPKESTISI 428
Score = 37.5 bits (86), Expect = 0.009
Identities = 65/446 (14%), Positives = 122/446 (27%), Gaps = 144/446 (32%)
Query: 4 HRLSTPNHNLHQLGLSPCRIF----YPTS--------SPTL--AFNQNSTFGFCNSL--- 46
S +H + R+ Y + AFN C L
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN----LS-CKILLTT 272
Query: 47 --KRLAKSLTSTRKCRGGYRIRCGQVQNNDKDDGFYMRRCVELATKAVG---STSP---- 97
K++ L++ + + L K + P
Sbjct: 273 RFKQVTDFLSAATTTH---------ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323
Query: 98 --NPMVGCVI---VKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPCNHY 152
NP +I ++DG + + H L E + LEP +
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNW------KHVNCDKLTTIIESS-----LNVLEPAEYR 372
Query: 153 GRTPPCTEAL-I---KAKVKKVVVGML-------DPNPIVN---SKGL-ERLRDAGIDVT 197
+ L + A + +++ ++ D +VN L E+ + T
Sbjct: 373 ----KMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK---EST 425
Query: 198 VGVED----ELCKRLNEAFIHR-IVTGKPFATLRYTLSVNGHVLDQLGEGVAESGGY-YS 251
+ + K NE +HR IV Y + D Y YS
Sbjct: 426 ISIPSIYLELKVKLENEYALHRSIVD-------HYNIPKT---FDSDDLIPPYLDQYFYS 475
Query: 252 QLLQEYDAIILSASSTKKYSIPASQEPDANQPFRIITVSNH--ASPIRIPGLSEESSSKV 309
+ + + + P+ FR++ + IR + +S +
Sbjct: 476 HI---------------GHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSI 520
Query: 310 I-VFTDGE-----ITV-EPDMGTKGIETVNLHQLNLKAVLDYCYSHGFCSVLVDLRGNYG 362
+ + I +P +L + A+LD+ L+ Y
Sbjct: 521 LNTLQQLKFYKPYICDNDPK----------YERL-VNAILDFLPKIE--ENLI--CSKYT 565
Query: 363 DL---------EMLLKEGIEQNLLQK 379
DL E + +E +Q +Q+
Sbjct: 566 DLLRIALMAEDEAIFEEAHKQ--VQR 589
>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 = 44.7 bits (105), Expect = 6e-05
Identities = 47/321 (14%), Positives = 82/321 (25%), Gaps = 130/321 (40%)
Query: 79 FYM-RRCVELA------------TKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHA 125
F++ RC E + P+PM+ +
Sbjct: 304 FFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI----------------SNLTQE 347
Query: 126 EVFALRDA--GELAEGATAYVSLEPCNHYGRT------PPCTEALIKAKVKKVVVGMLDP 177
+V + L G +SL N G PP ++L
Sbjct: 348 QVQDYVNKTNSHLPAGKQVEISL--VN--GAKNLVVSGPP--QSL--------------- 386
Query: 178 NPIVNSKGLE-RLR----DAGIDVTVGVEDELCKRLNEAFIHR-IVTGKPFATLRYTLSV 231
GL LR +G+D + +R F +R + PF
Sbjct: 387 ------YGLNLTLRKAKAPSGLDQS---RIPFSER-KLKFSNRFLPVASPF--------- 427
Query: 232 NGHVLDQLGEGVAESGGYYSQLLQEYDAIILSASSTKKYSIPAS---------------Q 276
H S LL +I S A +
Sbjct: 428 --H----------------SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLR 469
Query: 277 EPDANQPFRI---ITVSNHASPIRIPGLSEESSSKVIVFTDGEITVEPDM------GTKG 327
+ RI I P++ ++ ++ ++ F G + + GT G
Sbjct: 470 VLSGSISERIVDCIIR----LPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGT-G 524
Query: 328 IETVNLHQLNLKAVLDYCYSH 348
+ + L++ DY +
Sbjct: 525 VRVIVAGTLDINPDDDYGFKQ 545
Score = 43.9 bits (103), Expect = 9e-05
Identities = 55/293 (18%), Positives = 90/293 (30%), Gaps = 111/293 (37%)
Query: 24 FYPTSSPTLA---FNQ-----NSTFGFCNSLKRLA----KSLTSTRKCRGGYRIRCGQVQ 71
Y TS A +N+ T+GF S+ + +LT G RIR +
Sbjct: 1635 LYKTSK--AAQDVWNRADNHFKDTYGF--SILDIVINNPVNLTIHFGGEKGKRIR----E 1686
Query: 72 N------NDKDDGFYMRRCV--ELATKAVGST--SPN----------P---MVGCVIVKD 108
N DG + E+ + T S P ++ +D
Sbjct: 1687 NYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFED 1746
Query: 109 GKIVGEGFHPK----AGQPH-----------AEVFALRDAGELAEGATAYVSLEPCNHY- 152
+ +G P AG H A+V ++ E+ V Y
Sbjct: 1747 --LKSKGLIPADATFAG--HSLGEYAALASLADVMSIESLVEV-------V------FYR 1789
Query: 153 GRTPPCTEALIKAKVKKVVVGM--LDPNPIVNSKGLERLRD--AGIDVTVG--VE----- 201
G T A+ + ++ + GM ++P + S E L+ + G VE
Sbjct: 1790 GMT--MQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYN 1847
Query: 202 ---------------DELCKRLNEAFIHRIVTGKPFATLRYTLS---VNGHVL 236
D + LN + +I L+ +LS V GH+
Sbjct: 1848 VENQQYVAAGDLRALDTVTNVLNFIKLQKI----DIIELQKSLSLEEVEGHLF 1896
Score = 40.4 bits (94), Expect = 0.001
Identities = 78/392 (19%), Positives = 126/392 (32%), Gaps = 106/392 (27%)
Query: 114 EGFHPKAGQPHAEVFALRDA----GELAEGATAYVS--LEPCNHYGRTPPCTEALIKA-- 165
E F+ +P E FA D EL YVS +EP + G+ +
Sbjct: 35 EQFNKILPEP-TEGFAADDEPTTPAELVGKFLGYVSSLVEP-SKVGQFDQVLNLCLTEFE 92
Query: 166 -------KVKKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEAFIHRIVT 218
+ + +L N K E +++ I + + K+ N A +
Sbjct: 93 NCYLEGNDIHALAAKLLQENDTTLVKTKELIKNY-ITARIMAKRPFDKKSNSALFRAVGE 151
Query: 219 GKPFATLRYTLSVNGHVLDQLGEGVAESGGYYSQLLQEYD-------AIILSASST--KK 269
G A L + G G+G + Y+ +L Y +I ++ T +
Sbjct: 152 GN--AQL-VA--IFG------GQGNTDD--YFEELRDLYQTYHVLVGDLIKFSAETLSEL 198
Query: 270 YSIPASQEPDANQPFRIITVSNHAS-----------PIRIP--GLSE----ESSSKVIVF 312
E Q I+ + S PI P G+ + ++K++ F
Sbjct: 199 IRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGF 258
Query: 313 TDGEITVEPDMGT----KGIETV----------NLHQLNLKAVLDYCYSHGF-C------ 351
T GE+ G +G+ T + KA + + G C
Sbjct: 259 TPGEL-RSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKA-ITVLFFIGVRCYEAYPN 316
Query: 352 -----SVLVD-LRGNYGDLE-MLLKEGIEQNLLQKIVVEV---LP--------VWNGSD- 392
S+L D L N G ML + Q +Q V + LP + NG+
Sbjct: 317 TSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKN 376
Query: 393 ---GGNPHTLLNSLGKRLILKNLQ-PKMSSQS 420
G P +L G L L+ + P QS
Sbjct: 377 LVVSGPPQSL---YGLNLTLRKAKAPSGLDQS 405
Score = 39.6 bits (92), Expect = 0.002
Identities = 71/431 (16%), Positives = 127/431 (29%), Gaps = 168/431 (38%)
Query: 22 RIFYPTSSPTLA-FNQNSTFGFCNSLKRLAKSLTSTRKCRG-GYRIRCGQVQNNDK--DD 77
R Y T + + S +L L ++ K G I ++N D
Sbjct: 174 RDLYQTYHVLVGDLIKFSA----ETLSELIRTTLDAEKVFTQGLNIL-EWLENPSNTPDK 228
Query: 78 GFYMRRCVELATKAVGSTSPNPMVG-------CVIVKDGKIVGEGFHPKAGQPH------ 124
+ L + + S P++G V K GF P + +
Sbjct: 229 DY-------LLSIPI-SC---PLIGVIQLAHYVVTAKLL-----GFTPGELRSYLKGATG 272
Query: 125 -------AEVFALRDAGE--LAEGATA-----YVSLEPCNH-YGRT--PPCTEALIKAKV 167
A A D+ E A ++ + C Y T PP ++++ +
Sbjct: 273 HSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVR-CYEAYPNTSLPP---SILEDSL 328
Query: 168 KKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDELCKRLNEA---FI-------HRIV 217
+ P+P+++ L + + V ++ L I + +V
Sbjct: 329 E---NNEGVPSPMLSISNLTQ---EQVQDYV---NKTNSHLPAGKQVEISLVNGAKNLVV 379
Query: 218 TGKPFATLRYTLSVNGHVLDQLGEGVAESGGYYSQLLQEYDAIILSASSTKKYSIPASQE 277
+G P +L Y L++ L + A SG L Q ++ IP S+
Sbjct: 380 SGPP-QSL-YGLNL------TLRKAKAPSG-----LDQ-----------SR---IPFSE- 411
Query: 278 PDANQPFRIITVSNHASPIRIPGLSEESSSKVIVFTDGEITVEPDMGTKGIETVNLHQLN 337
R + SN P+ P F H
Sbjct: 412 -------RKLKFSNRFLPVASP------------F---------------------HSHL 431
Query: 338 LKAVLDYCYSHGFCSVLVDLRGNYGDLEMLLKEGIEQNLLQKIVVEVLPVWNGSDGGNPH 397
L D + DL N ++ +Q +PV++ DG +
Sbjct: 432 LVPASD--------LINKDLVKN--NVS------FNAKDIQ------IPVYDTFDGSDLR 469
Query: 398 TLLNSLGKRLI 408
L S+ +R++
Sbjct: 470 VLSGSISERIV 480
>2azn_A HTP reductase, putative 5-amino-6-(5-phosphoribosylamino)uracil;
oxidoreductase; HET: MA5 NAP EPE; 2.70A
{Methanocaldococcus jannaschii} SCOP: c.71.1.2
Length = 219
Score = 38.6 bits (91), Expect = 0.002
Identities = 33/173 (19%), Positives = 62/173 (35%), Gaps = 42/173 (24%)
Query: 277 EPDANQPFRIITVSNHASPIRIPGLSE--ESSSKVIVFTDGEITVE-----PDMGTKGIE 329
P RI+ V + R+P + +K I+ T + E + G+E
Sbjct: 65 IKSDRNPVRIV-VDSKL---RVPLNARVLNKDAKTIIATTEDTNEEKEKKIKILEDMGVE 120
Query: 330 TVNLH--QLNLKAVLDYCYSHGFCSVLVDLRGNYGDLEMLLKEG--------IEQNLLQK 379
V +++LK ++D Y G S+L+ EG ++ L+ +
Sbjct: 121 VVKCGRGKVDLKKLMDILYDKGIKSILL--------------EGGGTLNWGMFKEGLVDE 166
Query: 380 IVVEVLPVWNGSDGGNPHTLLNSLG-----KRLILKNLQPKMSSQSIVLEGYL 427
+ V + P G T ++ G + + L+ + IVLE +
Sbjct: 167 VSVYIAPKIFGGKEA--PTYVDGEGFKTVDECVKLELKNFYRLGEGIVLEFKV 217
>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 = 34.9 bits (79), Expect = 0.017
Identities = 4/17 (23%), Positives = 9/17 (52%)
Query: 19 SPCRIFYPTSSPTLAFN 35
+ +++ S+P LA
Sbjct: 27 ASLKLYADDSAPALAIK 43
>2qw5_A Xylose isomerase-like TIM barrel; putative sugar phosphate
isomerase/epimerase; 1.78A {Anabaena variabilis atcc
29413}
Length = 335
Score = 35.1 bits (80), Expect = 0.039
Identities = 17/90 (18%), Positives = 32/90 (35%), Gaps = 14/90 (15%)
Query: 80 YMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAE----------VFA 129
Y++ V++ A+G M+G +++ G F+ +
Sbjct: 110 YLKSRVDIT-AALGGEI---MMGPIVIPYGVFPTTDFNEPIWSDELQEHLKVRYANAQPI 165
Query: 130 LRDAGELAEGATAYVSLEPCNHYGRTPPCT 159
L GE AE +++EP H+ P
Sbjct: 166 LDKLGEYAEIKKVKLAIEPITHWETPGPNK 195
>2qul_A D-tagatose 3-epimerase; beta/alpha barrel, isomerase; 1.79A
{Pseudomonas cichorii} PDB: 2ou4_A 2qum_A* 2qun_A*
Length = 290
Score = 34.8 bits (80), Expect = 0.040
Identities = 11/73 (15%), Positives = 25/73 (34%), Gaps = 4/73 (5%)
Query: 80 YMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEG 139
Y++R ++ +G+ G + K + ++R ++AE
Sbjct: 89 YVKRLLDDC-HLLGAPV---FAGLTFCAWPQSPPLDMKDKRPYVDRAIESVRRVIKVAED 144
Query: 140 ATAYVSLEPCNHY 152
+LE N +
Sbjct: 145 YGIIYALEVVNRF 157
>2p4g_A Hypothetical protein; pyrimidine reductase-like protein, structural
genomics, JOIN for structural genomics, JCSG; 2.30A
{Corynebacterium diphtheriae}
Length = 270
Score = 34.0 bits (78), Expect = 0.075
Identities = 27/244 (11%), Positives = 53/244 (21%), Gaps = 60/244 (24%)
Query: 188 RLRDAGIDVTVGVEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHV-LDQLGEGV--A 244
RD+ TV E + + +P S+NG L + +
Sbjct: 6 MQRDSASSSTVTTEQIVY-----GALPLTTINEPECRAIAITSINGSATLSGVSGPMGDQ 60
Query: 245 ESGGYYSQLLQEYDAIILSA-----------SSTKKYSIPASQEPDANQPFRIITVSNHA 293
QL DAI++ A + P + +S
Sbjct: 61 TDADLLIQLRGWADAIVVGAETARKENYGPVVLPHGIKNQRQKLGRCGLPKLTL-LSKSL 119
Query: 294 SPIRIP------GLSEESSSKVIVFTDGEITVEPDMGTKG---------IETVNLHQLNL 338
S +V T + + L
Sbjct: 120 ---YFDFSSELFSPDLPSELSPLVITQQPANNSEQWDQRLQKLIDVGVEVIVAPTSTNPL 176
Query: 339 KAVLDYCYSHGFCSVLVDLRGNYGDLEMLLKEG--------IEQNLLQKIVVEVLPVWNG 390
K D ++ + + EG + ++ ++ + + P
Sbjct: 177 KIAFDALHARRLKKISI--------------EGGPSVYRQALSLGIVDRLHLTIAPNIIC 222
Query: 391 SDGG 394
Sbjct: 223 PVES 226
>2hk0_A D-psicose 3-epimerase; TIM-barrel, isomerase; 2.00A {Agrobacterium
tumefaciens} PDB: 2hk1_A*
Length = 309
Score = 33.7 bits (77), Expect = 0.092
Identities = 16/101 (15%), Positives = 28/101 (27%), Gaps = 9/101 (8%)
Query: 80 YMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEG 139
+ R + + + + G + + V + + A
Sbjct: 108 FFERTLSNV-AKLDIHT---IGGALHSYWPIDYSQPVDKAGDYARG-VEGINGIADFAND 162
Query: 140 ATAYVSLEPCNHYGRTPPCTEALIKAKVKKV----VVGMLD 176
+ +E N + T A A VK V V MLD
Sbjct: 163 LGINLCIEVLNRFENHVLNTAAEGVAFVKDVGKNNVKVMLD 203
>3g8q_A Predicted RNA-binding protein, contains thump domain; cytidine
deaminase, ferredoxin-like domain; 2.40A {Methanopyrus
kandleri}
Length = 278
Score = 32.8 bits (74), Expect = 0.17
Identities = 28/114 (24%), Positives = 43/114 (37%), Gaps = 16/114 (14%)
Query: 90 KAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPC 149
K + + P V +++ G+IV +A HAE +R EG +V+ PC
Sbjct: 13 KKILNEIPKRTVTAALLEGGEIVAV---EEADDEHAERKLVRRHD--VEGKVVFVTARPC 67
Query: 150 NHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDE 203
+ C L +A V VV G L +G++V DE
Sbjct: 68 LY------CARELAEAGVAGVVYLGR-----GRGLGPYYLARSGVEVVEVHPDE 110
>3icj_A Uncharacterized metal-dependent hydrolase; structural genomics,
amidohydrolase, PSI-2, protein structur initiative; HET:
KCX; 1.95A {Pyrococcus furiosus} PDB: 3etk_A* 3igh_X*
Length = 534
Score = 33.0 bits (76), Expect = 0.19
Identities = 19/145 (13%), Positives = 38/145 (26%), Gaps = 53/145 (36%)
Query: 96 SPNPMVGCVIVKDGKI--VG--EGFHPKAGQPHAEVFALRDA-------------GELAE 138
SP V +++ + ++ G A E+ L+ EL
Sbjct: 50 SPVKKVSGLVISNERVLYAGDSSTALRIAELAGGEIIDLKGKFVMPAFFDSHLHLDELGM 109
Query: 139 GATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVG---------------MLDP--NPI- 180
V L ++ +K +++ G LD P+
Sbjct: 110 SLEM-VDLRGV----KSMEELVERVKKGRGRIIFGFGWDQDELGRWPTREDLDVIDRPVF 164
Query: 181 ----------VNSKGLERLRDAGID 195
+NSK ++ +
Sbjct: 165 LYRRCFHVAVMNSKMIDL---LNLK 186
>1rdu_A Conserved hypothetical protein; atnos, candid, structural genomics,
joint center for structu genomics, JCSG, protein
structure initiative; NMR {Thermotoga maritima} SCOP:
c.55.5.1
Length = 116
Score = 31.3 bits (71), Expect = 0.20
Identities = 16/78 (20%), Positives = 28/78 (35%), Gaps = 9/78 (11%)
Query: 124 HAEVFALRDAGELAEGATAYVSLEPCNHYGRTPPCTEALIKAKVKKVVVGMLDPNPIVNS 183
AE F + D G V + +G P ++L+ V+ ++ + N
Sbjct: 23 RAEYFIIYDTES---GNVEVVENTIADAHGTGPKVVQSLVSKGVEYLIASNVGRNA---- 75
Query: 184 KGLERLRDAGIDVTVGVE 201
E L+ AG+ V
Sbjct: 76 --FETLKAAGVKVYRFEG 91
>3vni_A Xylose isomerase domain protein TIM barrel; D-psicose 3-epimerase,
ketohexose; 1.98A {Clostridium cellulolyticum} PDB:
3vnj_A* 3vnl_A* 3vnk_A* 3vnm_A*
Length = 294
Score = 32.1 bits (73), Expect = 0.33
Identities = 9/73 (12%), Positives = 23/73 (31%), Gaps = 5/73 (6%)
Query: 80 YMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEG 139
+ ++ + + G + + K + V ++R+ ++AE
Sbjct: 89 FYTDLLKRL-YKLDVHL---IGGALYSYWPIDYTKTIDKKGDWERS-VESVREVAKVAEA 143
Query: 140 ATAYVSLEPCNHY 152
LE N +
Sbjct: 144 CGVDFCLEVLNRF 156
>3kws_A Putative sugar isomerase; structural genomics, joint center
structural genomics, JCSG, protein structure initiative;
HET: MSE; 1.68A {Parabacteroides distasonis atcc 8503}
Length = 287
Score = 31.6 bits (72), Expect = 0.37
Identities = 14/78 (17%), Positives = 21/78 (26%), Gaps = 17/78 (21%)
Query: 80 YMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFA-----LRDAG 134
M+ + A +GS V V +G++ E + G
Sbjct: 105 TMKEIIAAA-GELGS----TGVIIVPAFNGQVPA-------LPHTMETRDFLCEQFNEMG 152
Query: 135 ELAEGATAYVSLEPCNHY 152
A V EP N
Sbjct: 153 TFAAQHGTSVIFEPLNRK 170
>1i60_A IOLI protein; beta barrel, structural genomics, PSI, protein
structure initiative, midwest center for structural
genomics, MCSG; 1.60A {Bacillus subtilis} SCOP: c.1.15.4
PDB: 1i6n_A
Length = 278
Score = 30.5 bits (69), Expect = 0.87
Identities = 11/79 (13%), Positives = 22/79 (27%), Gaps = 20/79 (25%)
Query: 80 YMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFA-----LRDAG 134
+ +E K +G +V + E+ L +
Sbjct: 85 EFKGMMETC-KTLGVKY--------------VVAVPLVTEQKIVKEEIKKSSVDVLTELS 129
Query: 135 ELAEGATAYVSLEPCNHYG 153
++AE ++LE H
Sbjct: 130 DIAEPYGVKIALEFVGHPQ 148
>2ekl_A D-3-phosphoglycerate dehydrogenase; structural genomics, NPPSFA,
national project on protein structural and functional
analyses; HET: NAD; 1.77A {Sulfolobus tokodaii}
Length = 313
Score = 30.2 bits (69), Expect = 1.0
Identities = 10/49 (20%), Positives = 20/49 (40%), Gaps = 8/49 (16%)
Query: 166 KVKKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGV---EDELCKRLNEA 211
K ++ DP ++ ++ LR+ GI V ++EL +
Sbjct: 4 YTVKALI--TDP---IDEILIKTLREKGIQVDYMPEISKEELLNIIGNY 47
>1o13_A Probable NIFB protein; ribonuclease H-like motif fold, structural
genomics, joint C structural genomics, JCSG, protein
structure initiative; 1.83A {Thermotoga maritima} SCOP:
c.55.5.1 PDB: 1t3v_A
Length = 136
Score = 29.1 bits (65), Expect = 1.4
Identities = 16/109 (14%), Positives = 33/109 (30%), Gaps = 13/109 (11%)
Query: 98 NPMVGCVIVKDGKIVGEGFHPKAGQPHAEVFAL--RDAGELAEGATAYVSLEPCNHYGRT 155
+ M+ + V + + G A FA +A+ + L + +G
Sbjct: 11 HHMIIAIPVSENRGKDSPISEHFG--RAPYFAFVKVKNNAIADISVEENPLAQDHVHGAV 68
Query: 156 PPCTEALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDEL 204
P + + + V+V + I G+ V G +
Sbjct: 69 P---NFVKEKGAELVIVRGIGRRAI------AAFEAMGVKVIKGASGTV 108
>2pln_A HP1043, response regulator; signaling protein; 1.80A {Helicobacter
pylori} PDB: 2hqo_A
Length = 137
Score = 28.7 bits (65), Expect = 1.7
Identities = 10/63 (15%), Positives = 19/63 (30%), Gaps = 18/63 (28%)
Query: 200 VEDELCKRLNEAFIHRIVTGKPFATLRYTLSVNGHVLDQLGEGVAESGGYYSQLLQEYDA 259
+E L + L+V G + D G Y ++ YD
Sbjct: 24 IEKN--SVLGGE-------------IEKGLNVKGFMADVTESLED---GEYLMDIRNYDL 65
Query: 260 IIL 262
+++
Sbjct: 66 VMV 68
>2g76_A 3-PGDH, D-3-phosphoglycerate dehydrogenase; oxidoreductase,
phosphoglycerate dehydrogenase deficiency, S metabolism,
2-hydroxyacid dehydrogenases; HET: NAD; 1.70A {Homo
sapiens}
Length = 335
Score = 29.5 bits (67), Expect = 2.2
Identities = 14/68 (20%), Positives = 27/68 (39%), Gaps = 11/68 (16%)
Query: 150 NHYGRTPPCTEALIKAKV---KKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGV---EDE 203
+H TE L + +KV++ D ++ + L+D G+ V ++E
Sbjct: 6 HHSSGVDLGTENLYFQSMANLRKVLIS--DS---LDPCCRKILQDGGLQVVEKQNLSKEE 60
Query: 204 LCKRLNEA 211
L L +
Sbjct: 61 LIAELQDC 68
>2wfb_A Putative uncharacterized protein ORP; mixed molybdenum-copper
sulphide cluster, alpha and beta protein, biosynthetic
protein; 2.00A {Desulfovibrio gigas}
Length = 120
Score = 28.2 bits (63), Expect = 2.5
Identities = 19/92 (20%), Positives = 31/92 (33%), Gaps = 11/92 (11%)
Query: 124 HAEVFALRDAGELAEGATAYVSLEPCNHYGRTPPCTEA--LIKAKVKKVVVGMLDPNPIV 181
A F + D A A YV A L K+ ++ G + P
Sbjct: 26 RAAGFVVVD---AATMAAEYVDNGASQTLSHGAGINAAQVLAKSGAGVLLTGYVGPKA-- 80
Query: 182 NSKGLERLRDAGIDVTVGVEDELCKRLNEAFI 213
+ L+ AGI V +E ++ + F+
Sbjct: 81 ----FQALQAAGIKVGQDLEGLTVRQAVQRFL 108
>2h3h_A Sugar ABC transporter, periplasmic sugar-binding protein; glucose
binding protein, periplasmic binding protein, GBP; HET:
BGC; 1.70A {Thermotoga maritima} PDB: 2qvc_A* 3c6q_B*
Length = 313
Score = 29.3 bits (66), Expect = 2.5
Identities = 8/37 (21%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 160 EALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDV 196
E+ I V + + DP ++ + +++ + GI V
Sbjct: 51 ESFIAEGVNGIAIAPSDPTAVIPT--IKKALEMGIPV 85
>2yx6_A Hypothetical protein PH0822; structural genomics, unknown function,
NPPSFA, national PROJ protein structural and functional
analyses; HET: ADP; 2.00A {Pyrococcus horikoshii}
Length = 121
Score = 27.9 bits (62), Expect = 2.6
Identities = 16/102 (15%), Positives = 26/102 (25%), Gaps = 10/102 (9%)
Query: 103 CVIVKDGKIVGEGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPCNHYGRTPPCTEAL 162
+ +D + + G + F D V + H P +
Sbjct: 4 AIPAEDDRGIKSNVSKHFG--RSRYFVFVDIEGEDVKNVEVVEVPFEEHGPGDLP--NFI 59
Query: 163 IKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDVTVGVEDEL 204
K V+ + I E GI V GV +
Sbjct: 60 KDHGAKIVLTYGIGRRAI------EYFNSLGISVVTGVYGRI 95
>3rot_A ABC sugar transporter, periplasmic sugar binding; nysgrc,
PSI-biology, structural genomics; 1.91A {Legionella
pneumophila subsp}
Length = 297
Score = 28.9 bits (65), Expect = 3.5
Identities = 6/37 (16%), Positives = 11/37 (29%), Gaps = 2/37 (5%)
Query: 160 EALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDV 196
E+ + + + S L+R I V
Sbjct: 55 ESALATYPSGIATTIPSDTAFSKS--LQRANKLNIPV 89
>1wwk_A Phosphoglycerate dehydrogenase; riken structural
genomics/proteomics initiative, RSGI, structural
genomics, oxidoreductase; HET: NAD; 1.90A {Pyrococcus
horikoshii}
Length = 307
Score = 28.7 bits (65), Expect = 3.7
Identities = 9/34 (26%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 181 VNSKGLERLRDAGIDVTVGV---EDELCKRLNEA 211
++ K ++ L+DAG++V ED L + + +
Sbjct: 12 LHEKAIQVLKDAGLEVIYEEYPDEDRLVELVKDV 45
>3icc_A Putative 3-oxoacyl-(acyl carrier protein) reducta; structural
genomics, putative 3-oxoacyl-(acyl carrier protei
reductase, oxidoreductase; HET: NAP MES; 1.87A {Bacillus
anthracis str}
Length = 255
Score = 28.3 bits (64), Expect = 4.5
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 6/50 (12%)
Query: 285 RIITVSNHASPIRIPGLSEESSSK--VIVFTDGEITVEPDMGTKGIETVN 332
RII +S+ A+ I +P S +K + T T+ +G +GI TVN
Sbjct: 142 RIINISSAATRISLPDFIAYSMTKGAINTMT---FTLAKQLGARGI-TVN 187
>2p0y_A Hypothetical protein LP_0780; structural genomics, PSI-2, protein
structure initiative, northeast structural genomics
consortium, NESG; 3.00A {Lactobacillus plantarum}
Length = 341
Score = 28.4 bits (63), Expect = 4.5
Identities = 14/103 (13%), Positives = 29/103 (28%), Gaps = 20/103 (19%)
Query: 96 SPNPMVGCVIVKDGKIV-GEGFHPKAGQP----------HAEVFALRDAGELAEGATAYV 144
+ + DG + GE A + E A++ + A +
Sbjct: 134 ANEALTLHGKFSDGTELVGEAEITAAHKSLERVWVTDKNGKEPQAVQPVIDAIMAADQ-I 192
Query: 145 SLEPCNHYGRTPPC------TEALIKAKVKKVVVG--MLDPNP 179
L P + + P A+ ++ + V + M
Sbjct: 193 VLGPGSLFTSILPNLTIGNIGRAVCESDAEVVYICNIMTQKGE 235
>3hk4_A MLR7391 protein; NTF2-like protein, structural genomics, joint
center for STR genomics, JCSG, protein structure
initiative, PSI-2, lyase; HET: MSE; 1.96A {Mesorhizobium
loti}
Length = 136
Score = 27.6 bits (61), Expect = 5.0
Identities = 15/42 (35%), Positives = 20/42 (47%)
Query: 76 DDGFYMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFH 117
D F +R ++ KA G VG VK+GKI E F+
Sbjct: 94 GDQFALRFKFDVTPKATGERVTMDEVGLYTVKNGKITEERFY 135
>3g1w_A Sugar ABC transporter; sugar-binding protein, bacillus halod target
11229F, transport protein, structural genomics; 2.02A
{Bacillus halodurans c-125}
Length = 305
Score = 28.1 bits (63), Expect = 6.0
Identities = 8/37 (21%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 160 EALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDV 196
E I + + +DP + ++ + + DAGI +
Sbjct: 55 EQAIAKNPAGIAISAIDPVELTDT--INKAVDAGIPI 89
>2dtg_E Insulin receptor; IR ectodomain, X-RAY crystallography, hormone
receptor/immune system complex; 3.80A {Homo sapiens}
SCOP: b.1.2.1 b.1.2.1 b.1.2.1 c.10.2.5 c.10.2.5 g.3.9.1
PDB: 3loh_E
Length = 897
Score = 28.3 bits (62), Expect = 6.3
Identities = 12/75 (16%), Positives = 19/75 (25%)
Query: 20 PCRIFYPTSSPTLAFNQNSTFGFCNSLKRLAKSLTSTRKCRGGYRIRCGQVQNNDKDDGF 79
C+ + N C S + S C G C ++ D
Sbjct: 265 KCKNSRRQGCHQYVIHNNKCIPECPSGYTMNSSNLLCTPCLGPCPKVCHLLEGEKTIDSV 324
Query: 80 YMRRCVELATKAVGS 94
+ + T GS
Sbjct: 325 TSAQELRGCTVINGS 339
>3qc0_A Sugar isomerase; TIM barrel, structural genomics, joint center for
structural genomics, JCSG, protein structure initiative,
PSI-biology,; HET: UNL PG4; 1.45A {Sinorhizobium
meliloti} PDB: 3ju2_A
Length = 275
Score = 27.8 bits (62), Expect = 6.7
Identities = 12/78 (15%), Positives = 22/78 (28%), Gaps = 19/78 (24%)
Query: 80 YMRRCVELATKAVGSTSPNPMVGCVIVKDGKIVGEGFHPKAGQPHAEVF-----ALRDAG 134
RR V+ A +G+ + V G P + +
Sbjct: 84 DNRRAVDEA-AELGA----DCLVLVA---------GGLPGGSKNIDAARRMVVEGIAAVL 129
Query: 135 ELAEGATAYVSLEPCNHY 152
A A +++EP +
Sbjct: 130 PHARAAGVPLAIEPLHPM 147
>1poi_A Glutaconate coenzyme A-transferase; COA, glutamate, protein
fermentation; 2.50A {Acidaminococcus fermentans} SCOP:
c.124.1.2
Length = 317
Score = 27.8 bits (62), Expect = 6.8
Identities = 18/91 (19%), Positives = 30/91 (32%), Gaps = 14/91 (15%)
Query: 106 VKDGKIVG-EGFHPKAGQPHAEVFALRDAGELAEGATAYVSLEPCNHYGRTPPCTEALIK 164
V G + GF +P+A VF + G T + + LI
Sbjct: 14 VHSGDHIALGGFTT-DRKPYAAVFEILRQG--ITDLTG-LGGAAGGDWDM-------LIG 62
Query: 165 AK-VKKVVVGMLDPNPIVN-SKGLERLRDAG 193
VK + + + N S+ + +AG
Sbjct: 63 NGRVKAYINCYTANSGVTNVSRRFRKWFEAG 93
>1o2d_A Alcohol dehydrogenase, iron-containing; TM0920, structural
genomics, JCSG, PSI, protein structure initiative; HET:
MSE NAP TRS; 1.30A {Thermotoga maritima} SCOP: e.22.1.2
PDB: 1vhd_A*
Length = 371
Score = 27.9 bits (63), Expect = 6.9
Identities = 11/50 (22%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 153 GRTPPCTEALIKAKVKKVVVGMLDPNPIVNS--KGLERLRDAGIDVTVGV 200
G + L + ++ + ++ NP ++ K +ER R+ D VG+
Sbjct: 56 GSLDDLKKLLDETEISYEIFDEVEENPSFDNVMKAVERYRNDSFDFVVGL 105
>3hrd_B Nicotinate dehydrogenase medium molybdopterin subunit; selenium
ligand, iron, iron-sulfur, metal-binding,
oxidoreductase; HET: MCN FAD; 2.20A {Eubacterium
barkeri}
Length = 330
Score = 27.9 bits (63), Expect = 7.0
Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 4/37 (10%)
Query: 298 IPGLSEESSSKVIVFTDGEITV---EPDMGTKGIETV 331
GL +++ V + DG V D+G G T
Sbjct: 17 NTGLPNPAAAFVEIHGDGSANVMFGAADIGQ-GSGTA 52
>3bo9_A Putative nitroalkan dioxygenase; TM0800, structural genomics center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: MSE 2PE; 2.71A {Thermotoga maritima MSB8}
Length = 326
Score = 27.6 bits (62), Expect = 7.9
Identities = 9/37 (24%), Positives = 15/37 (40%), Gaps = 5/37 (13%)
Query: 160 EALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDV 196
+ I+ KV V G +P + L++ G V
Sbjct: 96 KVCIEEKVPVVTFGAGNPTKYI-----RELKENGTKV 127
>3gip_A N-acyl-D-glutamate deacylase; amidohydrolase family, hydrolase;
1.50A {Bordetella bronchiseptica} PDB: 3giq_A*
Length = 480
Score = 27.6 bits (61), Expect = 8.2
Identities = 8/18 (44%), Positives = 9/18 (50%)
Query: 125 AEVFALRDAGELAEGATA 142
A VF + G L GA A
Sbjct: 409 ARVFGFAERGVLQPGAWA 426
>3o8s_A Nudix hydrolase, ADP-ribose pyrophosphatase; structural genomics,
joint center for structural genomics, J protein
structure initiative; 2.27A {Streptococcus suis}
Length = 206
Score = 27.1 bits (60), Expect = 8.7
Identities = 6/32 (18%), Positives = 12/32 (37%)
Query: 81 MRRCVELATKAVGSTSPNPMVGCVIVKDGKIV 112
+ +L G +P I ++ KI+
Sbjct: 53 LEVVKDLFCNETGYQTPKLDTRAAIFQEDKIL 84
>2z6i_A Trans-2-enoyl-ACP reductase II; fatty acid synthesis, antibiotics,
oxidoreductase, flavoprotein; HET: FMN; 1.70A
{Streptococcus pneumoniae} PDB: 2z6j_A*
Length = 332
Score = 27.3 bits (61), Expect = 9.8
Identities = 12/37 (32%), Positives = 19/37 (51%), Gaps = 5/37 (13%)
Query: 160 EALIKAKVKKVVVGMLDPNPIVNSKGLERLRDAGIDV 196
+ +I+ VK V G +P+ + ER +AGI V
Sbjct: 82 DLVIEEGVKVVTTGAGNPSKYM-----ERFHEAGIIV 113
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
0.317 0.136 0.401
Gapped
Lambda K H
0.267 0.0644 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,635,213
Number of extensions: 421648
Number of successful extensions: 1406
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1355
Number of HSP's successfully gapped: 65
Length of query: 427
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 331
Effective length of database: 4,021,377
Effective search space: 1331075787
Effective search space used: 1331075787
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.7 bits)