RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14502
(352 letters)
>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 = 473 bits (1220), Expect = e-168
Identities = 126/357 (35%), Positives = 200/357 (56%), Gaps = 11/357 (3%)
Query: 1 MTLALQQAKLSINS-SPNPRVGCVIVKEKRIISCGYTKSPGGNHAEIDALLNAAAQGYDV 59
M LAL AK NP VG V+VK+ +I+ G G HAE+ A+ A G
Sbjct: 18 MKLALDLAKQGEGQTESNPLVGAVVVKDGQIVGMGAHLKYGEAHAEVHAIHMA---GAHA 74
Query: 60 YNSTVYITLEPCSYFGYTPPCTEALIKSGIKKVIIAINDPNPLVSGKGVAQLISAGISVK 119
+ +Y+TLEPCS++G TPPC E +I SGIK+V +A+ DPNPLV+G+G++ + AGI V+
Sbjct: 75 EGADIYVTLEPCSHYGKTPPCAELIINSGIKRVFVAMRDPNPLVAGRGISMMKEAGIEVR 134
Query: 120 QGLMQKEAYEINIGFFSRMQRGIPWVRMKIASSLDNKTSLYNNSSQWITSKESRNDSHIW 179
+G++ +A +N F M+ G+P+V +K A+SLD K + S+WITS+ +R D+ +
Sbjct: 135 EGILADQAERLNEKFLHFMRTGLPYVTLKAAASLDGKIATSTGDSKWITSEAARQDAQQY 194
Query: 180 RARSCAILTGIGTVLKDNPRLNVRSIKTSHQPYRIVIDSYLRIDPFFRVLKGGGS--CIF 237
R +IL G+GTV DNP L R + QP R+++D+ L I +V+ + IF
Sbjct: 195 RKTHQSILVGVGTVKADNPSLTCRLPNVTKQPVRVILDTVLSIPEDAKVICDQIAPTWIF 254
Query: 238 TATDLPM-KRKILEDLGHEVIVLPNNLGKVDLQAVIIELGKRKINELHIEAGYQLNTALI 296
T K+K L G + L ++ + V+ L + I +++E G ++ + +
Sbjct: 255 TTARADEEKKKRLSAFGVNIFTLET--ERIQIPDVLKILAEEGIMSVYVEGGSAVHGSFV 312
Query: 297 LEGCVDELLLYISPILIG--EAYNMFTLPPHYSLDKKIKLKFHEIQKIGPDIRILAR 351
EGC E++ Y +P LIG A ++ + S+ L+F +I +IG DI++ A+
Sbjct: 313 KEGCFQEIIFYFAPKLIGGTHAPSLISGEGFQSMKDVPLLQFTDITQIGRDIKLTAK 369
>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 = 466 bits (1202), Expect = e-165
Identities = 145/368 (39%), Positives = 217/368 (58%), Gaps = 26/368 (7%)
Query: 1 MTLALQQAKLSI-NSSPNPRVGCVIVKEKRIISCGYTKSPGGNHAEIDALLNA--AAQGY 57
M AL+ A+ + PNP VGCVIVK+ I+ GY + G HAE+ AL A A+G
Sbjct: 34 MARALKLAQRGRFTTHPNPNVGCVIVKDGEIVGEGYHQRAGEPHAEVHALRMAGEKAKG- 92
Query: 58 DVYNSTVYITLEPCSYFGYTPPCTEALIKSGIKKVIIAINDPNPLVSGKGVAQLISAGIS 117
+T Y+TLEPCS+ G TPPC +ALI +G+ +V+ ++ DPNP V+G+G+ +L AGI
Sbjct: 93 ----ATAYVTLEPCSHHGRTPPCCDALIAAGVARVVASMQDPNPQVAGRGLYRLQQAGID 148
Query: 118 VKQGLMQKEAYEINIGFFSRMQRGIPWVRMKIASSLDNKTSLYNNSSQWITSKESRNDSH 177
V GLM EA ++N GF RM+ G P++++K+ +SLD +T++ + SQWITS ++R D
Sbjct: 149 VSHGLMMSEAEQLNKGFLKRMRTGFPYIQLKLGASLDGRTAMASGESQWITSPQARRDVQ 208
Query: 178 IWRARSCAILTGIGTVLKDNPRLNVR------------SIKTSHQPYRIVIDSYLRIDPF 225
+ RA+S AILT TVL D+P L VR + QP RIVIDS R+ P
Sbjct: 209 LLRAQSHAILTSSATVLADDPALTVRWSELDEQTQALYPQQNLRQPIRIVIDSQNRVTPV 268
Query: 226 FRVLKGGGSC-IFTATDLPMKRKILEDLGHEVIVLPNNLGKVDLQAVIIELGKRKINELH 284
R+++ G + + +++P + G +DL ++++LGK++IN +
Sbjct: 269 HRIVQQPGETWFARTQEDSREWP----ETVRTLLIPEHKGHLDLVVLMMQLGKQQINSIW 324
Query: 285 IEAGYQLNTALILEGCVDELLLYISPILIG-EAYNMFTLPPHYSLDKKIKLKFHEIQKIG 343
+EAG L AL+ G VDEL++YI+P L+G +A + TLP L + KF EI+ +G
Sbjct: 325 VEAGPTLAGALLQAGLVDELIVYIAPKLLGSDARGLCTLPGLEKLADAPQFKFKEIRHVG 384
Query: 344 PDIRILAR 351
PD+ +
Sbjct: 385 PDVCLHLV 392
>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 = 436 bits (1124), Expect = e-154
Identities = 105/352 (29%), Positives = 182/352 (51%), Gaps = 15/352 (4%)
Query: 1 MTLALQQAKLSI-NSSPNPRVGCVIVKEKRIISCGYTKSPGGNHAEIDALLNAAAQGYDV 59
M A++ AK + +PNP VG V+VK+ RII+ G+ GG HAE A+ +A +G D+
Sbjct: 18 MKRAIELAKKGLGRVNPNPPVGAVVVKDGRIIAEGFHPYFGGPHAERMAIESARKKGEDL 77
Query: 60 YNSTVYITLEPCSYFGYTPPCTEALIKSGIKKVIIAINDPNPLVSGKGVAQLISAGISVK 119
+T+ +TLEPC + G TPPCT+ +I+SGIK V+I DPNP VSG GV + + GI V
Sbjct: 78 RGATLIVTLEPCDHHGKTPPCTDLIIESGIKTVVIGTRDPNP-VSGNGVEKFRNHGIEVI 136
Query: 120 QGLMQKEAYEINIGFFSRMQRGIPWVRMKIASSLDNKTSLYNNSSQWITSKESRNDSHIW 179
+G++++E ++ F + + + P+V +K AS+LD K + + S+WIT + R H
Sbjct: 137 EGVLEEEVKKLCEFFITYVTKKRPFVALKYASTLDGKIADHRGDSKWITD-KLRFKVHEM 195
Query: 180 RARSCAILTGIGTVLKDNPRLNVRSIKTSHQPYRIVIDSYLRIDPFFRVLKGGGSCIFTA 239
R A+L G GTVLKDNP+L R +K P R+++D + + + +
Sbjct: 196 RNIYSAVLVGAGTVLKDNPQLTCR-LKEGRNPVRVILDRKGVLSGKVFRVFEENARVIVF 254
Query: 240 TDLPMKRKILEDLGHEVIVLPNNLGKVDLQAVIIELGKRKINELHIEAGYQLNTALILEG 299
T+ + + L +++++ L +R I+ + +E G ++ + +
Sbjct: 255 TE--------SEEAEYPPHVEKALSDCSVESILRNLYERDIDSVLVEGGSKVFSEFLDHA 306
Query: 300 CVDELLLYISPILIGEAYNMFTLPPHYSLDKKIKLKFHEIQKIGPDIRILAR 351
D + + S + G+ ++F+ + K K ++ + + R
Sbjct: 307 --DVVFGFYSTKIFGKGLDVFSGYLS-DVSVPPKFKVVNVEFSDSEFLVEMR 355
>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 = 253 bits (648), Expect = 4e-84
Identities = 77/218 (35%), Positives = 112/218 (51%), Gaps = 10/218 (4%)
Query: 141 GIPWVRMKIASSLDNKTSLYNNSSQWITSKESRNDSHIWRARSCAILTGIGTVLKDNPRL 200
P++ + +LD K + NN S+ I+ +E H RA I+ GIGTVLKD+PRL
Sbjct: 2 KKPYIISNVGMTLDGKLATINNDSR-ISCEEDLIRVHKIRANVDGIMVGIGTVLKDDPRL 60
Query: 201 NVRSIKTSHQPYRIVIDSYLRIDPFFRVLKGGGSC-IFTATDLPM----KRKILEDLGHE 255
V IK+ P RIV+DS LR+ RVL I T D K KILED+G E
Sbjct: 61 TVHKIKSDRNPVRIVVDSKLRVPLNARVLNKDAKTIIATTEDTNEEKEKKIKILEDMGVE 120
Query: 256 VIVLPNNLGKVDLQAVIIELGKRKINELHIEAGYQLNTALILEGCVDELLLYISPILIG- 314
V+ GKVDL+ ++ L + I + +E G LN + EG VDE+ +YI+P + G
Sbjct: 121 VVKCGR--GKVDLKKLMDILYDKGIKSILLEGGGTLNWGMFKEGLVDEVSVYIAPKIFGG 178
Query: 315 -EAYNMFTLPPHYSLDKKIKLKFHEIQKIGPDIRILAR 351
EA ++D+ +KL+ ++G I + +
Sbjct: 179 KEAPTYVDGEGFKTVDECVKLELKNFYRLGEGIVLEFK 216
>2p4g_A Hypothetical protein; pyrimidine reductase-like protein, structural
genomics, JOIN for structural genomics, JCSG; 2.30A
{Corynebacterium diphtheriae}
Length = 270
Score = 194 bits (494), Expect = 3e-60
Identities = 45/236 (19%), Positives = 77/236 (32%), Gaps = 24/236 (10%)
Query: 129 EINIGFFSRMQRGIPWVRMKIASSLDNKTSLYNNSSQWITSKESRNDSHIWRARSCAILT 188
+I G P R +S++ +L + S + + + R + AI+
Sbjct: 20 QIVYGALPLTTINEPECRAIAITSINGSATL-SGVSGPMGDQTDADLLIQLRGWADAIVV 78
Query: 189 GIGTVLKDNPRLNVRSIKT---------SHQPYRIVIDSYLRIDPFFRVLKGGGS----- 234
G T K+N V P ++ L D +
Sbjct: 79 GAETARKENYGPVVLPHGIKNQRQKLGRCGLPKLTLLSKSLYFDFSSELFSPDLPSELSP 138
Query: 235 CIFTATDLP------MKRKILEDLGHEVIVLPNNLGKVDLQAVIIELGKRKINELHIEAG 288
+ T + + L D+G EVIV P L+ L R++ ++ IE G
Sbjct: 139 LVITQQPANNSEQWDQRLQKLIDVGVEVIVAPT--STNPLKIAFDALHARRLKKISIEGG 196
Query: 289 YQLNTALILEGCVDELLLYISPILIG-EAYNMFTLPPHYSLDKKIKLKFHEIQKIG 343
+ + G VD L L I+P +I +F S ++ L+ G
Sbjct: 197 PSVYRQALSLGIVDRLHLTIAPNIICPVESPLFGKISDDSFTTRLVLEMLSSSPNG 252
>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 = 94.4 bits (235), Expect = 2e-23
Identities = 34/139 (24%), Positives = 54/139 (38%), Gaps = 30/139 (21%)
Query: 1 MTLALQQAKLSINSSPNPRVGCVIVKEKRIISCGY-------------------TKSPGG 41
M A +K S + VG V+VK RII+ GY
Sbjct: 46 MANAELISKRS--TCNRAYVGAVLVKNNRIIATGYNGGVADTDNCDDVGHEMEDGHCIRT 103
Query: 42 NHAEIDALLNAAAQGYDVYNSTVYITLEPCSYFGYTPPCTEALIKSGIKKVIIAINDPNP 101
HAE++AL+ A +G N+ +Y+T PC CT+AL+++G+KK+
Sbjct: 104 VHAEMNALIQCAKEGISANNTEIYVTHFPCI------NCTKALLQAGVKKITYNTAYRI- 156
Query: 102 LVSGKGVAQLISAGISVKQ 120
+ + + Q
Sbjct: 157 --HPFAIELMTQKEVEYVQ 173
>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 = 81.5 bits (202), Expect = 7e-19
Identities = 33/145 (22%), Positives = 53/145 (36%), Gaps = 20/145 (13%)
Query: 1 MTLALQQAKLSINSSPNPRVGCVIVKEK--RIISCGY-----TKSPGGNHAEIDALLNAA 53
M +A ++A L P +G ++ K ++ G+ S H EI L N
Sbjct: 18 MDIAYEEAALGYKEGGVP-IGGCLINNKDGSVLGRGHNMRFQKGSATL-HGEISTLENCG 75
Query: 54 AQG-YDVYNSTVYITLEPCSYFGYTPPCTEALIKSGIKKVIIAINDPNPLVSGKGVAQLI 112
++T+Y TL PC CT A+I GI + ++ N KG L
Sbjct: 76 RLEGKVYKDTTLYTTLSPCDM------CTGAIIMYGIPRCVVGENVNF---KSKGEKYLQ 126
Query: 113 SAGISVKQGLMQKEAYEINIGFFSR 137
+ G + + +I F
Sbjct: 127 TRGH-EVVVVDDERCKKIMKQFIDE 150
>2w4l_A DCMP deaminse, deoxycytidylate deaminase; pyrimidine metabolism,
nucleotide biosynthesis, zinc, hexamer, hydrolase,
metal-binding, phosphoprotein; 2.10A {Homo sapiens}
Length = 178
Score = 80.2 bits (198), Expect = 3e-18
Identities = 41/159 (25%), Positives = 68/159 (42%), Gaps = 37/159 (23%)
Query: 1 MTLALQQAKLSINSSPNPRVGCVIV-KEKRIISCGY-----------------------T 36
M +A A+ S PN +VG IV E +I+ GY T
Sbjct: 17 MAVAFLSAQRS--KDPNSQVGACIVNSENKIVGIGYNGMPNGCSDDVLPWRRTAENKLDT 74
Query: 37 KSPGGNHAEIDALLNAAAQGYDVYNSTVYITLEPCSYFGYTPPCTEALIKSGIKKVIIAI 96
K P HAE++A++N DV ++Y+ L PC+ C + +I++GIK+VI
Sbjct: 75 KYPYVCHAELNAIMNKN--LTDVKGCSMYVALFPCNE------CAKLIIQAGIKEVIFMS 126
Query: 97 NDPNPLVSGKGVAQLIS-AGISVKQGLMQKEAYEINIGF 134
+ + L + AG++ ++ + +I I F
Sbjct: 127 DKYHDSDEATAARLLFNMAGVTFRK--FIPKCSKIVIDF 163
>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 = 75.5 bits (186), Expect = 1e-16
Identities = 28/105 (26%), Positives = 42/105 (40%), Gaps = 12/105 (11%)
Query: 1 MTLALQQAKLSINSSPNPRVGCVIVKEKRIISCGYTKSPGGN----HAEIDALLNAAA-- 54
+ A+ A +N+ G VIVK+ II+ G N HAE+ A+ A
Sbjct: 15 LKRAVTLACEGVNAGIGGPFGAVIVKDGAIIAEGQNNVTTSNDPTAHAEVTAIRKACKVL 74
Query: 55 QGYDVYNSTVYITLEPCSYFGYTPPCTEALIKSGIKKVIIAINDP 99
Y + + +Y + EPC P C A+ + K V A
Sbjct: 75 GAYQLDDCILYTSCEPC------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 = 73.4 bits (181), Expect = 7e-16
Identities = 44/156 (28%), Positives = 69/156 (44%), Gaps = 30/156 (19%)
Query: 1 MTLALQQAKLSINSSPNPRVGCVIVKEKRIISCGYTKSPGGN----HAEIDALLNAAA-- 54
M AL AK + + P VG V+V R+I G+ + G + HAEI AL
Sbjct: 13 MRHALTLAKRAWDEREVP-VGAVLVHNNRVIGEGWNRPIGRHDPTAHAEIMALRQGGLVM 71
Query: 55 QGYDVYNSTVYITLEPCSYFGYTPPCTEALIKSGIKKVIIAINDPNPLVSGKG-----VA 109
Q Y + ++T+Y+TLEPC C A+I S I +V+ D K +
Sbjct: 72 QNYRLIDATLYVTLEPC------VMCAGAMIHSRIGRVVFGARDA------KTGAAGSLM 119
Query: 110 QLISAG-----ISVKQGLMQKEAYEINIGFFSRMQR 140
++ + + +G++ E + FF RM+R
Sbjct: 120 DVLHHPGMNHRVEITEGILADECAALLSDFF-RMRR 154
>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 = 72.9 bits (180), Expect = 8e-16
Identities = 38/152 (25%), Positives = 67/152 (44%), Gaps = 20/152 (13%)
Query: 1 MTLALQQAKLSINSSPNPRVGCVIVKEKRIISCGYTKSPGGN----HAEIDALLNAAA-- 54
MTLA+++AK + P +G +I K+ +I+ + HAE A+ AA
Sbjct: 11 MTLAIEEAKKAAQLGEVP-IGAIITKDDEVIARAHNLRETLQQPTAHAEHIAIERAAKVL 69
Query: 55 QGYDVYNSTVYITLEPCSYFGYTPPCTEALIKSGIKKVIIAINDPNPLVSGKGVAQLISA 114
+ + T+Y+TLEPC C ++ S I +V+ +DP SG + L+
Sbjct: 70 GSWRLEGCTLYVTLEPC------VMCAGTIVMSRIPRVVYGADDPKGGCSG-SLMNLLQQ 122
Query: 115 G-----ISVKQGLMQKEAYEINIGFFSRMQRG 141
V +G++++ + FF + R
Sbjct: 123 SNFNHRAIVDKGVLKEACSTLLTTFF-KNLRA 153
>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 = 73.0 bits (180), Expect = 9e-16
Identities = 34/105 (32%), Positives = 50/105 (47%), Gaps = 13/105 (12%)
Query: 1 MTLALQQAKLSINSSPNPRVGCVIVKEKRIISCGYTKSPGGN----HAEIDALLNAAA-- 54
+ +AL++AK + P VG +IVKE IIS + HAE+ A+ A
Sbjct: 27 LKVALREAKRAFEKGEVP-VGAIIVKEGEIISKAHNSVEELKDPTAHAEMLAIKEACRRL 85
Query: 55 QGYDVYNSTVYITLEPCSYFGYTPPCTEALIKSGIKKVIIAINDP 99
+ +Y+TLEPC C+ AL+ S I+KVI + D
Sbjct: 86 NTKYLEGCELYVTLEPC------IMCSYALVLSRIEKVIFSALDK 124
>2nx8_A TRNA-specific adenosine deaminase; TAD, hydrolase; 2.00A
{Streptococcus pyogenes serotype M6}
Length = 179
Score = 73.0 bits (180), Expect = 1e-15
Identities = 40/157 (25%), Positives = 74/157 (47%), Gaps = 32/157 (20%)
Query: 1 MTLALQQAKLSINSSPNPRVGCVIVKEKRIISCGY-----TKSPGGNHAEIDALLNAAA- 54
M AL++++ S+ + P +GCVIVK+ II G+ + HAE+ A+ A A
Sbjct: 20 MQEALKESEKSLQKAEIP-IGCVIVKDGEIIGRGHNAREESNQAIM-HAEMMAINEANAH 77
Query: 55 -QGYDVYNSTVYITLEPCSYFGYTPPCTEALIKSGIKKVIIAINDPNPLVSGKG-----V 108
+ + ++T+++T+EPC C+ A+ + I VI ++ K +
Sbjct: 78 EGNWRLLDTTLFVTIEPC------VMCSGAIGLARIPHVIYGASNQ------KFGGVDSL 125
Query: 109 AQLISAG-----ISVKQGLMQKEAYEINIGFFSRMQR 140
Q+++ + V++GL+ + I FF R R
Sbjct: 126 YQILTDERLNHRVQVERGLLAADCANIMQTFF-RQGR 161
>2a8n_A Cytidine and deoxycytidylate deaminase; RNA editing, RNA binding
protein; 1.60A {Agrobacterium tumefaciens} SCOP:
c.97.1.2
Length = 144
Score = 72.1 bits (178), Expect = 1e-15
Identities = 28/105 (26%), Positives = 48/105 (45%), Gaps = 13/105 (12%)
Query: 1 MTLALQQAKLSINSSPNPRVGCVIVKEKRIISCGYTKSPGGN----HAEIDALLNAAA-- 54
M LAL +A+ + P +G V+V + R+I+ ++ N HAEI + A
Sbjct: 8 MELALVEARSAGERDEVP-IGAVLVLDGRVIARSGNRTRELNDVTAHAEIAVIRMACEAL 66
Query: 55 QGYDVYNSTVYITLEPCSYFGYTPPCTEALIKSGIKKVIIAINDP 99
+ + +Y+TLEPC C A+ + I+++ DP
Sbjct: 67 GQERLPGADLYVTLEPC------TMCAAAISFARIRRLYYGAQDP 105
>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 = 72.1 bits (177), Expect = 4e-15
Identities = 33/163 (20%), Positives = 57/163 (34%), Gaps = 29/163 (17%)
Query: 1 MTLALQQAKLSINSSPNPRVGCVIVKEK--RIISCGYTKSPGGN----HAEIDALLNAAA 54
M L+ + +I + P + + +I+ G + G HAEI AL A A
Sbjct: 32 MGYVLELVRANIAADGGP-FAAAVFERDSGLLIAAGTNRVVPGRCSAAHAEILALSLAQA 90
Query: 55 --QGYDVYNS-----TVYITLEPCSYFGYTPPCTEALIKSGIKKVIIAINDPNPLVSGKG 107
+D+ + + EPC C A+I SG++ ++ A + G
Sbjct: 91 KLDTHDLSADGLPACELVTSAEPC------VMCFGAVIWSGVRSLVCAARSDDVEAIGFD 144
Query: 108 VAQLISA--------GISVKQGLMQKEAYEINIGFFSRMQRGI 142
GI+V GL++ A + + I
Sbjct: 145 EGPRPENWMGGLEARGITVTTGLLRDAACALLREYN-ACNGVI 186
>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 = 71.5 bits (176), Expect = 5e-15
Identities = 35/167 (20%), Positives = 57/167 (34%), Gaps = 44/167 (26%)
Query: 1 MTLALQQAK--LSINSSPNPRVGCVIVKEKRIISCGY-----TKSPGGNHAEIDALLNAA 53
M A+ AK L P VGC++V ++ G TK+ HAE+ A+
Sbjct: 30 MEEAMHMAKEALENTEVP---VGCLMVYNNEVVGKGRNEVNQTKNATR-HAEMVAIDQVL 85
Query: 54 AQGYDVY--------NSTVYITLEPCSYFGYTPPCTEALIKSGIKKVIIAINDPNPLVSG 105
++ +Y+T+EPC C AL I V+ +
Sbjct: 86 DWCRQSGKSPSEVFEHTVLYVTVEPC------IMCAAALRLMKIPLVVYGCQNE------ 133
Query: 106 KG-----VAQLISAG-------ISVKQGLMQKEAYEINIGFFSRMQR 140
+ V + SA G +EA E+ F+ + +
Sbjct: 134 RFGGCGSVLNIASADLPNTGRPFQCIPGYRAEEAVEMLKTFY-KQEN 179
>1vq2_A DCMP deaminase, deoxycytidylate deaminase; hydrolase; HET: DDN;
2.20A {Enterobacteria phage T4} SCOP: c.97.1.2
Length = 193
Score = 65.4 bits (159), Expect = 1e-12
Identities = 28/94 (29%), Positives = 47/94 (50%), Gaps = 9/94 (9%)
Query: 43 HAEIDALLNAAAQGYDVYNSTVYITLEPCSYFGYTPPCTEALIKSGIKKVIIAINDPNPL 102
HAE++A+L AA G + +T+Y+TL PC C +A+ +SGIKK++
Sbjct: 104 HAELNAILFAAENGSSIEGATMYVTLSPCPD------CAKAIAQSGIKKLVYCETYDKNK 157
Query: 103 VSGKGVAQLISAGISVKQGLMQKEAYEINIGFFS 136
+ L +AGI V + +K ++N +
Sbjct: 158 PGWDDI--LRNAGIEVFN-VPKKNLNKLNWENIN 188
Score = 41.9 bits (98), Expect = 9e-05
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 3/44 (6%)
Query: 1 MTLALQQAKLSINSSPNPRVGCVIVKEKRIISCGYTKSP-GGNH 43
+ +A ++ S + +VG VI K RIIS GY SP GG +
Sbjct: 7 LQIAYLVSQES--KCCSWKVGAVIEKNGRIISTGYNGSPAGGVN 48
>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 = 63.1 bits (153), Expect = 6e-11
Identities = 72/401 (17%), Positives = 118/401 (29%), Gaps = 168/401 (41%)
Query: 24 IVKEKRIISCGY-----TKSPGGNHAEIDALLNAAA------------QG---------- 56
+VK K +I K P + AL A QG
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSN-SALFRAVGEGNAQLVAIFGGQGNTDDYFEELR 174
Query: 57 --YDVYNSTV--YI-----TLEPCSYFGYTPPCTEALIKSGIKKVIIAINDPN--PLVSG 105
Y Y+ V I TL T E + G+ ++ + +P+ P
Sbjct: 175 DLYQTYHVLVGDLIKFSAETLSELI---RTTLDAEKVFTQGL-NILEWLENPSNTP---- 226
Query: 106 KGVAQLISAGISVKQ-GLMQKEAYEI---NIG-----FFSRMQ------RGIPWVRMKIA 150
L+S IS G++Q Y + +G S ++ +G+ + IA
Sbjct: 227 -DKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLV-TAVAIA 284
Query: 151 SSLDNKTSLYNNSSQWITSKESRNDSHIWRARSCAILTGIGTVLKDNPRLNVRSIKTSHQ 210
+ D+ S + + + IT +L IG VR ++
Sbjct: 285 ET-DSWESFFVSVRKAIT-----------------VLFFIG----------VR----CYE 312
Query: 211 PY-------RIVIDSYLRIDPFFRVLKGGGSCIFTATDLPMKRKILEDLGHEVIVLPNNL 263
Y I+ DS + G + PM L + NL
Sbjct: 313 AYPNTSLPPSILEDS---------LENNEG----VPS--PM-------LS--IS----NL 344
Query: 264 GKVDLQAVIIELGKRKINELHIEAGYQLNTALILEGCVDELLLYISPILIGEAYNMFTL- 322
+ +Q + K N H+ AG Q+ +L+ +
Sbjct: 345 TQEQVQDYV-----NKTNS-HLPAGKQVEISLV-----------NGA-------KNLVVS 380
Query: 323 -PPH--YSLD---KKIKLKFHEIQ-KIGPD----IRILARF 352
PP Y L+ +K K Q +I P ++ RF
Sbjct: 381 GPPQSLYGLNLTLRKAKAPSGLDQSRI-PFSERKLKFSNRF 420
>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 = 48.3 bits (114), Expect = 2e-06
Identities = 56/374 (14%), Positives = 107/374 (28%), Gaps = 125/374 (33%)
Query: 46 IDALLNAAAQGYDVYNSTVYITLEPCSY-FGYTPPCTEALIKSGIKKVIIA-----INDP 99
LL+ + + V L +Y F +P TE S + ++ I ND
Sbjct: 68 FWTLLSKQEEMVQKFVEEV---LRI-NYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDN 123
Query: 100 NPL----VS-GKGVAQLISA--------GISV-------KQGLMQKEAYEI--NIGFFSR 137
VS + +L A + + K + A ++ + +
Sbjct: 124 QVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWV----ALDVCLSYKVQCK 179
Query: 138 MQRGIPWVRM----KIASSLDNKTSLYNNSSQWITSKESRNDSHIWRARSCAILTGIGTV 193
M I W+ + + L+ L + SR+D
Sbjct: 180 MDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP---NWTSRSDHS---------------- 220
Query: 194 LKDNPRLNVRSIKT------SHQPYR---IVID--SYLR-IDPFFRVLKGGGSC--IFTA 239
N +L + SI+ +PY +V+ + + F SC + T
Sbjct: 221 --SNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF------NLSCKILLTT 272
Query: 240 TDLPMKRKILEDLGHEVIVLPNNLGKVDLQAVIIELGKRKINELHIEAGYQLNTALILEG 299
+++ + L + L + L ++ L L+
Sbjct: 273 RF----KQVTDFLS------AATTTHISLDHHSMTLTPDEVKSL---------LLKYLDC 313
Query: 300 CVDEL---LLYISPI---LIGEAY----NMFTLPPHYSLDKKIK--------LKFHEIQK 341
+L +L +P +I E+ + H + DK L+ E +K
Sbjct: 314 RPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK 373
Query: 342 ------IGP-DIRI 348
+ P I
Sbjct: 374 MFDRLSVFPPSAHI 387
Score = 33.3 bits (75), Expect = 0.15
Identities = 21/152 (13%), Positives = 55/152 (36%), Gaps = 29/152 (19%)
Query: 212 YRIVIDSYLRIDPFFRVLKGGGSCIFTATDLP-MKRKIL--EDLGHEVIVLPNNLGKVDL 268
Y+ ++ + D F C D+ M + IL E++ H +I+ + +
Sbjct: 18 YKDILSVFE--DAFVDNF----DC----KDVQDMPKSILSKEEIDH-IIMSKDAVSGTLR 66
Query: 269 QAVIIELGKRKINELHIEAGYQLNTALILEGCVDELLLYISPILIGEAY-----NMFTLP 323
+ + ++ + +E ++N ++ E P ++ Y ++
Sbjct: 67 LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTE---QRQPSMMTRMYIEQRDRLYNDN 123
Query: 324 PHYS------LDKKIKLKFHEIQKIGPDIRIL 349
++ L +KL+ + ++ P +L
Sbjct: 124 QVFAKYNVSRLQPYLKLRQA-LLELRPAKNVL 154
>3jtw_A Dihydrofolate reductase; YP_805003.1, structural GE joint center
for structural genomics, JCSG, protein structu
initiative; 1.90A {Pediococcus pentosaceus atcc 25745}
Length = 178
Score = 38.8 bits (91), Expect = 0.001
Identities = 10/49 (20%), Positives = 21/49 (42%)
Query: 267 DLQAVIIELGKRKINELHIEAGYQLNTALILEGCVDELLLYISPILIGE 315
++ + K K ++ I G ++ L+ +D +L PI +G
Sbjct: 97 SPVELVKRIQKEKGKDVWIVGGAKIIDPLVQANLIDTYILTTVPIFLGS 145
>2xw7_A Dihydrofolate reductase; oxidoreductase, NADPH; HET: PG4 NDP; 2.00A
{Mycobacterium smegmatis}
Length = 178
Score = 38.5 bits (90), Expect = 0.001
Identities = 10/65 (15%), Positives = 26/65 (40%), Gaps = 1/65 (1%)
Query: 267 DLQAVIIELGKRKI-NELHIEAGYQLNTALILEGCVDELLLYISPILIGEAYNMFTLPPH 325
D+ + EL ++ + G + + +DE+++ +P +G + +
Sbjct: 95 DVAELHPELVAAAGGKDVWVVGGGDVAAQFVAADLIDEIIVSYAPCTLGVGSRVLPMRSE 154
Query: 326 YSLDK 330
+ LD
Sbjct: 155 WVLDD 159
>2gd9_A Hypothetical protein YYAP; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2, oxidoreductase; 2.30A {Bacillus subtilis}
Length = 189
Score = 38.5 bits (90), Expect = 0.001
Identities = 15/49 (30%), Positives = 25/49 (51%)
Query: 267 DLQAVIIELGKRKINELHIEAGYQLNTALILEGCVDELLLYISPILIGE 315
++ + +L K ++ + G L T I G VDE L I P+++GE
Sbjct: 106 NILEEVNKLKKNPGKDIWLYGGASLITTFINLGLVDEFRLSIHPVVLGE 154
>3kgy_A Bifunctional deaminase-reductase domain protein; putative
dihydrofolate reductase, structural genomics; HET: MSE
NDP; 1.50A {Chloroflexus aurantiacus j-10-fl}
Length = 231
Score = 36.5 bits (84), Expect = 0.008
Identities = 11/53 (20%), Positives = 22/53 (41%)
Query: 263 LGKVDLQAVIIELGKRKINELHIEAGYQLNTALILEGCVDELLLYISPILIGE 315
+ QA+ + ++ I G + + G VDEL + + P++ G
Sbjct: 145 VNDGPEQALALAREAAGERDIRISGGANVIQQYLNLGLVDELEIALIPVIFGG 197
>1cz3_A Dihydrofolate reductase; dimer, hyperthermophIle, oxidoreductase;
2.10A {Thermotoga maritima} SCOP: c.71.1.1 PDB: 1d1g_A*
Length = 168
Score = 34.5 bits (80), Expect = 0.020
Identities = 15/79 (18%), Positives = 30/79 (37%), Gaps = 5/79 (6%)
Query: 267 DLQAVIIELGKRKINELHIEAGYQLNTALILEGCVDELLLYISPILIGEAYNMFTLPPHY 326
V+ L + + + G + T + E VDEL + + P + G+ F
Sbjct: 81 SPADVVKFLEGKGYERVAVIGGKTVFTEFLREKLVDELFVTVEPYVFGKGIPFF--DE-- 136
Query: 327 SLDKKIKLKFHEIQKIGPD 345
+ LK E++++
Sbjct: 137 -FEGYFPLKLLEMRRLNER 154
>3ky8_A Putative riboflavin biosynthesis protein; structural genomic center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: MSE UNL; 2.12A {Shewanella loihica}
Length = 197
Score = 34.6 bits (80), Expect = 0.027
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 267 DLQAVIIELGKRKINELHIEAGYQLNTALILEGCVDELLLYISPILIGE 315
L +I +L + NEL+I+ G + E +DE+++ PIL+G
Sbjct: 114 KLVDIIADLNAKGFNELYIDGG-VTIQNFLKEDLIDEMVITRFPILLGG 161
>3g8q_A Predicted RNA-binding protein, contains thump domain; cytidine
deaminase, ferredoxin-like domain; 2.40A {Methanopyrus
kandleri}
Length = 278
Score = 33.1 bits (75), Expect = 0.11
Identities = 18/82 (21%), Positives = 33/82 (40%), Gaps = 14/82 (17%)
Query: 12 INSSPNPRVGCVIVKEKRIISCGYTKSPGGNHAEIDALLNAAAQGYDVYNSTVYITLEPC 71
+N P V +++ I++ + HAE + +DV V++T PC
Sbjct: 16 LNEIPKRTVTAALLEGGEIVA---VEEADDEHAE-----RKLVRRHDVEGKVVFVTARPC 67
Query: 72 SYFGYTPPCTEALIKSGIKKVI 93
Y C L ++G+ V+
Sbjct: 68 LY------CARELAEAGVAGVV 83
>1r5t_A Cytidine deaminase; zinc dependent deaminase, RNA editing,
apobec-1 related protein, hydrolase; 2.00A
{Saccharomyces cerevisiae} SCOP: c.97.1.1
Length = 142
Score = 29.7 bits (67), Expect = 0.75
Identities = 14/66 (21%), Positives = 21/66 (31%), Gaps = 6/66 (9%)
Query: 19 RVGCVIVKEKRIISCG----YTKSPGGNHAEIDALLNAAAQGYDVYNSTVYITLEPCSYF 74
RVGC I+ +I G AE A++ G+ + I +
Sbjct: 33 RVGCSILTNNDVIFTGANVENASYSNCICAERSAMIQVLMAGHRSGWKCMVICGDSED-- 90
Query: 75 GYTPPC 80
PC
Sbjct: 91 QCVSPC 96
>3b8f_A Putative blasticidin S deaminase; cytidine deaminase, structural
genomics, MCSG, protein structure initiative; 1.90A
{Bacillus anthracis}
Length = 142
Score = 28.8 bits (64), Expect = 1.6
Identities = 9/42 (21%), Positives = 11/42 (26%)
Query: 39 PGGNHAEIDALLNAAAQGYDVYNSTVYITLEPCSYFGYTPPC 80
E A+L A V +S S PC
Sbjct: 48 STELCMETGAILEAHKFQKKVTHSICLARENEHSELKVLSPC 89
>2g9g_A Pngase, peptide N-glycanase; beta-sandwich, hydrolase; 2.00A {Mus
musculus} SCOP: b.18.1.29
Length = 221
Score = 28.6 bits (63), Expect = 2.5
Identities = 22/98 (22%), Positives = 37/98 (37%), Gaps = 10/98 (10%)
Query: 160 YNNSSQWITSKESRND-----SHIWR-ARSCAILTGIGTVLKDNPRLNVRSIKTSHQPYR 213
+++SS + S WR AR L + P N + K H Y
Sbjct: 8 HHHSSGLVPRGSHELGGRVSGSLAWRVARGETGLERKEILFI--PSENEKISKQFHLRYD 65
Query: 214 IVIDSYLRIDPFFRVLKGGGSCIFTATDLPMKRKILED 251
IV D Y+R+ + G + ++ + RK+ +D
Sbjct: 66 IVRDRYIRVSDNNTNISGWENGVWKMES--IFRKVEKD 101
>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 = 28.5 bits (64), Expect = 3.3
Identities = 10/37 (27%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 82 EALIKSGIKKVIIAINDPNPLVSGKGVAQLISAGISV 118
E+ I G+ + IA +DP ++ + + + GI V
Sbjct: 51 ESFIAEGVNGIAIAPSDPTAVIP--TIKKALEMGIPV 85
>2kif_A O6-methylguanine-DNA methyltransferase; methods development,
solution structure, DNA base repair methylguanine
methyltransferase; NMR {Vibrio parahaemolyticus AQ3810}
PDB: 2kim_A
Length = 108
Score = 26.8 bits (60), Expect = 4.7
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 4/46 (8%)
Query: 224 PFFRVLKGGGSCIFTATDLPMKRKILEDLGHEVIVLPNNLGKVDLQ 269
P+FRV+ G DL +++ LE E I + GK+ L+
Sbjct: 53 PWFRVINSQGKISLKGRDLDRQKQKLE---AEGIEVSEI-GKIALR 94
>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 = 4.7
Identities = 9/37 (24%), Positives = 15/37 (40%), Gaps = 2/37 (5%)
Query: 82 EALIKSGIKKVIIAINDPNPLVSGKGVAQLISAGISV 118
E I + I+ DP L + + + AGI +
Sbjct: 55 EQAIAKNPAGIAISAIDPVELTD--TINKAVDAGIPI 89
>2v36_B Gamma-glutamyltranspeptidase small chain; transferase, glutathione
biosynthesis, gamma-glutamyl transferase,
acyltransferase, zymogen; 1.85A {Bacillus subtilis} PDB:
3a75_B*
Length = 193
Score = 27.6 bits (62), Expect = 5.0
Identities = 7/28 (25%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 246 RKILEDLGHEVIVLPNNLGKVDLQAVII 273
L +GH+ P ++G ++Q++ I
Sbjct: 133 LSKLNGMGHKFGTSPVDIG--NVQSISI 158
>3bww_A Protein of unknown function DUF692/COG3220; structural genomics,
joint center for structural genomics, J protein
structure initiative, PSI-2; HET: MSE; 2.20A
{Haemophilus somnus}
Length = 307
Score = 27.7 bits (61), Expect = 5.2
Identities = 12/42 (28%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 248 ILEDLGHEVIVLPNNLGKVDLQAVIIELGKRKINELHIEAGY 289
I D+ + + V N G +D I + +++N +HI AG+
Sbjct: 169 IHLDVNN-IYVNAVNHGLLDPHVFIDNVDLKRVNYIHI-AGH 208
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 0.138 0.407
Gapped
Lambda K H
0.267 0.0685 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,491,194
Number of extensions: 342150
Number of successful extensions: 976
Number of sequences better than 10.0: 1
Number of HSP's gapped: 926
Number of HSP's successfully gapped: 48
Length of query: 352
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 257
Effective length of database: 4,049,298
Effective search space: 1040669586
Effective search space used: 1040669586
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)