RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4411
(99 letters)
>1ml4_A Aspartate transcarbamoylase; beta pleated sheet, protein inhibitor
complex, transferase; HET: PAL; 1.80A {Pyrococcus
abyssi} SCOP: c.78.1.1 c.78.1.1
Length = 308
Score = 128 bits (323), Expect = 5e-38
Identities = 47/125 (37%), Positives = 60/125 (48%), Gaps = 32/125 (25%)
Query: 7 LIDTVAVLSGYADVIVLRHPEPGAV--------------------------------KEE 34
L DT+ + Y DVIV+RHP+ GA K+E
Sbjct: 90 LRDTIKTVEQYCDVIVIRHPKEGAARLAAEVAEVPVINAGDGSNQHPTQTLLDLYTIKKE 149
Query: 35 MGRVNGLTITMVGDLKNGRTVHSLARLLTLYDVKLNYVSPPNLGMPESIQEFVASKGKQQ 94
GR++GL I ++GDLK GRTVHSLA LT YDV+L +SP L MP I E + KG +
Sbjct: 150 FGRIDGLKIGLLGDLKYGRTVHSLAEALTFYDVELYLISPELLRMPRHIVEELREKGMKV 209
Query: 95 EVYER 99
Sbjct: 210 VETTT 214
>3csu_A Protein (aspartate carbamoyltransferase); transferase (carbamoyl-P;
1.88A {Escherichia coli} SCOP: c.78.1.1 c.78.1.1 PDB:
1r0b_A* 1q95_A* 1raa_A* 1rab_A* 1rac_A* 1rad_A* 1rae_A*
1raf_A* 1rag_A* 1rah_A* 1rai_A* 1r0c_A* 1za2_A* 1za1_A*
2fzc_A* 2fzg_A* 2fzk_A* 2h3e_A* 2ipo_A* 2qg9_A ...
Length = 310
Score = 125 bits (317), Expect = 4e-37
Identities = 40/127 (31%), Positives = 60/127 (47%), Gaps = 34/127 (26%)
Query: 7 LIDTVAVLSGYADVIVLRHPEPGAV---------------------------------KE 33
L DT++V+S Y D IV+RHP+ GA +E
Sbjct: 88 LADTISVISTYVDAIVMRHPQEGAARLATEFSGNVPVLNAGDGSNQHPTQTLLDLFTIQE 147
Query: 34 EMGRVNGLTITMVGDLKNGRTVHSLARLLTLYD-VKLNYVSPPNLGMPESIQEFVASKGK 92
GR++ L + MVGDLK GRTVHSL + L +D + +++P L MP+ I + + KG
Sbjct: 148 TQGRLDNLHVAMVGDLKYGRTVHSLTQALAKFDGNRFYFIAPDALAMPQYILDMLDEKGI 207
Query: 93 QQEVYER 99
++
Sbjct: 208 AWSLHSS 214
>4ekn_B Aspartate carbamoyltransferase; atcase, aspartate
transcarbamoylase, pyrimidine biosynthesis
thermostability, substrate channeling; 2.50A
{Methanocaldococcus jannaschii} PDB: 3e2p_A 2rgw_A
Length = 306
Score = 124 bits (315), Expect = 7e-37
Identities = 47/126 (37%), Positives = 65/126 (51%), Gaps = 33/126 (26%)
Query: 7 LIDTVAVLSGYADVIVLRHPEPGAV--------------------------------KEE 34
LIDT+ V+SGYAD+IVLRHP GA E
Sbjct: 86 LIDTIRVISGYADIIVLRHPSEGAARLASEYSQVPIINAGDGSNQHPTQTLLDLYTIMRE 145
Query: 35 MGRVNGLTITMVGDLKNGRTVHSLARLLTLYD-VKLNYVSPPNLGMPESIQEFVASKGKQ 93
+GR++G+ I VGDLK GRTVHSL L+L++ V++ +VSP L +P+ I E + +K +
Sbjct: 146 IGRIDGIKIAFVGDLKYGRTVHSLVYALSLFENVEMYFVSPKELRLPKDIIEDLKAKNIK 205
Query: 94 QEVYER 99
E
Sbjct: 206 FYEKES 211
>1pg5_A Aspartate carbamoyltransferase; 2.60A {Sulfolobus acidocaldarius}
SCOP: c.78.1.1 c.78.1.1 PDB: 2be9_A*
Length = 299
Score = 113 bits (285), Expect = 2e-32
Identities = 34/126 (26%), Positives = 51/126 (40%), Gaps = 36/126 (28%)
Query: 7 LIDTVAVLSGYADVIVLRHPEPGAV--------------------------------KEE 34
L DT+ +L+ Y+D IV+RH GA +
Sbjct: 84 LADTIRMLNNYSDGIVMRHKYDGASRFASEISDIPVINAGDGKHEHPTQAVIDIYTINKH 143
Query: 35 MGRVNGLTITMVGDLKNGRTVHSLARLLTLYDVKLNY-VSPPNLGMPESIQEFVASKGKQ 93
++GL ++GDLK RTV+SL R+LT + KL Y +SP L + I +
Sbjct: 144 FNTIDGLVFALLGDLKYARTVNSLLRILTRFRPKLVYLISPQLLRARKEILD---ELNYP 200
Query: 94 QEVYER 99
+ E
Sbjct: 201 VKEVEN 206
>3d6n_B Aspartate carbamoyltransferase; reactor, chamber, pores, internal
cavity, hydrolase, metal-B pyrimidine biosynthesis,
hydrolase-transferase; HET: FLC; 2.30A {Aquifex
aeolicus}
Length = 291
Score = 54.8 bits (133), Expect = 2e-10
Identities = 26/114 (22%), Positives = 38/114 (33%), Gaps = 35/114 (30%)
Query: 7 LIDTVAVLSGY-ADVIVLRHPEPGA---------------------------------VK 32
DT+ G D +V R P +K
Sbjct: 79 FFDTLKTFEGLGFDYVVFRVPFVFFPYKEIVKSLNLRLVNAGDGTHQHPSQGLIDFFTIK 138
Query: 33 EEMGRVNGLTITMVGDLKNGRTVHSLARLLTLYDVKLNYVSPPNLGMPESIQEF 86
E G V L + VGD+K+ R S A LL ++ K+ P L +P ++ F
Sbjct: 139 EHFGEVKDLRVLYVGDIKHSRVFRSGAPLLNMFGAKIGVCGPKTL-IPRDVEVF 191
>3r7f_A Aspartate carbamoyltransferase; aspartate transcarbamoylase,
carbamoyl phosphate, transferas catalytic cycle; 2.10A
{Bacillus subtilis} PDB: 3r7d_A 3r7l_A* 2at2_A
Length = 304
Score = 53.7 bits (130), Expect = 3e-10
Identities = 25/109 (22%), Positives = 37/109 (33%), Gaps = 34/109 (31%)
Query: 7 LIDTVAVLSGY-ADVIVLRHPEPGA--------------------------------VKE 33
L DT+ L DV V+RH E + E
Sbjct: 81 LYDTIRTLESIGVDVCVIRHSEDEYYEELVSQVNIPILNAGDGCGQHPTQSLLDLMTIYE 140
Query: 34 EMGRVNGLTITMVGDLKNGRTVHSLARLLTLYDVKLNYVSPPNLGMPES 82
E GLT+++ GD+K+ R S A +LT ++ + P E
Sbjct: 141 EFNTFKGLTVSIHGDIKHSRVARSNAEVLTRLGARVLFSGPSEW-QDEE 188
>3tpf_A Otcase, ornithine carbamoyltransferase; structural genomics, center
for structural genomics of infec diseases, csgid,
rossman fold; 2.70A {Campylobacter jejuni subsp}
Length = 307
Score = 35.2 bits (82), Expect = 0.001
Identities = 17/116 (14%), Positives = 33/116 (28%), Gaps = 32/116 (27%)
Query: 9 DTVAVLSGYADVIVLRHPEPGAVKEEMGR------VNGLT------------ITMV---G 47
DT V+ D +++R + + E R +N L+ T+
Sbjct: 83 DTARVIGAMVDFVMMRVNKHETL-LEFARYSKAPVINALSELYHPTQVLGDLFTIKEWNK 141
Query: 48 DLKNGRTV----------HSLARLLTLYDVKLNYVSPPNLGMPESIQEFVASKGKQ 93
V +S + +++ P N + I EF +
Sbjct: 142 MQNGIAKVAFIGDSNNMCNSWLITAAILGFEISIAMPKNYKISPEIWEFAMKQALI 197
>1pvv_A Otcase, ornithine carbamoyltransferase; dodecamer; 1.87A
{Pyrococcus furiosus} SCOP: c.78.1.1 c.78.1.1 PDB:
1a1s_A
Length = 315
Score = 34.4 bits (80), Expect = 0.002
Identities = 24/116 (20%), Positives = 37/116 (31%), Gaps = 33/116 (28%)
Query: 9 DTVAVLSGYADVIVLR--------------------------HP-----EPGAVKEEMGR 37
DT VLS Y D I+ R HP + + E+ G
Sbjct: 93 DTARVLSRYVDAIMARVYDHKDVEDLAKYATVPVINGLSDFSHPCQALADYMTIWEKKGT 152
Query: 38 VNGLTITMVGDLKNGRTVHSLARLLTLYDVKLNYVSPPNLGMPESIQEFVASKGKQ 93
+ G+ + VGD N HSL T + +P E + ++ +
Sbjct: 153 IKGVKVVYVGDGNN--VAHSLMIAGTKLGADVVVATPEGYEPDEKVIKWAEQNAAE 206
>2ef0_A Ornithine carbamoyltransferase; TTHA1199, thermus thermophil
structural genomics, NPPSFA; 2.00A {Thermus
thermophilus}
Length = 301
Score = 34.4 bits (80), Expect = 0.002
Identities = 20/106 (18%), Positives = 33/106 (31%), Gaps = 33/106 (31%)
Query: 9 DTVAVLSGYADVIVLR--------------------------HP-----EPGAVKEEMGR 37
D L + + I R HP + +KE G
Sbjct: 92 DVAKNLERFVEGIAARVFRHETVEALARHAKVPVVNALSDRAHPLQALADLLTLKEVFGG 151
Query: 38 VNGLTITMVGDLKNGRTVHSLARLLTLYDVKLNYVSPPNLGMPESI 83
+ GL + VGD N ++SL + L +K+ +P +
Sbjct: 152 LAGLEVAWVGDGNN--VLNSLLEVAPLAGLKVRVATPKGYEPDPGL 195
>4f2g_A Otcase 1, ornithine carbamoyltransferase 1; structural genomics,
niaid, national institute of allergy AN infectious
diseases; 2.10A {Burkholderia thailandensis}
Length = 309
Score = 34.0 bits (79), Expect = 0.003
Identities = 21/106 (19%), Positives = 37/106 (34%), Gaps = 33/106 (31%)
Query: 9 DTVAVLSGYADVIVLR--------------------------HP-----EPGAVKEEMGR 37
D+ V+S D+I++R HP + E G
Sbjct: 92 DSAQVISRMVDIIMIRTFEQDIIQRFAENSRVPVINGLTNEYHPCQVLADIFTYYEHRGP 151
Query: 38 VNGLTITMVGDLKNGRTVHSLARLLTLYDVKLNYVSPPNLGMPESI 83
+ G T+ VGD N +++ + + D KL +PP + +
Sbjct: 152 IRGKTVAWVGDANN--MLYTWIQAARILDFKLQLSTPPGYALDAKL 195
>2i6u_A Otcase, ornithine carbamoyltransferase; X-RAY crystallography,
ornithine carbamyoltransferase, carbamoyl phosphate, L-
norvaline; 2.20A {Mycobacterium tuberculosis} PDB:
2p2g_A
Length = 307
Score = 33.6 bits (78), Expect = 0.004
Identities = 24/116 (20%), Positives = 36/116 (31%), Gaps = 32/116 (27%)
Query: 9 DTVAVLSGYADVIVLR--------------------------HP-----EPGAVKEEMGR 37
DT VLS Y D IV R HP + + E G
Sbjct: 86 DTAKVLSRYVDAIVWRTFGQERLDAMASVATVPVINALSDEFHPCQVLADLQTIAERKGA 145
Query: 38 VNGLTITMVGDLKNGRTVHSLARLLTLYDVKLNYVSPPNLGMPESIQEFVASKGKQ 93
+ GL ++ GD N HSL + + +P S++ + +
Sbjct: 146 LRGLRLSYFGDGAN-NMAHSLLLGGVTAGIHVTVAAPEGFLPDPSVRAAAERRAQD 200
>4amu_A Ornithine carbamoyltransferase, catabolic; ornithine
transcarbamoylase, hydrolase; 2.50A {Mycoplasma
penetrans} PDB: 4anf_A
Length = 365
Score = 33.4 bits (77), Expect = 0.005
Identities = 22/111 (19%), Positives = 32/111 (28%), Gaps = 33/111 (29%)
Query: 9 DTVAVLSGYADVIVLR--------------------------HP-----EPGAVKEEMGR 37
DT VL + D I R HP + +KE+ G
Sbjct: 118 DTAKVLGRFYDGIEFRGFAQSDVDALVKYSGVPVWNGLTDDEHPTQIIADFMTMKEKFGN 177
Query: 38 VNGLTITMVGDLKNGRTVHSLARLLTLYDVKLNYVSPPNLGMPESIQEFVA 88
+ I +GD KN S + + P N E + +A
Sbjct: 178 LKNKKIVFIGDYKNN-VGVSTMIGAAFNGMHVVMCGPDNY-KNEIDKNVLA 226
>3gd5_A Otcase, ornithine carbamoyltransferase; structural genomics,
NYSGXRC, target 9454P, operon, amino-acid biosynthesis,
ARGI biosynthesis; 2.10A {Gloeobacter violaceus}
Length = 323
Score = 33.3 bits (77), Expect = 0.006
Identities = 22/106 (20%), Positives = 34/106 (32%), Gaps = 33/106 (31%)
Query: 9 DTVAVLSGYADVIVLR--------------------------HP-----EPGAVKEEMGR 37
DT VL Y D + +R HP + ++E GR
Sbjct: 95 DTARVLGRYVDGLAIRTFAQTELEEYAHYAGIPVINALTDHEHPCQVVADLLTIRENFGR 154
Query: 38 VNGLTITMVGDLKNGRTVHSLARLLTLYDVKLNYVSPPNLGMPESI 83
+ GL + VGD N HSL + + +P ++
Sbjct: 155 LAGLKLAYVGDGNN--VAHSLLLGCAKVGMSIAVATPEGFTPDPAV 198
>4ep1_A Otcase, ornithine carbamoyltransferase; structural genomics, niaid,
national institute of allergy AN infectious diseases;
3.25A {Bacillus anthracis}
Length = 340
Score = 33.3 bits (77), Expect = 0.006
Identities = 25/117 (21%), Positives = 37/117 (31%), Gaps = 33/117 (28%)
Query: 9 DTVAVLSGYADVIVLR--------------------------HP-----EPGAVKEEMGR 37
DT VLS Y D I++R HP + + EE
Sbjct: 117 DTAKVLSHYIDGIMIRTFSHADVEELAKESSIPVINGLTDDHHPCQALADLMTIYEETNT 176
Query: 38 VNGLTITMVGDLKNGRTVHSLARLLTLYDVKLNYVSPPNLGMPESIQEFVASKGKQQ 94
G+ + VGD N HSL + + +P E I + + K+
Sbjct: 177 FKGIKLAYVGDGNN--VCHSLLLASAKVGMHMTVATPVGYRPNEEIVKKALAIAKET 231
>3sds_A Ornithine carbamoyltransferase, mitochondrial; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; 2.80A {Coccidioides immitis}
Length = 353
Score = 33.4 bits (77), Expect = 0.006
Identities = 24/131 (18%), Positives = 33/131 (25%), Gaps = 46/131 (35%)
Query: 9 DTVAVLSGYADVIVLR--------------------------HP---------------- 26
DT V+S IV R HP
Sbjct: 113 DTSVVISSMVSCIVARVGPHSDIANLAKHSSVPVINALCDTFHPLQAIADFLTIHESFAS 172
Query: 27 --EPGAVKEEMGRVNGLTITMVGDLKNGRTVHSLARLLTLYDVKLNYVSPPNLGMPESIQ 84
+ GL I VGD N + LA T V + +P +P I
Sbjct: 173 QSATHGTHPSSLGLEGLKIAWVGDANN--VLFDLAIAATKMGVNVAVATPRGYEIPSHIV 230
Query: 85 EFVASKGKQQE 95
E + + +
Sbjct: 231 ELIQKAREGVQ 241
>1oth_A Protein (ornithine transcarbamoylase); transferase; HET: PAO; 1.85A
{Homo sapiens} SCOP: c.78.1.1 c.78.1.1 PDB: 1ep9_A
1fvo_A 1c9y_A* 1fb5_A
Length = 321
Score = 32.9 bits (76), Expect = 0.009
Identities = 23/117 (19%), Positives = 40/117 (34%), Gaps = 35/117 (29%)
Query: 9 DTVAVLSGYADVIVLR--------------------------HP-----EPGAVKEEMGR 37
DT VLS AD ++ R HP + ++E
Sbjct: 93 DTARVLSSMADAVLARVYKQSDLDTLAKEASIPIINGLSDLYHPIQILADYLTLQEHYSS 152
Query: 38 VNGLTITMVGDLKNGRTV-HSLARLLTLYDVKLNYVSPPNLGMPESIQEFVASKGKQ 93
+ GLT++ +GD G + HS+ + + L +P S+ + K+
Sbjct: 153 LKGLTLSWIGD---GNNILHSIMMSAAKFGMHLQAATPKGYEPDASVTKLAEQYAKE 206
>3grf_A Ornithine carbamoyltransferase; ornithine transcarbamoylase,
arginine degradation pathway, giardia lamblia, drug
target; 2.00A {Giardia intestinalis}
Length = 328
Score = 31.0 bits (71), Expect = 0.043
Identities = 18/108 (16%), Positives = 26/108 (24%), Gaps = 39/108 (36%)
Query: 9 DTVAVLSGYADVIVLR--------------------------HP------------EPGA 30
DT V S D+ R HP + A
Sbjct: 92 DTAEVFSRMVDICTARLATKEMMREMAQHASVPCINALDDFGHPLQMVCDFMTIKEKFTA 151
Query: 31 VKEEMGRVNGLTITMVGDLKNGRTVHSLARLLTLYDVKLNYVSPPNLG 78
E G+ GD N + L R L ++ + P +
Sbjct: 152 AGEFSNGFKGIKFAYCGDSMNN-VTYDLMRGCALLGMECHVCCPDHKD 198
>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 = 30.3 bits (67), Expect = 0.066
Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 11/34 (32%)
Query: 56 HSLARL---LTLY--DVKLNYVSPPNLGMPESIQ 84
+L +L L LY D S P L + +++
Sbjct: 20 QALKKLQASLKLYADD------SAPALAIKATME 47
>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 = 30.6 bits (68), Expect = 0.068
Identities = 13/109 (11%), Positives = 37/109 (33%), Gaps = 27/109 (24%)
Query: 9 DTVAVLSGYADVIVLRHPEPGAVKEEMGRVNGLTITMVGD-LKNG--------------- 52
+ ++L Y D P + E+ N ++++ + +++G
Sbjct: 302 EVKSLLLKYLDC------RPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL 355
Query: 53 -RTVHSLARLLTLYDVKLNYVS----PPNLGMPESIQEFVASKGKQQEV 96
+ S +L + + + PP+ +P + + + +V
Sbjct: 356 TTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV 404
Score = 25.2 bits (54), Expect = 5.1
Identities = 7/47 (14%), Positives = 16/47 (34%), Gaps = 14/47 (29%)
Query: 5 SNLIDTVAVLSGYADVIVLRHPEPGAVKEEMGRVNGLTITMVGDLKN 51
++++T+ L Y I P+ E +V + +
Sbjct: 518 GSILNTLQQLKFYKPYICDNDPKY----ER----------LVNAILD 550
>2w37_A Ornithine carbamoyltransferase, catabolic; transcarbamylase, metal
binding-site, hexamer, cytoplasm, arginine metabolism;
2.10A {Lactobacillus hilgardii}
Length = 359
Score = 29.9 bits (68), Expect = 0.10
Identities = 28/108 (25%), Positives = 39/108 (36%), Gaps = 32/108 (29%)
Query: 9 DTVAVLSGYADVIVLR--------------------------HP-----EPGAVKEEMGR 37
DT VL D I R HP + VKE G+
Sbjct: 114 DTAKVLGSMFDGIEFRGFKQSDAEILARDSGVPVWNGLTDEWHPTQMLADFMTVKENFGK 173
Query: 38 VNGLTITMVGDLKNGRTVHSLARLLTLYDVKLNYVSPPNLGMPESIQE 85
+ GLT+T +GD +N +SL + V ++ V+P L E Q
Sbjct: 174 LQGLTLTFMGDGRNN-VANSLLVTGAILGVNIHIVAPKALFPTEETQN 220
>1vlv_A Otcase, ornithine carbamoyltransferase; TM1097, structural
genomics, protein structure initiative, PSI, joint
center for structu genomics; 2.25A {Thermotoga maritima}
SCOP: c.78.1.1 c.78.1.1
Length = 325
Score = 29.8 bits (68), Expect = 0.10
Identities = 21/116 (18%), Positives = 34/116 (29%), Gaps = 32/116 (27%)
Query: 9 DTVAVLSGYADVIVLR--------------------------HP-----EPGAVKEEMGR 37
DT VL D I+ R HP + ++E GR
Sbjct: 105 DTARVLGRMVDAIMFRGYKQETVEKLAEYSGVPVYNGLTDEFHPTQALADLMTIEENFGR 164
Query: 38 VNGLTITMVGDLKNGRTVHSLARLLTLYDVKLNYVSPPNLGMPESIQEFVASKGKQ 93
+ G+ + +GD +N SL + P L + + K+
Sbjct: 165 LKGVKVVFMGDTRNN-VATSLMIACAKMGMNFVACGPEELKPRSDVFKRCQEIVKE 219
>1js1_X Transcarbamylase; alpha/beta topology, two domains, transferase;
2.00A {Bacteroides fragilis} SCOP: c.78.1.1 c.78.1.1
PDB: 2fg6_X* 2fg7_X* 2g7m_X*
Length = 324
Score = 29.2 bits (66), Expect = 0.15
Identities = 5/16 (31%), Positives = 10/16 (62%)
Query: 9 DTVAVLSGYADVIVLR 24
+ + V+ Y D+I +R
Sbjct: 95 EAIPVMGCYCDIIGVR 110
>1dxh_A Ornithine carbamoyltransferase; transcarbamylase; 2.50A
{Pseudomonas aeruginosa} SCOP: c.78.1.1 c.78.1.1 PDB:
1ort_A
Length = 335
Score = 28.3 bits (64), Expect = 0.32
Identities = 20/117 (17%), Positives = 34/117 (29%), Gaps = 33/117 (28%)
Query: 9 DTVAVLSGYADVIVLRHPEPGAVKEEMGR------VNGLT------------ITMV---G 47
DT VL D I R + V EE+ + NGLT +TM
Sbjct: 92 DTARVLGRMYDAIEYRGFKQEIV-EELAKFAGVPVFNGLTDEYHPTQMLADVLTMREHSD 150
Query: 48 DLKNGRTV-----------HSLARLLTLYDVKLNYVSPPNLGMPESIQEFVASKGKQ 93
+ + +SL + + + +P L + ++
Sbjct: 151 KPLHDISYAYLGDARNNMGNSLLLIGAKLGMDVRIAAPKALWPHDEFVAQCKKFAEE 207
>1zq6_A Otcase, ornithine carbamoyltransferase; alpha/beta two-domain; HET:
AOR; 1.80A {Xanthomonas campestris} PDB: 1yh0_A* 1zq2_A
1yh1_A* 1zq8_A* 3kzc_A* 3kzk_A* 3kzm_A* 3kzn_A* 3kzo_A*
3m4j_A* 3m5d_A* 3m5c_A* 2g6a_A* 3l05_A* 2g65_A* 3l02_A*
3m4n_A* 2g6c_A* 3l06_A* 2g68_A* ...
Length = 359
Score = 28.5 bits (64), Expect = 0.33
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 9 DTVAVLSGYADVIVLR 24
+ VL Y D+I +R
Sbjct: 117 EVARVLGRYVDLIGVR 132
>4a8p_A Putrescine carbamoyltransferase; ornithine agmatine deiminase
route; HET: PAO; 2.00A {Enterococcus faecalis} PDB:
4a8h_A* 3txx_A
Length = 355
Score = 28.3 bits (64), Expect = 0.33
Identities = 9/40 (22%), Positives = 19/40 (47%), Gaps = 7/40 (17%)
Query: 9 DTVAVLSGYADVIVLRHPEPGAVKEEMGR------VNGLT 42
DT VLS D+++ R ++ ++ +NG++
Sbjct: 88 DTSRVLSRLVDILMARVERHHSI-VDLANCATIPVINGMS 126
>4a8t_A Putrescine carbamoyltransferase; trabnsferase PALO,
delta-N-(phosphonoacetyl)-L- ornithine, agmatine
deiminase route, agmatine catabolism; HET: PAO PGE;
1.59A {Enterococcus faecalis}
Length = 339
Score = 27.9 bits (63), Expect = 0.40
Identities = 9/40 (22%), Positives = 19/40 (47%), Gaps = 7/40 (17%)
Query: 9 DTVAVLSGYADVIVLRHPEPGAVKEEMGR------VNGLT 42
DT VLS D+++ R ++ ++ +NG++
Sbjct: 110 DTSRVLSRLVDILMARVERHHSI-VDLANCATIPVINGMS 148
>2h9a_B CO dehydrogenase/acetyl-COA synthase, iron- sulfur protein;
heterodimer, beta-alpha-barrels, oxidoreductase; HET:
B12; 1.90A {Carboxydothermus hydrogenoformans} PDB:
2ycl_B*
Length = 310
Score = 27.7 bits (61), Expect = 0.57
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 11 VAVLSGYADVIVLRHPEPGAVKEEM 35
VA++ + V+RHP+ A +E
Sbjct: 280 VALIQAGGHLFVMRHPKSLAEVKEH 304
>4djd_D C/Fe-SP, corrinoid/iron-sulfur protein small subunit; TIM barrel,
rossmann fold, B12-dependent methyltransferase; HET:
B12; 2.38A {Moorella thermoacetica} PDB: 4dje_D* 4djf_D*
Length = 323
Score = 27.3 bits (60), Expect = 0.71
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 10 TVAVLSGYADVIVLRHPEPGAVKEEM 35
A+L A ++++RHPE A +E
Sbjct: 288 ATALLQAGAHILLMRHPEAVARVKEN 313
>3upd_A Otcase, ornithine carbamoyltransferase; structural genomics, center
for structural genomics of infec diseases, csgid; 2.91A
{Vibrio vulnificus}
Length = 358
Score = 27.2 bits (61), Expect = 0.76
Identities = 15/40 (37%), Positives = 16/40 (40%), Gaps = 7/40 (17%)
Query: 9 DTVAVLSGYADVIVLRHPEPGAVKEEMGR------VNGLT 42
DT VL D I R V EE+G NGLT
Sbjct: 117 DTARVLGRMYDGIQYRGFGQAIV-EELGAFAGVPVWNGLT 155
>1duv_G Octase-1, ornithine transcarbamoylase; enzyme-inhibitor complex,
transferase; HET: PSQ; 1.70A {Escherichia coli} SCOP:
c.78.1.1 c.78.1.1 PDB: 1akm_A* 2otc_A*
Length = 333
Score = 27.2 bits (61), Expect = 0.77
Identities = 13/40 (32%), Positives = 14/40 (35%), Gaps = 7/40 (17%)
Query: 9 DTVAVLSGYADVIVLRHPEPGAVKEEMGR------VNGLT 42
DT VL D I R V E + NGLT
Sbjct: 91 DTARVLGRMYDGIQYRGYGQEIV-ETLAEYASVPVWNGLT 129
>3q98_A Transcarbamylase; rossmann fold, transferase; 2.00A {Escherichia
coli}
Length = 399
Score = 27.0 bits (60), Expect = 1.1
Identities = 11/55 (20%), Positives = 18/55 (32%), Gaps = 21/55 (38%)
Query: 9 DTVAVLSGYADVIVLR-----------HPEPGAVKEEMGR----------VNGLT 42
+T ++S AD I +R E GA ++ + VN
Sbjct: 110 ETANMISFCADAIGIRDDMYLGAGNAYMREVGAALDDGYKQGVLPQRPALVNLQC 164
>2yfk_A Aspartate/ornithine carbamoyltransferase; transcarbamylase; 2.55A
{Enterococcus faecalis}
Length = 418
Score = 26.3 bits (58), Expect = 1.7
Identities = 6/16 (37%), Positives = 11/16 (68%)
Query: 9 DTVAVLSGYADVIVLR 24
+T ++S AD+I +R
Sbjct: 107 ETANMISFMADIIGIR 122
>2jqv_A AT3G28950, AIG2 protein-like; structural genomics, protein
structure initiative, center for eukaryotic structural
genomics, CESG; NMR {Arabidopsis thaliana}
Length = 165
Score = 24.9 bits (54), Expect = 5.6
Identities = 16/37 (43%), Positives = 19/37 (51%)
Query: 12 AVLSGYADVIVLRHPEPGAVKEEMGRVNGLTITMVGD 48
AVL GY + P P V + G+VNG IT V D
Sbjct: 36 AVLHGYHRYKLKGLPYPCIVSSDSGKVNGKVITGVSD 72
>1wd5_A Hypothetical protein TT1426; structural genomics, riken structural
genomics/proteomics initiative, RSGI, unknown function;
HET: MES; 2.00A {Thermus thermophilus} SCOP: c.61.1.1
Length = 208
Score = 24.5 bits (53), Expect = 6.4
Identities = 8/24 (33%), Positives = 12/24 (50%), Gaps = 1/24 (4%)
Query: 9 DTVAVLSGYADVIVLRHPEP-GAV 31
+ V L A+V+ L P+ AV
Sbjct: 161 EAVERLKARAEVVALSVPQDFAAV 184
>3bdn_A Lambda repressor; repressor, allostery; HET: DNA; 3.91A
{Enterobacteria phage lambda}
Length = 236
Score = 24.5 bits (53), Expect = 7.3
Identities = 18/83 (21%), Positives = 32/83 (38%), Gaps = 3/83 (3%)
Query: 19 DVIVLRHPEPGAVKEEMGRVNGLTITMVGDLKNGRT---VHSLARLLTLYDVKLNYVSPP 75
+ + E G +E + G+ + VG L NG ++ A L + V + SP
Sbjct: 20 AIYEKKKNELGLSQESVADKMGMGQSGVGALFNGINALNAYNAALLAKILKVSVEEFSPS 79
Query: 76 NLGMPESIQEFVASKGKQQEVYE 98
+ E V+ + + YE
Sbjct: 80 IAREIYEMYEAVSMQPSLRSEYE 102
>2hcf_A Hydrolase, haloacid dehalogenase-like family; NP_662590.1, ST
genomics, PSI-2, protein structure initiative; 1.80A
{Chlorobaculum tepidum} SCOP: c.108.1.6
Length = 234
Score = 24.2 bits (53), Expect = 8.7
Identities = 6/24 (25%), Positives = 12/24 (50%)
Query: 8 IDTVAVLSGYADVIVLRHPEPGAV 31
++AV +G + L +PG +
Sbjct: 191 ARSIAVATGNFTMEELARHKPGTL 214
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 24.3 bits (53), Expect = 9.3
Identities = 7/17 (41%), Positives = 9/17 (52%)
Query: 32 KEEMGRVNGLTITMVGD 48
E+GRVNGL +
Sbjct: 400 GSEIGRVNGLAVIGEQS 416
>2wiu_B HTH-type transcriptional regulator HIPB; transferase
transcription complex, serine kinase, DNA-bindin
mercury derivative, repressor; 2.35A {Escherichia coli}
PDB: 3dnv_B* 3dnw_B* 3hzi_B*
Length = 88
Score = 23.6 bits (51), Expect = 9.3
Identities = 5/47 (10%), Positives = 16/47 (34%), Gaps = 3/47 (6%)
Query: 33 EEMGRVNGLTITMVGDLKNGRTVHSLARLLTL---YDVKLNYVSPPN 76
E+ + G+ + + +N +L + ++ + N
Sbjct: 29 SELAKKIGIKQATISNFENNPDNTTLTTFFKILQSLELSMTLCDAKN 75
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 0.135 0.376
Gapped
Lambda K H
0.267 0.0821 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,569,930
Number of extensions: 87645
Number of successful extensions: 183
Number of sequences better than 10.0: 1
Number of HSP's gapped: 171
Number of HSP's successfully gapped: 51
Length of query: 99
Length of database: 6,701,793
Length adjustment: 65
Effective length of query: 34
Effective length of database: 4,886,928
Effective search space: 166155552
Effective search space used: 166155552
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 (21.6 bits)
S2: 51 (23.3 bits)