RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10924
(322 letters)
>3tig_A TTL protein; ATP-grAsp, ligase, tubulin; 2.50A {Silurana} PDB:
3tii_A* 3tin_A*
Length = 380
Score = 175 bits (444), Expect = 4e-52
Identities = 66/237 (27%), Positives = 112/237 (47%), Gaps = 15/237 (6%)
Query: 17 EYNKQEMYDGTHNVWVLKPVANCSGHGIRIYRQLEDIKRAIGTLKNLTCPRCVVQKYIEK 76
++ + NVW+ K + G GI I ++ I V+QKY+E
Sbjct: 136 SSFNKKKENEEGNVWIAKSSSGAKGEGILISSDATELLDFIDNQGQ----VHVIQKYLES 191
Query: 77 PLLIH--GVKFDLRVWYVITNIDKFKIWVYHEGYVRFCSKPYSNI-LLDEARHLTNVRIQ 133
PLL+ KFD+R W ++ N ++ I++Y EG +R S+PYS+ D HLTN IQ
Sbjct: 192 PLLLEPGHRKFDIRSWVLVDN--QYNIYLYREGVLRTSSEPYSDTNFQDMTSHLTNHCIQ 249
Query: 134 KQYRNVRDPPQLPAELMWDFKQLRDYFTKNMNLPRKWDMIMKAMEESIVTIMRCAQS-IN 192
K++ + + F++ Y ++N + I+ ++E I + C + I+
Sbjct: 250 KEHSK--NYGRYEEGNEMFFEEFNQYLVTSLN-INLENSILCQIKEIIRVCLSCLEPAIS 306
Query: 193 YIDLRKNSFQLFGADFLIHENYQPCLIEVNNGPGLSPTTSIIAKKTTELLTDMVKVV 249
L +SFQLFG DF++ +N + LIEVN P + + A+ ++ + V
Sbjct: 307 TKYLPYHSFQLFGFDFMVDKNLKVWLIEVNGAPACA--QKLYAELCKGIVDLAISSV 361
>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 = 52.7 bits (126), Expect = 1e-07
Identities = 34/209 (16%), Positives = 60/209 (28%), Gaps = 64/209 (30%)
Query: 145 LPAELMWDFKQLRDYFTKNMNLPRKWDMIMKAMEES------------IVTIMRCAQSIN 192
+P + QL++ F K LP + E + + +++ ++
Sbjct: 22 VPTASFFIASQLQEQFNK--ILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQ 79
Query: 193 YIDLRKNSFQLFGADFL----IHENYQPCLIEVNNGPGLSPTTSIIAKKTTELLTDMVKV 248
+ + F +L IH L L KT EL+ + +
Sbjct: 80 FDQVLNLCLTEFENCYLEGNDIH-----ALAA-----KLLQENDTTLVKTKELIKNYITA 129
Query: 249 VTAERNPLSSFQNS-----VDTGKFHLI-----------YCKEL---------------G 277
+ P NS V G L+ Y +EL
Sbjct: 130 RIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIK 189
Query: 278 LSQATDKERLTQAMKTTQV-----DLLEW 301
S T E + + +V ++LEW
Sbjct: 190 FSAETLSELIRTTLDAEKVFTQGLNILEW 218
Score = 43.1 bits (101), Expect = 9e-05
Identities = 59/400 (14%), Positives = 106/400 (26%), Gaps = 161/400 (40%)
Query: 14 SVEEYNK--QEMYDGTHNVWVLKPVANCSGHGIRIYRQL-ED-IKRAIGTLKNLTCPRCV 69
+ ++Y + +++Y Y L D IK + TL L R
Sbjct: 165 NTDDYFEELRDLYQ--------------------TYHVLVGDLIKFSAETLSELI--RTT 202
Query: 70 VQKYIEKPLLIHGVKFDLRVWYVITNIDKFKIWVYHEGYVRFCSKPYS--NILLDEARHL 127
+ + + G ++ W + N + Y S P S I + + H
Sbjct: 203 LD---AEKVFTQG--LNILEW--LENPSN----TPDKDY--LLSIPISCPLIGVIQLAHY 249
Query: 128 TNVRIQKQYR--NVRDPPQ---------LPAELM-----WD-F-----KQLRDYF----- 160
+ +R + + A + W+ F K + F
Sbjct: 250 VVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVR 309
Query: 161 ----TKNMNLPRKWDMIMKAMEESI--------VTIMRCAQSINYIDLRKNSFQLFGADF 208
N +LP ++ ++E + ++ + Q +Y++ + NS A
Sbjct: 310 CYEAYPNTSLPPS--ILEDSLENNEGVPSPMLSISNLTQEQVQDYVN-KTNSH--LPAGK 364
Query: 209 LIHENYQPCLIEVNNGP------GLSPTTSIIA------KKTTELLTDMVKVVTAERNPL 256
+ I + NG G P S+ K D ++ +ER
Sbjct: 365 QVE-------ISLVNGAKNLVVSG--PPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKL- 414
Query: 257 SSFQNSVD--TGKFHLIYCKELGLSQATDK------------------------------ 284
F N FH L A+D
Sbjct: 415 -KFSNRFLPVASPFHSHL-----LVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDL 468
Query: 285 --------ERLTQAMKTTQVDLLEWKKAVRVWKLHKTATH 316
ER+ + V W+ ATH
Sbjct: 469 RVLSGSISERIVDCIIRLPVK---WETTT-----QFKATH 500
Score = 36.2 bits (83), Expect = 0.018
Identities = 41/238 (17%), Positives = 72/238 (30%), Gaps = 91/238 (38%)
Query: 65 CPRCVVQKYIEK---------------------------PLLIHGVKFDLRVWYVITNID 97
+ VQ Y+ K P ++G+ LR + +D
Sbjct: 344 LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD 403
Query: 98 KFKIWVYHE----GYVRF--CSKPYSNILLDEARHLTNVRIQKQYRNVRDPPQLPAELMW 151
+ +I + E RF + P+ + LL A L N + K + +
Sbjct: 404 QSRI-PFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKN------------NVSF 450
Query: 152 DFKQLRD--YFTKN-MNLPRKWD-MIMKAMEESIVTIMRC------AQSINYIDLRKNSF 201
+ K ++ Y T + +L R I + + + I+ + +I L
Sbjct: 451 NAKDIQIPVYDTFDGSDL-RVLSGSISERIVDCIIR-LPVKWETTTQFKATHI-L----- 502
Query: 202 QLFGADFLIHENYQPCLIEVNNGPGLSPTTSIIAKKTTELLTDM-VKVVTA---ERNP 255
DF GPG S + T V+V+ A + NP
Sbjct: 503 -----DF---------------GPG---GASGLGVLTHRNKDGTGVRVIVAGTLDINP 537
Score = 32.3 bits (73), Expect = 0.28
Identities = 42/277 (15%), Positives = 75/277 (27%), Gaps = 103/277 (37%)
Query: 57 IGTLKNLTCPRC-----VVQKYIEK------PLLIHGVKFDLRVWYVITNIDKFKIWVYH 105
IG P +++ +E P+L + +L V ++K
Sbjct: 306 IGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML--SIS-NLTQEQVQDYVNKT------ 356
Query: 106 EGYVRFCSKPYSNILLDEARH----LTN--------------VRIQKQYRNVRDPPQLPA 147
N L + L N + R + P L
Sbjct: 357 ------------NSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGL-- 402
Query: 148 ELMWDFKQLRDYFTK------NMNLPRKWDMIMKAMEESIVT------IMRCAQSINYID 195
Q R F++ N LP V ++ A + D
Sbjct: 403 ------DQSRIPFSERKLKFSNRFLP--------------VASPFHSHLLVPASDLINKD 442
Query: 196 LRKNSFQLFGADFLIHENYQPCLIEVNNGPGLSPTTSIIAKKTTELLTDMVKVVTAERNP 255
L KN+ D I P + + +G L + + +V + R P
Sbjct: 443 LVKNNVSFNAKDIQI-----P-VYDTFDGSDL-------RVLSGSISERIVDCII--RLP 487
Query: 256 LSSFQNSVDTGKFHLIYCKELGLSQATDKERLTQAMK 292
+ ++ + H++ + G A+ LT K
Sbjct: 488 V-KWETTTQFKATHIL---DFGPGGASGLGVLTHRNK 520
Score = 31.9 bits (72), Expect = 0.35
Identities = 50/320 (15%), Positives = 98/320 (30%), Gaps = 108/320 (33%)
Query: 76 KPLLI-HG-VKFDLRV----WYVITNI-DKF---------KIWVYHE------------G 107
+PL + HG ++ L V +++ + + ++F E G
Sbjct: 7 RPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG 66
Query: 108 YVRFCSKPYSNILLDEARHLTNVRIQKQYRNVRD--------PPQLPAELMWDFKQLRDY 159
YV +P D+ +L + Y D + L+ + +++Y
Sbjct: 67 YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNY 126
Query: 160 FTKNMNLPRKWDM-----IMKAMEESIVTIMRCAQ------SINYID-LRKNSFQLFGAD 207
T + R +D + +A+ E ++ A + +Y + LR
Sbjct: 127 ITARIMAKRPFDKKSNSALFRAVGEGNAQLV--AIFGGQGNTDDYFEELRD--------- 175
Query: 208 FLIHENYQPC---LIEVNNGPGLSPTTSIIAKKTTELLTDMVKVVTAERNP--------L 256
+++ Y LI+ + LS ++ T + ++ NP L
Sbjct: 176 --LYQTYHVLVGDLIKFS-AETLSELIRT-TLDAEKVFTQGLNILEWLENPSNTPDKDYL 231
Query: 257 SSFQNSVDTGKFHLI-------Y---CKELGLSQATDKERLTQAMKTTQVDLL------- 299
S S LI Y K LG + + L + L+
Sbjct: 232 LSIPIS-----CPLIGVIQLAHYVVTAKLLGFTPGELRSYL-KGATGHSQGLVTAVAIAE 285
Query: 300 --EW-------KKAVRV--W 308
W +KA+ V +
Sbjct: 286 TDSWESFFVSVRKAITVLFF 305
>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 = 43.7 bits (102), Expect = 7e-05
Identities = 28/228 (12%), Positives = 71/228 (31%), Gaps = 72/228 (31%)
Query: 45 RIYRQL----EDIKRAIGTLKNL------TCPRCVVQKYIEKPLL----------IHGVK 84
+++ +L L + + VV K + L+ I +
Sbjct: 373 KMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIY 432
Query: 85 FDLRVWYVITNIDKFKIWVYH----EGY---VRFCSKPYSNILLDE------ARHLTNVR 131
+L+ + +++ + H + Y F S LD+ HL N+
Sbjct: 433 LELK----VKLENEYAL---HRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE 485
Query: 132 -----------------IQKQYRNVRDPPQLPAELMWDFKQLR---DYFTKNMNLPRKWD 171
++++ R+ ++ +QL+ Y N D
Sbjct: 486 HPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDN-------D 538
Query: 172 MIMKAMEESIVT-IMRCAQSI---NYIDLRKNSFQLFGADFLIHENYQ 215
+ + +I+ + + +++ Y DL + + + + E ++
Sbjct: 539 PKYERLVNAILDFLPKIEENLICSKYTDLLRIALM-AEDEAIFEEAHK 585
Score = 42.9 bits (100), Expect = 1e-04
Identities = 58/364 (15%), Positives = 117/364 (32%), Gaps = 70/364 (19%)
Query: 1 MQHVFARAKHVVES--VEEYNKQEMYDGTHNVWVLKPVANCSGHGIRIYRQ---LEDIKR 55
Q+ + V E V+ ++ +++ D ++ + + + I + R
Sbjct: 14 HQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDH-------IIMSKDAVSGTLR 66
Query: 56 AIGTLKNLTCPRCVVQKYIEKPLLIHGVKFDLRVWYVITNIDKFKIWVYHEGYVRFCSKP 115
TL L+ +VQK++E+ L I+ KF + +Y E R +
Sbjct: 67 LFWTL--LSKQEEMVQKFVEEVLRIN-YKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDN 123
Query: 116 YSNILLDEARHLTNVRIQKQYRNVRDPPQLPAELMWDF-KQ------LRDY-FTKNMNLP 167
+ +R +++++ +R + + + K Y M+
Sbjct: 124 QVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFK 183
Query: 168 RKW---------DMIMKAMEESIVTIM-----RCAQSINYIDLRKNSFQLFGADFLIHEN 213
W + +++ +++ + I R S N I LR +S Q L +
Sbjct: 184 IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN-IKLRIHSIQAELRRLLKSKP 242
Query: 214 YQPCLI---EVNNGPGLSP---------TT-------SIIAKKTTELLTDMVKVVTAERN 254
Y+ CL+ V N + TT + A TT + D +
Sbjct: 243 YENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE 302
Query: 255 PLSSFQNSVDTGKFHLIYCKELGL-SQATDKERLTQAM--KTTQVDLLEWK--KAVRVWK 309
S +D C+ L + ++ ++ + L W K V K
Sbjct: 303 VKSLLLKYLD--------CRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK 354
Query: 310 LHKT 313
L
Sbjct: 355 LTTI 358
Score = 27.5 bits (60), Expect = 7.9
Identities = 28/142 (19%), Positives = 48/142 (33%), Gaps = 43/142 (30%)
Query: 15 VEEYNKQEMYDGTHNVWVLKPVANCSGHGIRIYRQLEDIKRAIGT-LKNLTCPRCVVQKY 73
V+ YN + +D ++ P + Y IG LKN+ ++
Sbjct: 450 VDHYNIPKTFDSDD---LIPPYL--DQY---FYSH-------IGHHLKNI--------EH 486
Query: 74 IEKPLLIHGVKFDLRVWYVITNIDKFKIWVYHEGYVRFCSKPYSNILLDEARHLTNVRIQ 133
E+ L V D R + +++ KI H+ S N L ++
Sbjct: 487 PERMTLFRMVFLDFR-F-----LEQ-KI--RHDSTAWNASGSILNTLQQ-------LKFY 530
Query: 134 KQY--RNVRDPPQLPAELMWDF 153
K Y N +L ++ DF
Sbjct: 531 KPYICDNDPKYERLVNAIL-DF 551
>3vmm_A Alanine-anticapsin ligase BACD; ATP-grAsp domain, amino acid
ligase, ATP binding; HET: ADP P0D; 2.50A {Bacillus
subtilis}
Length = 474
Score = 34.5 bits (79), Expect = 0.039
Identities = 25/222 (11%), Positives = 53/222 (23%), Gaps = 68/222 (30%)
Query: 31 WVLKPVANCSGHGIRIYRQLEDIKRAIGTLKNLTC-----------PRCVVQKYIEKPLL 79
+LKP S G+ + E + + + + +++++
Sbjct: 177 LILKPTYLASSIGVTLITDTETAEDEFNRVNDYLKSINVPKAVTFEAPFIAEEFLQGEYG 236
Query: 80 IHGVKFDLRVWY---VITNIDKFKIWVYHEGYVRFCSKPYSNILLDEARHLTNVRIQKQY 136
+ I ++ H+ + E H+T
Sbjct: 237 DWYQTEGYSDYISIEGIMADGEYFPIAIHD----KTPQIGF----TETSHIT-------- 280
Query: 137 RNVRDPPQLPAELMWDFKQLRDYFTKNMNLPRKWDMIMKAMEESIVTIMRCAQSINYIDL 196
P L E K++ + K + + + CA
Sbjct: 281 -----PSILDEEAK---KKIVEAAKK----------ANEGLG-----LQNCA-------- 309
Query: 197 RKNSFQLFGADFLIHENYQPCLIEVNNGPGLSPTTSIIAKKT 238
+ + +N +P LIE I K
Sbjct: 310 -------THTEIKLMKNREPGLIESAARFAGWNMIPNIKKVF 344
>1gsa_A Glutathione synthetase; ligase; HET: ADP GSH; 2.00A {Escherichia
coli} SCOP: c.30.1.3 d.142.1.1 PDB: 1gsh_A 2glt_A 1glv_A
Length = 316
Score = 32.6 bits (75), Expect = 0.13
Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 1/50 (2%)
Query: 28 HNVWVLKPVANCSGHGI-RIYRQLEDIKRAIGTLKNLTCPRCVVQKYIEK 76
H+ +LKP+ G I R+ ++ TL C+ Q Y+
Sbjct: 154 HSDIILKPLDGMGGASIFRVKEGDPNLGVIAETLTEHGTRYCMAQNYLPA 203
>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 = 0.50
Identities = 10/52 (19%), Positives = 17/52 (32%), Gaps = 24/52 (46%)
Query: 189 QSINYIDLRKNSFQLFGADFLIHENYQPCLIEVNNGPGLSPTTSIIAKKTTE 240
Q++ + S +L Y ++ P L +I K T E
Sbjct: 20 QALKKLQ---ASLKL----------YAD-----DSAPAL----AI--KATME 47
Score = 26.8 bits (58), Expect = 6.1
Identities = 6/29 (20%), Positives = 14/29 (48%), Gaps = 5/29 (17%)
Query: 51 EDIKRAIGTLKNL----TCPRCVVQKYIE 75
+ +K+ +LK L + P ++ +E
Sbjct: 20 QALKKLQASLK-LYADDSAPALAIKATME 47
>4dim_A Phosphoribosylglycinamide synthetase; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG,
ligase; 2.61A {Anaerococcus prevotii}
Length = 403
Score = 30.4 bits (69), Expect = 0.76
Identities = 12/47 (25%), Positives = 21/47 (44%), Gaps = 1/47 (2%)
Query: 32 VLKPVANCSGHGIRIYRQLEDIKRAIGTLKNLT-CPRCVVQKYIEKP 77
++K GI I ++ E+ NLT C+V+++IE
Sbjct: 148 IVKATDLQGSKGIYIAKKEEEAIDGFNETMNLTKRDYCIVEEFIEGY 194
>2dwc_A PH0318, 433AA long hypothetical phosphoribosylglycinamide
transferase; purine ribonucleotide biosynthesis; HET:
ADP; 1.70A {Pyrococcus horikoshii} PDB: 2czg_A*
Length = 433
Score = 29.9 bits (68), Expect = 1.0
Identities = 11/47 (23%), Positives = 22/47 (46%), Gaps = 3/47 (6%)
Query: 32 VLKPVANCSGHGIRIYRQLEDIKRAIGTLKN---LTCPRCVVQKYIE 75
K + + SG G + EDI +A K + + +V+++I+
Sbjct: 160 HTKAIMSSSGKGSYFVKGPEDIPKAWEEAKTKARGSAEKIIVEEHID 206
>3q4o_A Uncharacterized protein MJ0754; ferritin-like protein, four-helix
bundle, metal binding, DIN center, unknown function;
HET: B3P; 1.34A {Methanocaldococcus jannaschii} PDB:
3q4q_A* 3q4r_A* 3q4n_A
Length = 196
Score = 29.6 bits (66), Expect = 1.1
Identities = 11/40 (27%), Positives = 19/40 (47%)
Query: 103 VYHEGYVRFCSKPYSNILLDEARHLTNVRIQKQYRNVRDP 142
VY Y ++ + + NI E H+ V+ + N+ DP
Sbjct: 45 VYLTLYNKWKLQIFKNIAESEQTHMDAVKYLLEKYNIPDP 84
>1iow_A DD-ligase, DDLB, D-ALA\:D-Ala ligase; glycogen phosphorylase, cell
WALL, peptidoglycan synthesis, vancomycin, ADP binding;
HET: ADP PHY; 1.90A {Escherichia coli} SCOP: c.30.1.2
d.142.1.1 PDB: 1iov_A* 2dln_A* 3v4z_A*
Length = 306
Score = 29.0 bits (66), Expect = 1.7
Identities = 7/25 (28%), Positives = 13/25 (52%)
Query: 206 ADFLIHENYQPCLIEVNNGPGLSPT 230
D ++ + Q L+E N PG++
Sbjct: 256 IDVMLDSDGQFYLLEANTSPGMTSH 280
>4eg0_A D-alanine--D-alanine ligase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid; 1.65A {Burkholderia ambifaria} PDB: 4egq_A
Length = 317
Score = 29.0 bits (66), Expect = 1.8
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 206 ADFLIHENYQPCLIEVNNGPGLSPT 230
ADF++ +EVN PG++
Sbjct: 265 ADFMLDAAGNAYFLEVNTAPGMTDH 289
>3df7_A Putative ATP-grAsp superfamily protein; putative protein, PSI-II,
nysgrc., structural genomics, protein structure
initiative; 1.87A {Archaeoglobus fulgidus}
Length = 305
Score = 29.3 bits (65), Expect = 1.8
Identities = 10/45 (22%), Positives = 19/45 (42%), Gaps = 14/45 (31%)
Query: 31 WVLKPVANCSGHGIRIYRQLEDIKRAIGTLKNLTCPRCVVQKYIE 75
+++KP C+G GI ++ D + Q++IE
Sbjct: 136 FIIKPRTACAGEGIGFSDEVPD--------------GHIAQEFIE 166
>3n0k_A Serine protease inhibitor 1; proteinase inhibitor, hydrolase
inhibitor; 1.80A {Coprinopsis cinerea}
Length = 150
Score = 28.3 bits (62), Expect = 2.1
Identities = 12/68 (17%), Positives = 22/68 (32%), Gaps = 16/68 (23%)
Query: 91 YVITNIDKFKIWVYHEGYVRFCSKPYSNILLDEARHLTNVRIQKQYRNVRDPPQLPAELM 150
+ + N WV + +A L V ++ PP+ PA +
Sbjct: 98 FTVVNASTEHGWV----------------VPADAEELQQVEVRPLIAAPSYPPRYPATEL 141
Query: 151 WDFKQLRD 158
+ F Q+
Sbjct: 142 FTFTQVES 149
>1kjq_A GART 2, phosphoribosylglycinamide formyltransferase 2, 5'-;
ATP-grAsp, purine biosynthesis, nucleotide; HET: ADP
MPO; 1.05A {Escherichia coli} SCOP: b.84.2.1 c.30.1.1
d.142.1.2 PDB: 1kj9_A* 1kji_A* 1kjj_A* 1kj8_A* 1eyz_A*
1ez1_A*
Length = 391
Score = 29.1 bits (66), Expect = 2.1
Identities = 11/47 (23%), Positives = 21/47 (44%), Gaps = 3/47 (6%)
Query: 32 VLKPVANCSGHGIRIYRQLEDIKRAIGTLKN---LTCPRCVVQKYIE 75
++KPV + SG G R E + +A + R +V+ ++
Sbjct: 152 IVKPVMSSSGKGQTFIRSAEQLAQAWKYAQQGGRAGAGRVIVEGVVK 198
>3r5x_A D-alanine--D-alanine ligase; alpha-beta structure, cytosol,
structural genomics, for structural genomics of
infectious diseases, csgid; HET: MSE ATP; 2.00A
{Bacillus anthracis} PDB: 3r23_A*
Length = 307
Score = 28.6 bits (65), Expect = 2.6
Identities = 7/25 (28%), Positives = 14/25 (56%), Gaps = 1/25 (4%)
Query: 206 ADFLIHENYQPCLIEVNNGPGLSPT 230
D ++ + P ++EVN PG++
Sbjct: 250 VDMMVKDG-IPYVMEVNTLPGMTQA 273
>2pn1_A Carbamoylphosphate synthase large subunit; ZP_00538348.1, ATP-grAsp
domain, carbamoylphosphate synthase subunit (split gene
in MJ); 2.00A {Exiguobacterium sibiricum}
Length = 331
Score = 28.7 bits (64), Expect = 2.7
Identities = 7/47 (14%), Positives = 19/47 (40%), Gaps = 5/47 (10%)
Query: 31 WVLKPVANCSGHGIRIYRQLEDIKRAIGTLKNLTCPRCVVQKYIEKP 77
+KP + +R +E++++ +L +VQ+ +
Sbjct: 152 VFVKPRNGSASIEVRRVETVEEVEQLFSKNTDL-----IVQELLVGQ 193
>3k6s_B Integrin beta-2; cell receptor, adhesion molecule, cell adhesion,
pyrrolidone carboxylic acid; HET: NAG MAN; 3.50A {Homo
sapiens} PDB: 3k71_B* 3k72_B*
Length = 687
Score = 28.1 bits (62), Expect = 4.1
Identities = 8/45 (17%), Positives = 15/45 (33%)
Query: 115 PYSNILLDEARHLTNVRIQKQYRNVRDPPQLPAELMWDFKQLRDY 159
P S E + ++ Q + P A F++ + Y
Sbjct: 59 PTSLAETQEDHNGGQKQLSPQKVTLYLRPGQAAAFNVTFRRAKGY 103
>3gq8_A Preneck appendage protein; beta helix, viral protein; HET: NHE;
2.00A {Bacillus phage PHI29} PDB: 3gq7_A* 3gq9_A* 3gqa_A
Length = 609
Score = 28.3 bits (62), Expect = 4.7
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 22 EMYDGTHNVWVLKPVANCSGHGIRI 46
E+ DG+ +V + + GI I
Sbjct: 228 EIDDGSRHVVLSNNRSKGCYGGIEI 252
>1b6a_A Methionine aminopeptidase; angiogenesis inhibitor; HET: TN4; 1.60A
{Homo sapiens} SCOP: a.4.5.25 d.127.1.1 PDB: 1qzy_A*
1boa_A* 1kq0_A 1kq9_A 1bn5_A* 1b59_A* 1yw9_A* 1r5g_A*
1r5h_A* 1r58_A* 1yw8_A* 1yw7_A* 2adu_A* 2ea2_A* 2ea4_A*
2ga2_A* 2oaz_A*
Length = 478
Score = 28.0 bits (62), Expect = 4.9
Identities = 12/43 (27%), Positives = 21/43 (48%)
Query: 6 ARAKHVVESVEEYNKQEMYDGTHNVWVLKPVANCSGHGIRIYR 48
R V E+++E + + + +KP+ N +GH I YR
Sbjct: 295 VRLCDVGEAIQEVMESYEVEIDGKTYQVKPIRNLNGHSIGQYR 337
>2jnu_A RGS14, regulator of G-protein signaling 14; regulator of G-protein
signalling domain, structural genomics, structural
genomics consortium, SGC; NMR {Homo sapiens}
Length = 154
Score = 27.3 bits (60), Expect = 5.0
Identities = 14/77 (18%), Positives = 29/77 (37%), Gaps = 4/77 (5%)
Query: 156 LRDYFTKNMNLPRKWDMIMKAMEESIVTIMRCAQSINYIDLRKNSFQLFGADFLIHENYQ 215
L +N+ R+ + + + E + R Q + ++ +S+ F+ Y+
Sbjct: 73 LSSQALSPVNIDRQAWLGEEVLAEPRPDMFRAQQLQIFNLMKFDSYAR----FVKSPLYR 128
Query: 216 PCLIEVNNGPGLSPTTS 232
CL+ G L S
Sbjct: 129 ECLLAEAEGRPLREPGS 145
>2nw5_A Methionine aminopeptidase 2; metap2, structural genomics, PSI-2,
protein structure initiative; 2.18A {Encephalitozoon
cuniculi} PDB: 3cmk_A* 3d0d_A* 3fm3_A 3fmq_A* 3fmr_A*
Length = 360
Score = 27.4 bits (61), Expect = 6.7
Identities = 8/43 (18%), Positives = 18/43 (41%)
Query: 6 ARAKHVVESVEEYNKQEMYDGTHNVWVLKPVANCSGHGIRIYR 48
R + + E + +W ++P+++ GH I +R
Sbjct: 176 VRVCDIGRDINEVISSYEVEIGGRMWPIRPISDLHGHSISQFR 218
>4g9q_A 4-carboxymuconolactone decarboxylase; PSI-biology, nysgrc,
structural genomics, NEW YORK structura genomics
research consortium; 1.77A {Sinorhizobium meliloti}
Length = 269
Score = 27.2 bits (60), Expect = 7.1
Identities = 18/141 (12%), Positives = 38/141 (26%), Gaps = 27/141 (19%)
Query: 153 FKQLRDYFTKNMNLPRKWDMIMKAMEESIVTIMRCAQSINYIDLRKNS--FQLFGADFLI 210
+ + F K + + + + + D+L
Sbjct: 130 VGPVSEAFAKRGIGQDQLAAVESTPLPLDEEAEAQRATTVGNQFGSVAPGLVQYTTDYLF 189
Query: 211 HENYQPCLIEVNNGPGLSPTTSIIAKKTTELLTDMVKVVTAERNPLSSFQNSVDTGKFHL 270
+ + P L+P + L+T + + + V+ FHL
Sbjct: 190 RDLW--------LRPDLAP-------RDRSLVT--IAALIS--------VGQVEQITFHL 224
Query: 271 IYCKELGLSQATDKERLTQAM 291
+ GLS+ E +T
Sbjct: 225 NKALDNGLSEEQAAEVITHLA 245
>3se7_A VANA; alpha-beta structure, D-alanine-D-lactate ligase, ligase;
HET: ATP; 3.07A {}
Length = 346
Score = 27.2 bits (61), Expect = 8.7
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 206 ADFLIHENYQPCLIEVNNGPGLSPT 230
D + E+ + L EVN PG++
Sbjct: 291 VDLFLTEDGKVVLNEVNTFPGMTSY 315
>2ihd_A RGS8, regulator of G-protein signaling 8; signaling protein,
structural genomics, structura genomics consortium, SGC,
signaling protein; 1.70A {Homo sapiens} PDB: 2ode_B*
2bt2_A
Length = 155
Score = 26.1 bits (57), Expect = 9.9
Identities = 15/86 (17%), Positives = 37/86 (43%), Gaps = 6/86 (6%)
Query: 135 QYRNVRDPPQLPAELMWDFKQ-LRDYFTKNMNLPRKW-DMIMKAMEESIVTIMRCAQSIN 192
+++ R +L ++ F++ + + +N+ + + K ++E +T AQ
Sbjct: 73 EFKKTRSTAKLVSKAHRIFEEFVDVQAPREVNIDFQTREATRKNLQEPSLTCFDQAQGKV 132
Query: 193 YIDLRKNSFQLFGADFLIHENYQPCL 218
+ + K+S+ FL + Y L
Sbjct: 133 HSLMEKDSYPR----FLRSKMYLDLL 154
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
0.322 0.135 0.416
Gapped
Lambda K H
0.267 0.0588 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,021,709
Number of extensions: 295768
Number of successful extensions: 572
Number of sequences better than 10.0: 1
Number of HSP's gapped: 561
Number of HSP's successfully gapped: 33
Length of query: 322
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 228
Effective length of database: 4,077,219
Effective search space: 929605932
Effective search space used: 929605932
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 (21.9 bits)
S2: 57 (26.0 bits)