RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15609
(567 letters)
>3ppm_A Fatty-acid amide hydrolase 1; protein-inhibitor complex, FAAH,
oxazole, oxadiazole, endoca degradation, membrane
protein; HET: JG1 1DO; 1.78A {Rattus norvegicus} PDB:
2wj2_A* 3k7f_A* 3k83_A* 3k84_A* 3lj6_A* 3lj7_A 3oj8_A*
2wj1_A* 3pr0_A* 2wap_A* 1mt5_A* 2vya_A* 3qk5_A* 3qj8_A*
3qj9_A* 3qkv_A*
Length = 573
Score = 346 bits (889), Expect = e-112
Identities = 123/594 (20%), Positives = 212/594 (35%), Gaps = 98/594 (16%)
Query: 19 QQKRSRRQVACNLLTMFLTFVRSLVDWCIDFVFSFIYEEQKFALPPVENELLLQSATTVA 78
++ R A R ++ + + + LL +
Sbjct: 26 TGRQKARGAATR--------ARQKQRASLETMDKAVQRFRLQNPDLDSEALLTLPLLQLV 77
Query: 79 TKIKNKAISCEEVVKIFIHRIDCKVPPQLLRKSKTKQSLVKKIEQVNSKINSVVDNRFSE 138
K+++ +S E V ++ + +VN N V
Sbjct: 78 QKLQSGELSPEAVFFTYLGKA----------------------WEVNKGTNCVTSYLTDC 115
Query: 139 ALEEAKLLDKQIALDEIDFSQKPFLGVPFTSKNSTASKGLNFSIGLLKRKDVKGTEDAYI 198
+ ++ + GVP + K + KG + ++GL + + D +
Sbjct: 116 ETQLSQAPRQ-----------GLLYGVPVSLKECFSYKGHDSTLGLSLNEGMPSESDCVV 164
Query: 199 VERLKSAGAILLGVTNVPELCLWSETRNMVFGQTNNPYNLSRTVGGSSGGESAIVSACGS 258
V+ LK GA+ TNVP+ + N +FGQT NP+ S++ GGSSGGE A++ + GS
Sbjct: 165 VQVLKLQGAVPFVHTNVPQSMFSYDCSNPLFGQTMNPWKSSKSPGGSSGGEGALIGSGGS 224
Query: 259 PLGLGTDIGGSCRMPGFYCGVYGYKLTTGFINTKGM-GFRSGKEARTMVSAGPIVKHAED 317
PLGLGTDIGGS R P +CG+ G K T ++ G+ G G+ A +S GP+ + E
Sbjct: 225 PLGLGTDIGGSIRFPSAFCGICGLKPTGNRLSKSGLKGCVYGQTA-VQLSLGPMARDVES 283
Query: 318 ILPFIKCLVIPEKLHQ--------LKLDRTHDLKQLKVFYVEQPGDLKVSPVSGEMIGAI 369
+ +K L+ + + + L+V Y E SP M A+
Sbjct: 284 LALCLKALLCEHLFTLDPTVPPLPFREEVYRSSRPLRVGYYETDNYTMPSP---AMRRAL 340
Query: 370 RKCVRALD----EITEVSAEKLENIKQFKKSYALW----RYWMTKEPGNFARDLVNQEGE 421
+ + L+ + + + + L+ R ++ G+F +
Sbjct: 341 IETKQRLEAAGHTLIPFLPNNIPYALEVLSTGGLFSDGGRSFLQNFKGDFVDPCLGDLIL 400
Query: 422 ASWWRETIKIFLGMSDHTL-PAIMKLIDMHLPLPKDDW--AQEQTDKLRKKLTDVLADDG 478
K L + L P + ++ P + Q + + R+ +
Sbjct: 401 ILRLPSWFKRLLSLLLKPLFPRLAAFLNNMRPRSAEKLWKLQHEIEMYRQSVIAQWKAMN 460
Query: 479 V--LIFPSCPCPATYHYTTFFRPYNFAYWAIFNVLGFPVVNVPVGL-------------- 522
+ L+ P PA T +Y ++N L FP VPV
Sbjct: 461 LDVLLTPMLG-PALDLNTPGRATGAVSYTMLYNCLDFPAGVVPVTTVTAEDDAQMELYKG 519
Query: 523 ---------------SKDGLPLGVQIVATTNNDKLCIDVANYLEKQSVIGWKPP 561
+ GLP+ VQ VA ++LC+ +E Q + K P
Sbjct: 520 YFGDIWDIILKKAMKNSVGLPVAVQCVALPWQEELCLRFMREVE-QLMTPQKQP 572
>3a2q_A 6-aminohexanoate-cyclic-dimer hydrolase; alpha/beta fold, nylon
degradation; 1.80A {Arthrobacter SP} PDB: 3a2p_A
Length = 493
Score = 229 bits (587), Expect = 6e-69
Identities = 122/538 (22%), Positives = 193/538 (35%), Gaps = 103/538 (19%)
Query: 68 ELLLQSATTVATKIKNKAISCEEVVKIFIHRIDCKVPPQLLRKSKTKQSLVKKIEQVNSK 127
L Q AT A +++ IS E+++ I + + VN +
Sbjct: 4 VDLWQDATAQAELVRSGEISRTELLEATIAHV----------------------QAVNPE 41
Query: 128 INSVVDNRFSEALEEAKLLDKQIALDEIDFSQKPFLGVPFTSK-NSTASKGLNFSIG--L 184
IN+V+ F +A E++L PF GVP+ K + S+G +
Sbjct: 42 INAVIIPLFEKARRESELASG------------PFAGVPYLLKDLTVVSQGDINTSSIKG 89
Query: 185 LKRKDVKGTEDAYIVERLKSAGAILLGVTNVPELCLWSETRNMVFGQTNNPYNLSRTVGG 244
+K + DAY V+R+++AG +LLG TN PE+ T +G T NP+NL R+VGG
Sbjct: 90 MKESGYRADHDAYFVQRMRAAGFVLLGKTNTPEMGNQVTTEPEAWGATRNPWNLGRSVGG 149
Query: 245 SSGGESAIVSACGSPLGLGTDIGGSCRMPGFYCGVYGYKLTTGFINTKGMGFRSGKEART 304
SSGG A V+A SP+ G D G+ R+P CGV G K T G I+ +
Sbjct: 150 SSGGSGAAVAAALSPVAHGNDAAGAVRIPASVCGVVGLKPTRGRISPGPL-VTDSDNVAG 208
Query: 305 MVSAGPIVKHAED---IL----------PFIKCLVIPEKLHQLKLDRTHDLKQLKVFYVE 351
G + D +L F + + L+V +
Sbjct: 209 AAHEGLFARSVRDIAALLDVVSGHRPGDTFCAPTASRPYAQGIS----ENPGSLRVGVLT 264
Query: 352 QP--GDLKVSPVSGEMIGAIRKCVRALD----EITEVSAEKLENIKQFKKSYALWRYWMT 405
GD + P E A R AL ++ + E L + K +
Sbjct: 265 HNPVGDFALDP---ECAAAARGAAAALAALGHDVNDAYPEALGDRSFLKDYSTIC----- 316
Query: 406 KEPGNFARDLVNQEGEASWWRETIKIFLGMSDHTLPAIMKLIDMHLPLPKDD--WAQEQT 463
AR++ + R + D +++ + ++
Sbjct: 317 --DVAIAREI--ERNGELIGRPLTE------DDVEWTSWEMVKRADQVTGRAFAACVDEL 366
Query: 464 DKLRKKLTDVLADD----------------GVLIFPSCPCPATYHYTTFFRPYNFAYW-A 506
K+ G L+ +
Sbjct: 367 RYYAGKVERWWEAGWDLLILPTVTRQTPEIGELMLAKGTDLEGRQSAFISGSLQMLAFTV 426
Query: 507 IFNVLGFPVVNVPVGLSKDGLPLGVQIVATTNNDKLCIDVANYLEKQSVIGW---KPP 561
FNV G P +++P+G+S DG+P+GVQIVA + L + VA LE + W +P
Sbjct: 427 PFNVSGQPAISLPIGMSSDGMPIGVQIVAAYGREDLLLQVAAQLEG--ALPWVARRPQ 482
>1o9p_A Malonamidase E2; malonate; 1.8A {Bradyrhizobium japonicum} SCOP:
c.117.1.1 PDB: 1o9o_A 1obl_A 1och_A 1obk_A 1obi_A
1o9q_A* 1obj_A 1o9n_A 1ock_A 1ocl_A 1ocm_A
Length = 414
Score = 162 bits (412), Expect = 1e-44
Identities = 94/504 (18%), Positives = 157/504 (31%), Gaps = 112/504 (22%)
Query: 73 SATTVATKIKNKAISCEEVVKIFIHRIDCKVPPQLLRKSKTKQSLVKKIEQVNSKINSVV 132
S + +I+ +S + I E ++++ V
Sbjct: 3 SLADLQRRIETGELSPNAAIAQSHAAI----------------------EAREKEVHAFV 40
Query: 133 DNRFSEALEEAKLLDKQIALDEIDFSQKPFLGVPFTSKNSTASKGLNFSIGLLKRKDVKG 192
DK P G+ K+ + + +G + +
Sbjct: 41 R------------HDKSARAQAS----GPLRGIAVGIKDIIDTANMPTEMGSEIYRGWQP 84
Query: 193 TEDAYIVERLKSAGAILLGVTNVPELCLWSETRNMVFGQTNNPYNLSRTVGGSSGGESAI 252
DA +V LK AGA ++G T T T NP+N + GG+S G +A
Sbjct: 85 RSDAPVVMMLKRAGATIIGKTTTTAFASRDPT------ATLNPHNTGHSPGGASSGSAAA 138
Query: 253 VSACGSPLGLGTDIGGSCRMPGFYCGVYGYKLTTGFINTKGM-GFRSGKEARTMVSAGPI 311
V A PL LGT GGS P YCG K + + T G+ + + + + G
Sbjct: 139 VGAGMIPLALGTQTGGSVIRPAAYCGTAAIKPSFRMLPTVGVKCY-----SWALDTVGLF 193
Query: 312 VKHAEDILPFIKCLVIPEKLHQL-----KLDRTHDLKQLKVFYVEQPGDLKVSPVSGEMI 366
AED+ + + K ++ V Q V P
Sbjct: 194 GARAEDL----------ARGLLAMTGRSEFSGIVPAKAPRIGVVRQEFAGAVEP---AAE 240
Query: 367 GAIRKCVRALD----EITEVSAEKLENIKQFKKSYALWRYW--MTKEPG-NFARDLVNQE 419
++ ++A + + + + A + E A +
Sbjct: 241 QGLQAAIKAAERAGASVQAIDLPEA-------VHEAWRIHPIIQDFEAHRALAWEFSEHH 293
Query: 420 GEASWWRETIKIFLGMSDHTLPAIMKLIDMHLPLPKD-DWAQEQTDKLRKKLTDVLADDG 478
E + L K+ D A+ + R++L +V
Sbjct: 294 DEIA--PMLRASLDA--TVGLTP------------KEYDEARRIGRRGRRELGEVFEGVD 337
Query: 479 VLIFPSCPCPATYHYTTFFRPYNFAYWAIF----NVLGFPVVNVPVGLSKDGLPLGVQIV 534
VL+ S P A + + ++G P VNVPV GLP+GVQ++
Sbjct: 338 VLLTYSAPGTA------PAKALASTGDPRYNRLWTLMGNPCVNVPVLKV-GGLPIGVQVI 390
Query: 535 ATTNNDKLCIDVANYLEKQSVIGW 558
A ND + A +LE +
Sbjct: 391 ARFGNDAHALATAWFLED--ALAK 412
>3ip4_A Glutamyl-tRNA(Gln) amidotransferase subunit A; multi protein
complex, ligase, ATP-binding, nucleotide-bindi protein
biosynthesis; 1.90A {Staphylococcus aureus subsp} PDB:
2df4_A 2dqn_A* 2g5h_A 2g5i_A* 2f2a_A
Length = 485
Score = 141 bits (357), Expect = 2e-36
Identities = 73/264 (27%), Positives = 111/264 (42%), Gaps = 57/264 (21%)
Query: 68 ELLLQSATTVATKIKNKAISCEEVVKIFIHRIDCKVPPQLLRKSKTKQSLVKKIEQVNSK 127
+ +S + T IK+K I +VVK I E+ +
Sbjct: 2 SIRYESVENLLTLIKDKKIKPSDVVKDIYDAI----------------------EETDPT 39
Query: 128 INSVVDNRFSEALEEAKLLDKQIALDEIDFSQKPFLGVPFTSK---------NSTASKGL 178
I S + A+++A+ LD+ A D+ G+P K + ASK L
Sbjct: 40 IKSFLALDKENAIKKAQELDELQAKDQ---MDGKLFGIPMGIKDNIITNGLETTCASKML 96
Query: 179 -NFSIGLLKRKDVKGTEDAYIVERLKSAGAILLGVTNVPELCLWSETRNMVFGQTNNPYN 237
F ++ ++E+L A+L+G N+ E + T F +T NP++
Sbjct: 97 EGF----------VPIYESTVMEKLHKENAVLIGKLNMDEFAMGGSTETSYFKKTVNPFD 146
Query: 238 LSRTVGGSSGGESAIVSACGSPLGLGTDIGGSCRMPGFYCGVYGYKLTTGFINTKGM-GF 296
GGSSGG +A V+A PL LG+D GGS R P YCGV G K T G ++ G+ F
Sbjct: 147 HKAVPGGSSGGSAAAVAAGLVPLSLGSDTGGSIRQPAAYCGVVGMKPTYGRVSRFGLVAF 206
Query: 297 RSGKEARTMVS---AGPIVKHAED 317
S S GP+ ++ +D
Sbjct: 207 AS--------SLDQIGPLTRNVKD 222
Score = 37.9 bits (89), Expect = 0.007
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 509 NVLGFPVVNVPVGLSKDGLPLGVQIVATTNNDKLCIDVANYLEK 552
N+ G P ++VP G S +G P+G+Q + ++K VA E
Sbjct: 432 NLAGLPGISVPCGQS-NGRPIGLQFIGKPFDEKTLYRVAYQYET 474
>1m22_A Peptide amidase, PAM; eleven-stranded beta sheet, covered double
layers of alpha helices on TOP and bottom, hydrolase;
HET: EPE; 1.40A {Stenotrophomonas maltophilia} SCOP:
c.117.1.1 PDB: 1m21_A*
Length = 503
Score = 140 bits (354), Expect = 6e-36
Identities = 60/263 (22%), Positives = 112/263 (42%), Gaps = 49/263 (18%)
Query: 68 ELLLQSATTVATKIKNKAISCEEVVKIFIHRIDCKVPPQLLRKSKTKQSLVKKIEQVNSK 127
+ ++ + + + ++ RI +++ +
Sbjct: 7 PYAETDVADLQARMTAGELDSTTLTQAYLQRIA-------------------ALDRTGPR 47
Query: 128 INSVVD-NRFSEALEEAKLLDKQIALDEIDFSQKPFLGVPFTSKNSTASKGLNFSIGLLK 186
+ +V++ N +AL+EA D++ + P G+P K++ + + S G L
Sbjct: 48 LRAVIELNP--DALKEAAERDRERRDGR---LRGPLHGIPLLLKDNINAAPMATSAGSLA 102
Query: 187 RKDVKGTEDAYIVERLKSAGAILLGVTNVPELCLWSETRNM-----VFGQTNNPYNLSRT 241
+ + +DAY+V RL+ AGA++LG TN+ E + ++ GQT NPY +S +
Sbjct: 103 LQGFR-PDDAYLVRRLRDAGAVVLGKTNLSEWANFRGNDSISGWSARGGQTRNPYRISHS 161
Query: 242 VGGSSGGESAIVSACGSPLGLGTDIGGSCRMPGFYCGVYGYKLTTGFINTKGMGFRSGKE 301
GSS G + V+A + + +GT+ GS P GV G K T G ++ R G
Sbjct: 162 PCGSSSGSAVAVAANLASVAIGTETDGSIVCPAAINGVVGLKPTVGLVS------RDG-- 213
Query: 302 ARTMV-------SAGPIVKHAED 317
++ +AGP+ + D
Sbjct: 214 ---IIPISFSQDTAGPMARSVAD 233
Score = 47.2 bits (113), Expect = 1e-05
Identities = 26/107 (24%), Positives = 43/107 (40%), Gaps = 8/107 (7%)
Query: 459 AQEQTDKL--RKKLTDVLADDG--VLIFPSCPCPATYHYTTFFRPYNFAYWAIFNVLGFP 514
A+ +L + + LA L+ P+ P A V G+P
Sbjct: 388 ARSDARRLAGPEGIDAALAAHQLDALVAPTTGVAWPIRSEGDDFPGESYSAA--AVAGYP 445
Query: 515 VVNVPVGLSKDGLPLGVQIVATTNNDKLCIDVANYLEKQSVIGWKPP 561
+ VP+G DGLP+G+ + T ++ I++A E Q +PP
Sbjct: 446 SLTVPMGQI-DGLPVGLLFMGTAWSEPKLIEMAYAYE-QRTRARRPP 490
>2dc0_A Probable amidase; structural genomics, NPPSFA, national project on
protein structural and functional analyses; 2.00A
{Thermus thermophilus}
Length = 434
Score = 137 bits (347), Expect = 2e-35
Identities = 58/256 (22%), Positives = 97/256 (37%), Gaps = 53/256 (20%)
Query: 73 SATTVATKIKNKAISCEEVVKIFIHRIDCKVPPQLLRKSKTKQSLVKKIEQVNSKINSVV 132
++ + +++ + R + + N++
Sbjct: 2 DLLEAKRLLETGRTTPLALLEEALERA----------------------KAFQDR-NALA 38
Query: 133 DNRFSEALEEAKLLDKQIALDEIDFSQKPFLGVPFTSKNSTASKGL----------NFSI 182
A +EA L +++ + + P G+P T K+ KG+
Sbjct: 39 YLDEEAARKEALALTEELRRGQ---VRGPLHGLPLTVKDLFPVKGMPTRAGTKAPLPPL- 94
Query: 183 GLLKRKDVKGTEDAYIVERLKSAGAILLGVTNVPELCLWSETRNMVFGQTNNPYNLSRTV 242
E+A V RL+ AGA+L TN+ E+ L N G N + SR
Sbjct: 95 ----------PEEARAVRRLREAGALLFAKTNMHEIALGITGENPWTGPVRNAVDPSRQA 144
Query: 243 GGSSGGESAIVSACGSPLGLGTDIGGSCRMPGFYCGVYGYKLTTGFINTKGM-GFRSGKE 301
GGSSGG + V+ LGTD GGS R+P + GV G+K + G ++ +G
Sbjct: 145 GGSSGGSAVAVALGIGLASLGTDTGGSIRIPAGFNGVVGFKPSYGRVSLEGALPL----- 199
Query: 302 ARTMVSAGPIVKHAED 317
+R+ AGP+ + D
Sbjct: 200 SRSTDHAGPLTRSVRD 215
Score = 46.4 bits (111), Expect = 2e-05
Identities = 18/91 (19%), Positives = 32/91 (35%), Gaps = 26/91 (28%)
Query: 479 VLIFPSCPCPA-----------------TYHYTTFFRPYNFAYWAIFNVLGFPVVNVPVG 521
L+ P P PA + T P++ G P + +P
Sbjct: 350 ALLLPVQPLPAPPLGTEEVELESGRKGHREAFITLTLPFSLL--------GVPTLALPFA 401
Query: 522 LSKDGLPLGVQIVATTNNDKLCIDVANYLEK 552
+G+P+G+Q+V D + + +LE
Sbjct: 402 KV-EGMPVGLQVVGAYGEDGKVLALGGWLEA 431
>3h0l_A Glutamyl-tRNA(Gln) amidotransferase subunit A; multi protein
complex, ligase, protein biosynthesis; HET: ADP; 2.30A
{Aquifex aeolicus} PDB: 3h0m_A 3h0r_A*
Length = 478
Score = 135 bits (343), Expect = 1e-34
Identities = 77/263 (29%), Positives = 115/263 (43%), Gaps = 63/263 (23%)
Query: 69 LLLQSATTVATKIKNKAISCEEVVKIFIHRIDCKVPPQLLRKSKTKQSLVKKIEQVNSKI 128
L +S + + +K +S +EVV+ F R Q K+
Sbjct: 2 LWKKSLSELRELLKRGEVSPKEVVESFYDRY----------------------NQTEEKV 39
Query: 129 NSVVDNRFSEALEEAKLLDKQIALDEIDFSQKPFLGVPFTSK---------NSTASKGL- 178
+ + + +AL++A+ L ++ P G+P K + ASK L
Sbjct: 40 KAYITPLYGKALKQAESLKEREL---------PLFGIPIAVKDNILVEGEKTTCASKILE 90
Query: 179 NFSIGLLKRKDVKGTEDAYIVERLKSAGAILLGVTNVPELCLWSETRNMVFGQTNNPYNL 238
NF DA ++ERLK AGA+++G TN+ E + S T F T NP++L
Sbjct: 91 NF----------VAPYDATVIERLKKAGALIVGKTNLDEFAMGSSTEYSAFFPTKNPWDL 140
Query: 239 SRTVGGSSGGESAIVSACGSPLGLGTDIGGSCRMPGFYCGVYGYKLTTGFINTKGM-GFR 297
R GGSSGG +A V+ +P+ LG+D GGS R P +CGV G K T G ++ G+ F
Sbjct: 141 ERVPGGSSGGSAASVAVLSAPVSLGSDTGGSIRQPASFCGVIGIKPTYGRVSRYGLVAFA 200
Query: 298 SGKEARTMVS---AGPIVKHAED 317
S S G + ED
Sbjct: 201 S--------SLDQIGVFGRRTED 215
Score = 40.6 bits (96), Expect = 0.001
Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 509 NVLGFPVVNVPVGLSKDGLPLGVQIVATTNNDKLCIDVANYLEKQSVIGWKPP 561
N+ G P +++P+ DGLP+G Q++ ++ + ++ E++ K P
Sbjct: 425 NLAGLPAISIPIAWK-DGLPVGGQLIGKHWDETTLLQISYLWEQKFKHYEKIP 476
>3kfu_E Glutamyl-tRNA(Gln) amidotransferase subunit A; ASPRS, gatcab,
ATP-binding, aminoacyl-tRNA synthetase, ligas
nucleotide-binding, protein biosynthesis, ligase-RNA
comple; HET: H2U 5MU PSU; 3.00A {Thermus thermophilus}
Length = 471
Score = 132 bits (335), Expect = 1e-33
Identities = 68/250 (27%), Positives = 115/250 (46%), Gaps = 47/250 (18%)
Query: 73 SATTVATKIKNKAISCEEVVKIFIHRIDCKVPPQLLRKSKTKQSLVKKIEQVNSKINSVV 132
A + ++ +S EV + ++ R+ ++++ + + +
Sbjct: 2 LAHEIRARVARGEVSPLEVAQAYLKRV----------------------QELDPGLGAFL 39
Query: 133 DNRFSEALEEAKLLDKQIALDEIDFSQKPFL---GVPFTSKNSTASKGL-NFSIGLLKRK 188
LEEA+ +D + L + + K + G+ T+ S+ L NF
Sbjct: 40 SLN-ERLLEEAEAVDPGLPLAGLVVAVKDNIATRGLRTTA----GSRLLENF-------- 86
Query: 189 DVKGTEDAYIVERLKSAGAILLGVTNVPELCLWSETRNMVFGQTNNPYNLSRTVGGSSGG 248
+A V RLK+ GA++LG TN+ E + S T + F T NP++ R GGSSGG
Sbjct: 87 --VPPYEATAVARLKALGALVLGKTNLDEFGMGSSTEHSAFFPTKNPFDPDRVPGGSSGG 144
Query: 249 ESAIVSACGSPLGLGTDIGGSCRMPGFYCGVYGYKLTTGFINTKGM-GFRSGKEARTMVS 307
+A ++A +PL LG+D GGS R P +CGVYG K T G ++ G+ + S ++
Sbjct: 145 SAAALAADLAPLALGSDTGGSVRQPAAFCGVYGLKPTYGRVSRFGLIAYAS-----SLDQ 199
Query: 308 AGPIVKHAED 317
GP+ + D
Sbjct: 200 IGPMARSVRD 209
Score = 39.4 bits (93), Expect = 0.003
Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 1/53 (1%)
Query: 509 NVLGFPVVNVPVGLSKDGLPLGVQIVATTNNDKLCIDVANYLEKQSVIGWKPP 561
N+ G P ++ P G LP+G+Q++A D+ + A E+ +
Sbjct: 414 NLTGLPALSFPAGFE-GHLPVGLQLLAPWGEDERLLRAALAFEEATARAHLKA 465
>2gi3_A Glutamyl-tRNA(Gln) amidotransferase subunit A; TM1272, structural
genomics, joint center for structura genomics, JCSG;
HET: MSE MPD; 1.80A {Thermotoga maritima} SCOP:
c.117.1.1 PDB: 3al0_A*
Length = 476
Score = 126 bits (320), Expect = 1e-31
Identities = 65/259 (25%), Positives = 104/259 (40%), Gaps = 70/259 (27%)
Query: 73 SATTVATKIKNKAISCEEVVKIFIHRIDCKVPPQLLRKSKTKQSLVKKIEQVNSKINSVV 132
T+ +K E++ ++ + I ++++ + + +
Sbjct: 8 RKLTIEECLKLSEEEREKLPQLSLETI----------------------KRLDPHVKAFI 45
Query: 133 DNRFSEALEEAKLLDKQIALDEIDFSQKPFLGVPFTSK---------NSTASKGL-NFSI 182
R + ++E+ G+P K + AS+ L N+
Sbjct: 46 SVRENVSVEKKGKFW----------------GIPVAIKDNILTLGMRTTCASRILENY-- 87
Query: 183 GLLKRKDVKGTEDAYIVERLKSAGAILLGVTNVPELCLWSETRNMVFGQTNNPYNLSRTV 242
+ DA +V+++K AG +++G N+ E + S T F T NP++L R
Sbjct: 88 --------ESVFDATVVKKMKEAGFVVVGKANLDEFAMGSSTERSAFFPTRNPWDLERVP 139
Query: 243 GGSSGGESAIVSACGSPLGLGTDIGGSCRMPGFYCGVYGYKLTTGFINTKGM-GFRSGKE 301
GGSSGG +A VSA LG+D GGS R P CGV GYK T G ++ G+ F S
Sbjct: 140 GGSSGGSAAAVSAGMVVAALGSDTGGSVRQPASLCGVVGYKPTYGLVSRYGLVAFAS--- 196
Query: 302 ARTMVS---AGPIVKHAED 317
S GPI K D
Sbjct: 197 -----SLDQIGPITKTVRD 210
Score = 40.2 bits (95), Expect = 0.002
Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 509 NVLGFPVVNVPVGLSKDGLPLGVQIVATTNNDKLCIDVANYLEKQSVIGWKPPFNL 564
N+ G P ++VP G S + LP+GVQ++ D +A +EK S F L
Sbjct: 417 NLAGLPAISVPFGFS-NNLPVGVQVIGRRFADGKVFRIARAIEKNSPYNENGMFPL 471
>3a1k_A Amidase; AS family enzyme, hydrolase; 2.17A {Rhodococcus SP} PDB:
3a1i_A
Length = 521
Score = 121 bits (305), Expect = 2e-29
Identities = 54/217 (24%), Positives = 81/217 (37%), Gaps = 29/217 (13%)
Query: 115 QSLVKKIEQVNSKINSVVDNRFSEALEEAK--LLDKQIALDEID-FSQKPFLGVPFTSKN 171
++Q+ + + A+ A L I S G K+
Sbjct: 38 LGSYDVVDQLYADEATPPTTSREHAVPSASENPLSAWYVTTSIPPTSDGVLTGRRVAIKD 97
Query: 172 STASKGL----------NFSIGLLKRKDVKGTEDAYIVERLKSAGAILLGVTNVPELCLW 221
+ G+ F + DA +V RL +AGA + G +LC
Sbjct: 98 NVTVAGVPMMNGSRTVEGF----------TPSRDATVVTRLLAAGATVAGKAVCEDLCFS 147
Query: 222 SETRNMVFGQTNNPYNLSRTVGGSSGGESAIVSACGSPLGLGTDIGGSCRMPGFYCGVYG 281
+ G NP++ R GGSSGG +A+V+ +G D GGS R+P +CGV G
Sbjct: 148 GSSFTPASGPVRNPWDRQREAGGSSGGSAALVANGDVDFAIGGDQGGSIRIPAAFCGVVG 207
Query: 282 YKLTTGFINTKGM-GFRSGKEARTMVSAGPIVKHAED 317
+K T G + G RT+ GPI + D
Sbjct: 208 HKPTFGLVPYTGAFPI-----ERTIDHLGPITRTVHD 239
Score = 44.2 bits (105), Expect = 9e-05
Identities = 29/112 (25%), Positives = 42/112 (37%), Gaps = 15/112 (13%)
Query: 459 AQEQTDKLRKKLTDVLADDGVLIFPSCPCPAT----------YHYTTFFRPYNFAYWAIF 508
A+ R L VL+ P+ P A+ T A F
Sbjct: 399 ARNLVPLARAAYDTALRQFDVLVMPTLPYVASELPAKDVDRATFITKALGMIANT--APF 456
Query: 509 NVLGFPVVNVPVGLSKDGLPLGVQIVATTNNDKLCIDVANYLEKQSVIGWKP 560
+V G P ++VP GL +GLP+G+ I +D + V EK + G P
Sbjct: 457 DVTGHPSLSVPAGLV-NGLPVGMMITGRHFDDATVLRVGRAFEK--LRGAFP 505
>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 = 69.7 bits (170), Expect = 1e-12
Identities = 111/525 (21%), Positives = 184/525 (35%), Gaps = 156/525 (29%)
Query: 31 LLTMFLTFVRSLVDW--------CIDFVF-SFIYEEQKFALPPVENEL------LLQSAT 75
L+ FL +V SLV+ ++ F E + L N++ LLQ
Sbjct: 60 LVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF---ENCY-LE--GNDIHALAAKLLQEND 113
Query: 76 TVATKIKNKAISCEEVVKIFIH-RIDCKVPPQLLRKSKTKQSLVKKIEQVNSKINSV--- 131
T K K E++K +I RI K P S +L + + + N+++ ++
Sbjct: 114 TTLVKTK-------ELIKNYITARIMAKRPFDKKSNS----ALFRAVGEGNAQLVAIFGG 162
Query: 132 ---VDNRFSEALEEAKLLD--KQIALDEIDFSQKPFLGVPFTSKNSTA--SKGLNFSIGL 184
D+ F E L + L + D I FS + + T+ ++ ++GLN +
Sbjct: 163 QGNTDDYFEE-LRD--LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNI-LEW 218
Query: 185 LKRKDVKGTEDAYIVERLKSAGAI---LLGVTNVPELCLWSETRNMVFGQTNNPYNLSRT 241
L+ +D Y L S I L+GV +L + T + G T P L
Sbjct: 219 LENPSNTPDKD-Y----LLSI-PISCPLIGVI---QLAHYVVTAK-LLGFT--PGELRSY 266
Query: 242 VGGSSGGESAIVSACGSPLGLGTDIGGSCRMPGFYCGVYGYKLTTGFINTKGMGFRSGKE 301
+ G++G +V+A I + F+ V +T F +G R E
Sbjct: 267 LKGATGHSQGLVTAVA--------IAETDSWESFFVSVRKA-ITVLFF----IGVRC-YE 312
Query: 302 A--RTMVSAGPI---VKHAEDILPFIKCLVIPEKLHQLK---LDRTHDLKQLKVFYVEQP 353
A T + + +++ E +P L L + + P
Sbjct: 313 AYPNTSLPPSILEDSLENNEG---------VPS--PMLSISNLTQEQVQDYVNKTNSHLP 361
Query: 354 GDLKV------SP----VSG---EMIG---AIRKCVRALDEI----TEVSAEKLENIKQF 393
+V VSG + G +RK +A + S KL+ +F
Sbjct: 362 AGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRK-AKAPSGLDQSRIPFSERKLKFSNRF 420
Query: 394 KKSYALWRYWMTKEPGNF-------ARDLVNQ---EGEASWWRETIKI-----FLG---- 434
L P F A DL+N+ + S+ + I+I F G
Sbjct: 421 -----L----PVASP--FHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLR 469
Query: 435 -MSDHTLPAIMKLIDMHLPLPKDDWAQEQTDKLRKKLTDVLADDG 478
+S I+ I + LP+ W E T + K T +L D G
Sbjct: 470 VLSGSISERIVDCI-IRLPV---KW--ETTTQF--KATHIL-DFG 505
Score = 39.3 bits (91), Expect = 0.004
Identities = 63/395 (15%), Positives = 122/395 (30%), Gaps = 136/395 (34%)
Query: 130 SVVDNRFSEALEEAKLLDKQIALDEIDFSQKP-----FLGVPFTSKNSTASKGLNFSIGL 184
S + +F++ L E + A D+ + + FLG + S SK F +
Sbjct: 31 SQLQEQFNKILPEP---TEGFAADD-EPTTPAELVGKFLG--YVSSLVEPSKVGQFD-QV 83
Query: 185 LKRKDVKGTEDAYIVER-LKSAGAILLGVTNVPELCLWSETRNMVFGQTNNPYNLSRTVG 243
L + E+ Y+ + + A LL + + +N Y +R +
Sbjct: 84 LN-LCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKN---------YITARIMA 133
Query: 244 G---SSGGESAIVSACGSPLGLGTDIGGSCRMPGFYCGVYGYKLTTGFINTKGMG----- 295
SA+ A G G+ + ++G G G
Sbjct: 134 KRPFDKKSNSALFRAVGE---------GNAQ---LV-AIFG-----------GQGNTDDY 169
Query: 296 FRSGKEARTMVSAGP------IVKHAEDILPFIKCLVIPEKLHQLKLDRTHDLKQLKVFY 349
F +E R + I AE + I+ + EK+ L+ + + +
Sbjct: 170 F---EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN----ILE----W 218
Query: 350 VEQPGD------LKVSPVSGEMIG-------------------AIRKCVRALDEITE--V 382
+E P + L P+S +IG +R ++ ++ V
Sbjct: 219 LENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLV 278
Query: 383 SA----------EKLENIKQFKKSYAL-WRYWM-----------TKEPGNFARDLVNQEG 420
+A ++++ A+ +++ + P L N EG
Sbjct: 279 TAVAIAETDSWESFFVSVRK-----AITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEG 333
Query: 421 EASWWRETIKIFLGMSDHTLPAIMKLI---DMHLP 452
S L +S+ T + + + HLP
Sbjct: 334 VPSP-------MLSISNLTQEQVQDYVNKTNSHLP 361
Score = 37.0 bits (85), Expect = 0.020
Identities = 51/321 (15%), Positives = 87/321 (27%), Gaps = 129/321 (40%)
Query: 292 KGMG---FRSGKEARTMVSAGPIVKHAEDILPF-IKCLVIPEKLHQLKLDRTHDLKQLKV 347
+GMG +++ K A+ + + H +D F I +V ++ L +
Sbjct: 1629 QGMGMDLYKTSKAAQDVWNRAD--NHFKDTYGFSILDIV------------INNPVNLTI 1674
Query: 348 FYVEQPGDLKVSPVSGEMIG-----AIRKCVRALDEITEVS--------AEKL---ENIK 391
+ + G ++ MI K + EI E S L +
Sbjct: 1675 HFGGEKG-KRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF-T 1732
Query: 392 Q---FKKSYALWRYWMTKEPGNFARD-------LVNQEGE----ASW-----WRETIKI- 431
Q A + K G D L GE AS +++
Sbjct: 1733 QPALTLMEKAAFEDL--KSKGLIPADATFAGHSL----GEYAALASLADVMSIESLVEVV 1786
Query: 432 FL--------------GMSDHTLPAIMKLIDMHLPLPKDDWAQEQTDKLRKKLTDVLADD 477
F G S++ + AI P A + L+ + V
Sbjct: 1787 FYRGMTMQVAVPRDELGRSNYGMIAIN---------PGRVAASFSQEALQYVVERVGKRT 1837
Query: 478 GVLIFPSCPCPATYHYTTFFRPYNFAYWAIFNVLGFPVVNVPVGLSKDGLPLGVQIVA-- 535
G L+ N+ NV Q VA
Sbjct: 1838 GWLV-----EIV-----------NY--------------NVE----------NQQYVAAG 1857
Query: 536 TTNN-DKLCIDVANYLEKQSV 555
D + +V N+++ Q +
Sbjct: 1858 DLRALDTVT-NVLNFIKLQKI 1877
Score = 34.3 bits (78), Expect = 0.14
Identities = 46/280 (16%), Positives = 84/280 (30%), Gaps = 108/280 (38%)
Query: 146 LDKQIALDEIDFSQKPFLGVPFTSKNSTASKGLNFS--IGLLKRKDVKGTEDA------- 196
+ + +D ++K F + N ++ F GLL T+
Sbjct: 1691 MIFETIVDGKLKTEKIFKEI-----NEHSTS-YTFRSEKGLLSA-----TQFTQPALTLM 1739
Query: 197 -Y-IVERLKSAGAILLGVTNVPELCLWSETRNMVFGQTNNPYNLSRTVGGSSGGE-SAIV 253
E LKS G +P + F G S GE +A+
Sbjct: 1740 EKAAFEDLKSKG-------LIPA--------DATFA-------------GHSLGEYAALA 1771
Query: 254 SACGSPLGLGTDIGGSCRMPGFYCGVYGYKLTTGFINTKGMGFRSGKEARTMVSAGPIVK 313
S + M V ++ +R G + V + +
Sbjct: 1772 S-----------LADV--MS-IESLV---EVVF---------YR-GMTMQVAVPRDELGR 1804
Query: 314 HAEDILPFIKCLVIPEKLHQLKLDRTHDLKQLKVFYVEQPGDLKVSPV-----------S 362
+ + P ++ + L+ + ++ G L V V +
Sbjct: 1805 SNYGM-----IAINPGRVA-ASFSQ-EALQYVVERVGKRTGWL-VEIVNYNVENQQYVAA 1856
Query: 363 GEMIGAIRKCVRALDEITEV-SAEKLENIK--QFKKSYAL 399
G+ +RALD +T V + KL+ I + +KS +L
Sbjct: 1857 GD--------LRALDTVTNVLNFIKLQKIDIIELQKSLSL 1888
Score = 33.5 bits (76), Expect = 0.23
Identities = 38/235 (16%), Positives = 74/235 (31%), Gaps = 85/235 (36%)
Query: 6 RDSPKTISSSRKKQQKRSRRQVACNLLTMFLTFVRSLVDWCIDF--VFSFIYEEQK---F 60
++P ++ ++ + R+ N M F ++VD + +F I E F
Sbjct: 1666 INNPVNLTIHFGGEKGKRIRE---NYSAM--IF-ETIVDGKLKTEKIFKEINEHSTSYTF 1719
Query: 61 ALPPVENELLL----QSA---TTVAT--KIKNK------------------AISC----- 88
+ L Q A A +K+K A++
Sbjct: 1720 RSE--KGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVM 1777
Query: 89 --EEVVKIFIHR---IDCKVP---------------PQLLRKSKTKQSLVKKIEQVNSKI 128
E +V++ +R + VP P + S ++++L +E+V +
Sbjct: 1778 SIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRT 1837
Query: 129 NSVV----DNRFSE-----------ALEEAKLLDKQIALDEIDFSQKPFLGVPFT 168
+V N E AL+ + I L +ID + L +
Sbjct: 1838 GWLVEIVNYN--VENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIE---LQKSLS 1887
Score = 28.5 bits (63), Expect = 8.0
Identities = 19/110 (17%), Positives = 39/110 (35%), Gaps = 25/110 (22%)
Query: 3 VKKRDSPKTISSSRKKQQKRSRRQVACNLLTMFLTFVRSLVDWCIDFVFSFIYEEQKFAL 62
V R ++ R + + + +A N + +F + + + ++ + + + +
Sbjct: 1786 VFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVER----VGKRTGWLV 1841
Query: 63 PPV----ENELL--------LQSATTVATKIKNKAI---------SCEEV 91
V EN+ L + T V IK + I S EEV
Sbjct: 1842 EIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEV 1891
>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 = 64.1 bits (155), Expect = 9e-11
Identities = 72/528 (13%), Positives = 149/528 (28%), Gaps = 166/528 (31%)
Query: 87 SCEEVVKI----FIHRIDCKVPPQLLRKSKTKQSLVKKIEQVNSKINSVVDNRFSEALEE 142
++++ + F+ DCK + + +K+ + I ++ R L
Sbjct: 17 QYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEE-IDHIIMSKDAVSGT--LRLFWTLLS 73
Query: 143 AKLLDKQIALDEIDFSQKPFLGVPFTSKNSTASKGLNFSIGLLKRKDVKGTEDAYI--VE 200
+ Q ++E+ FL P ++ + YI +
Sbjct: 74 KQEEMVQKFVEEVLRINYKFLMSPIKTEQ----------------RQPSMMTRMYIEQRD 117
Query: 201 RLKSAGAILLGVTNVPELCLWSETRNMVFGQTNNPYNLSRTVGGSSGGESAIV-SACGSP 259
RL + + NV L + + R + L V GS G++ + C
Sbjct: 118 RLYNDNQVFAKY-NVSRLQPYLKLRQALLELRPAKNVLIDGVLGS--GKTWVALDVC--- 171
Query: 260 LGLGTDIGGSCRMPGFYCGVY----GYKLTTGFI-----------------------NTK 292
C+M ++ + + N K
Sbjct: 172 ----LSYKVQCKMDF---KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224
Query: 293 GMGFRSGKEA-RTMVSAGP------I---VKHAEDILPF-IKC--LVI-----------P 328
+ S + R ++ + P + V++A+ F + C L+
Sbjct: 225 -LRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSA 283
Query: 329 EKLHQLKLDR-----THDLKQLKVF--YVEQ-PGDL-----KVSPVSGEMIGA-IRKCVR 374
+ LD T D + + Y++ P DL +P +I IR +
Sbjct: 284 ATTTHISLDHHSMTLTPD-EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLA 342
Query: 375 ALDEITEVSAEKLENIKQ----------FKKSY------------------ALWRYWMTK 406
D V+ +KL I + ++K + +W +
Sbjct: 343 TWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKS 402
Query: 407 EPGNFARDLVNQEGEASWWRE-TIKIFLGMSDHTLPAIMKLIDMHLPLPKDDWAQEQTDK 465
+ L +E TI I ++ +++ + L +
Sbjct: 403 DVMVVVNKLHKYSLVEKQPKESTISI------PSI-----YLELKVKLENE-------YA 444
Query: 466 LRKKLTDVLADDGVLIFPSCPCPATYHYTTFFRPYNFAYWAIFNVLGF 513
L + + D P T+ PY Y+ ++ +G
Sbjct: 445 LHRSIVD-----------HYNIPKTFDSDDLIPPYLDQYF--YSHIGH 479
>3kas_A Transferrin receptor protein 1; transferrin receptor 1, arenavirus,
cell MEMB disulfide bond, endocytosis, HOST-virus inter
receptor, secreted, transmembrane; HET: NAG FUC BMA MAN;
2.40A {Homo sapiens} PDB: 1de4_C* 3s9l_A* 3s9m_A*
3s9n_A* 1cx8_A* 1suv_A 2nsu_A
Length = 640
Score = 35.9 bits (82), Expect = 0.036
Identities = 19/168 (11%), Positives = 47/168 (27%), Gaps = 21/168 (12%)
Query: 318 ILPFIKCLVIPEKLHQLKLDRTHDLKQLKVFYVEQPGDLKVSPVSGEMIGAIRKCVRALD 377
++ + + L + D+K +S + +
Sbjct: 478 VIKLTHDVELNLDYE----RYNSQLLSFVRDLNQYRADIKEMGLS---LQWLYSARGDFF 530
Query: 378 EITEVSAEKLENIKQFKKSYALWRYWMTKEPGNFARDLVNQEG--EASWWRETIKIFLGM 435
T N + K + + + ++ + S +R +F G
Sbjct: 531 RATSRLTTDFGNAE--KTDRFVMKKLNDRV-MRVEYHFLSPYVSPKESPFRH---VFWGS 584
Query: 436 SDHTLPAIMKLIDM-HLPLPKDDW--AQEQTDKLRKKL---TDVLADD 477
HTLPA+++ + + + + Q + + L+ D
Sbjct: 585 GSHTLPALLENLKLRKQNNGAFNETLFRNQLALATWTIQGAANALSGD 632
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 32.5 bits (74), Expect = 0.50
Identities = 29/205 (14%), Positives = 46/205 (22%), Gaps = 81/205 (39%)
Query: 127 KINSVVDNRFS--------EALEEAKLLDKQIALDEIDFSQKPFLGVPFTSKNSTASKGL 178
I S VD + EA + + D + S+ +G S
Sbjct: 1004 DIISQVD-PITLFVLVSVVEAFIASGITDPYEMYKYVHVSE---VGNCSGS--------- 1050
Query: 179 NFSIGLLKRKDVKGTEDAYIVERLKSAGAILLGVTN--VPELCLWSETRNMVFGQTNNPY 236
+G + + V N + E + M
Sbjct: 1051 --GMGGVS-----ALRGMFKDRFKD--EP----VQNDILQESFI----NTMSAWV----- 1088
Query: 237 NLSRTVGGSSGGESAIVSACGSPLGLGTD-IGGSCRMPGFYCGVYGYKLTTGFINTKGMG 295
N+ SSG V AC + + +
Sbjct: 1089 NMLLI--SSSGPIKTPVGACAT----SVESVDIGVET----------------------- 1119
Query: 296 FRSGKEARTMVSAGPIVKHAEDILP 320
SGK AR + G +D
Sbjct: 1120 ILSGK-ARICIVGG-----YDDFQE 1138
>3gty_X Trigger factor, TF; chaperone-client complex, cell cycle, cell
division, chapero isomerase, rotamase,
ribonucleoprotein, binding; 3.40A {Thermotoga maritima}
PDB: 3gu0_A
Length = 433
Score = 30.3 bits (69), Expect = 1.8
Identities = 8/61 (13%), Positives = 23/61 (37%), Gaps = 9/61 (14%)
Query: 102 KVPPQLLRKSKTKQSLVKKIEQVNSKINSVVDNRFSEALEEAKLLDKQIALDEIDFSQKP 161
++P +L K L ++ ++ + + + L++ KL+ + E +
Sbjct: 48 RIPKNVL-----KMKLGEEFQEY---TLDFLMDLIPDTLKDRKLIL-SPIVTERELKDVT 98
Query: 162 F 162
Sbjct: 99 A 99
>3cwv_A DNA gyrase, B subunit, truncated; structural genomics, unknown
function, B-subunit binding, isomerase,
nucleotide-binding, topoisomerase; HET: DNA; 1.95A
{Myxococcus xanthus}
Length = 369
Score = 29.4 bits (67), Expect = 3.3
Identities = 6/42 (14%), Positives = 11/42 (26%), Gaps = 7/42 (16%)
Query: 102 KVP-PQLLRKSKTKQSLVKKIEQVNSKINSVVDNRFSEALEE 142
P Q+ TK+ L + + + E
Sbjct: 307 SGPRRQMAFAGPTKELLA------IPGLEEAIRKQLQPLFIE 342
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 4.2
Identities = 13/56 (23%), Positives = 24/56 (42%), Gaps = 1/56 (1%)
Query: 414 DLVNQEGEA-SWWRETIKIFLGMSDHTLPAIMKLIDMHLPLPKDDWAQEQTDKLRK 468
D + QE E+ WRE + L D + + ++W Q Q++++ K
Sbjct: 78 DRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEK 133
>3lgi_A Protease DEGS; stress-sensor, HTRA, PDZ OMP, hydrolase, serine PR;
1.65A {Escherichia coli} PDB: 2qf3_A 2qf0_A 2rce_A*
3lh3_A* 3b8j_A 2qgr_A 3lh1_A 3lgy_A 3lgu_A 3lgv_A 3lgw_A
3lgt_A 2r3u_A
Length = 237
Score = 28.0 bits (63), Expect = 6.6
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 7/32 (21%)
Query: 234 NPYNLSRTVGGSSGGESAIVSACG-SPLGLGT 264
NPYNL +T+ + G I+SA G L
Sbjct: 135 NPYNLGQTI--TQG----IISATGRIGLNPTG 160
>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P;
hydrolase, type IV secretion, conjugation; 2.35A
{Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A
Length = 392
Score = 28.4 bits (63), Expect = 6.7
Identities = 17/77 (22%), Positives = 33/77 (42%), Gaps = 2/77 (2%)
Query: 374 RALDEITEVSAEKLENI-KQFKKSYALWRYWMTKEPGNFARDLVNQEGEASWWRETIKIF 432
+D T + L + K+ +K Y +++ +F V + G+A T K+
Sbjct: 273 MLVDPQTPQAIAFLRDTSKRIRK-YNGSLIVISQNVIDFLAPEVQRYGQALLDNPTYKLL 331
Query: 433 LGMSDHTLPAIMKLIDM 449
L + L AI L+++
Sbjct: 332 LAQGEKDLEAITTLMNL 348
>1te0_A Protease DEGS; two domains, serine protease, PDZ, alpha-beta
protein, hydro; 2.20A {Escherichia coli} SCOP: b.36.1.4
b.47.1.1 PDB: 3gdv_A* 3gcn_A* 3gds_A* 3gdu_A* 3gco_A*
1sot_A 1soz_A 1vcw_A 2r3y_A
Length = 318
Score = 28.3 bits (64), Expect = 7.0
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 7/32 (21%)
Query: 234 NPYNLSRTVGGSSGGESAIVSACG-SPLGLGT 264
NPYNL +T+ + G I+SA G L
Sbjct: 124 NPYNLGQTI--TQG----IISATGRIGLNPTG 149
>2d3o_1 Trigger factor, TF; ribosome, nascent chain, protein folding, SRP;
3.35A {Deinococcus radiodurans} PDB: 2aar_7
Length = 112
Score = 26.8 bits (60), Expect = 9.2
Identities = 9/44 (20%), Positives = 19/44 (43%), Gaps = 6/44 (13%)
Query: 102 KVPPQLLRKSKTKQSLVKKIEQVNSKINSVVDNRFSEALEEAKL 145
K P +++ K + QV + +++ +S+ L E L
Sbjct: 47 KAPRKVIENRVGKGYV---ESQV---RDRLLETHYSQGLRELGL 84
>1ei1_A DNA gyrase B, GYRB; ATPase domain, dimer, isomerase; HET: DNA ANP;
2.30A {Escherichia coli} SCOP: d.14.1.3 d.122.1.2
Length = 391
Score = 27.8 bits (63), Expect = 9.6
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 9/42 (21%)
Query: 102 KVP-PQLLRKSKTKQSLVKKIEQVNSKINSVVDNRFSEALEE 142
KVP P+ S+TK LV +S++ S V+ + +E L E
Sbjct: 325 KVPDPKF--SSQTKDKLV------SSEVKSAVEQQMNELLAE 358
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 0.137 0.411
Gapped
Lambda K H
0.267 0.0563 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,544,352
Number of extensions: 514279
Number of successful extensions: 1177
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1133
Number of HSP's successfully gapped: 42
Length of query: 567
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 468
Effective length of database: 3,937,614
Effective search space: 1842803352
Effective search space used: 1842803352
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: 60 (27.3 bits)