RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10062
(405 letters)
>2ojw_A Glutamine synthetase; amino-acid biosynthesis, ligase, structural
GENO structural genomics consortium, SGC; HET: ADP;
2.05A {Homo sapiens} PDB: 2qc8_A* 2uu7_A
Length = 384
Score = 231 bits (590), Expect = 1e-72
Identities = 124/234 (52%), Positives = 145/234 (61%), Gaps = 59/234 (25%)
Query: 205 NAEGPYYCGVGANKVYARDIVEAHYRACLYAGIEISGTNAEVMPSQWEFQ----DIAKCQ 260
+GPYYCGVGA++ Y RDIVEAHYRACLYAG++I+GTNAEVMP+QWEFQ +
Sbjct: 175 GPQGPYYCGVGADRAYGRDIVEAHYRACLYAGVKIAGTNAEVMPAQWEFQIGPCEGISMG 234
Query: 261 DL------------------------PI---WNYDGSSTYQS--EMREDNGIIEIEKAID 291
D PI WN G T S MRE+NG+ IE+AI+
Sbjct: 235 DHLWVARFILHRVCEDFGVIATFDPKPIPGNWNGAGCHTNFSTKAMREENGLKYIEEAIE 294
Query: 292 KLSKQHLRHIQAYDPKQGKDNERRLTGKHETSSIHDFSAGVANRGASIRIPRDCAEQKKG 351
KLSK+H HI+AYDPK G DN RRLTG HETS+I+DFSAGVANR A
Sbjct: 295 KLSKRHQYHIRAYDPKGGLDNARRLTGFHETSNINDFSAGVANRSA-------------- 340
Query: 352 YLEDRRVANRGASIRIPRDCAEQKKGYLEDRRPSSNCDPYSVTEALIRTCVLNE 405
SIRIPR ++KKGY EDRRPS+NCDP+SVTEALIRTC+LNE
Sbjct: 341 ------------SIRIPRTVGQEKKGYFEDRRPSANCDPFSVTEALIRTCLLNE 382
Score = 78.3 bits (193), Expect = 5e-16
Identities = 27/41 (65%), Positives = 32/41 (78%)
Query: 1 LPIWNYDGSSTYQSEGSNSDTFLHPVAIFKDPFRLGNNILM 41
LP WN+DGSST QSEGSNSD +L P A+F+DPFR N L+
Sbjct: 76 LPEWNFDGSSTLQSEGSNSDMYLVPAAMFRDPFRKDPNKLV 116
Score = 68.6 bits (168), Expect = 6e-13
Identities = 26/57 (45%), Positives = 36/57 (63%), Gaps = 1/57 (1%)
Query: 49 SPNAAMNKTVLDKYLALPVPADKIQATYIWIDGTGEGIRAKDRTLTGVVKNVSGRPD 105
++ +NK + Y++LP +K+QA YIWIDGTGEG+R K RTL K V P+
Sbjct: 23 MASSHLNKGIKQVYMSLPQG-EKVQAMYIWIDGTGEGLRCKTRTLDSEPKCVEELPE 78
Score = 58.2 bits (141), Expect = 1e-09
Identities = 20/41 (48%), Positives = 29/41 (70%), Gaps = 1/41 (2%)
Query: 120 SPNAAMNKTVLDKYLALPVPADKIQATYIWIDGTGEGIRAK 160
++ +NK + Y++LP +K+QA YIWIDGTGEG+R K
Sbjct: 23 MASSHLNKGIKQVYMSLPQG-EKVQAMYIWIDGTGEGLRCK 62
Score = 37.4 bits (87), Expect = 0.006
Identities = 12/22 (54%), Positives = 15/22 (68%), Gaps = 5/22 (22%)
Query: 261 DLPIWNYDGSSTYQ-----SEM 277
+LP WN+DGSST Q S+M
Sbjct: 75 ELPEWNFDGSSTLQSEGSNSDM 96
>2d3a_A Glutamine synthetase; ligase; HET: P3S ADP; 2.63A {Zea mays} PDB:
2d3b_A* 2d3c_A*
Length = 356
Score = 220 bits (563), Expect = 6e-69
Identities = 100/242 (41%), Positives = 123/242 (50%), Gaps = 64/242 (26%)
Query: 198 GIEISGTNAE-GPYYCGVGANKVYARDIVEAHYRACLYAGIEISGTNAEVMPSQWEFQ-- 254
G I G GPYYCG+GA K + RDIV+AHY+ACLYAGI ISG N EVMP QWEFQ
Sbjct: 144 GWPIGGFPGPQGPYYCGIGAEKSFGRDIVDAHYKACLYAGINISGINGEVMPGQWEFQVG 203
Query: 255 --DIAKCQDL------------------------PI---WNYDGSSTYQS--EMREDNGI 283
D PI WN G+ T S MR++ G
Sbjct: 204 PSVGISSGDQVWVARYILERITEIAGVVVTFDPKPIPGDWNGAGAHTNYSTESMRKEGGY 263
Query: 284 IEIEKAIDKLSKQHLRHIQAYDPKQGKDNERRLTGKHETSSIHDFSAGVANRGASIRIPR 343
I+ AI+KL +H HI AY G+ NERRLTG+HET+ I+ FS GVANRGA
Sbjct: 264 EVIKAAIEKLKLRHKEHIAAY----GEGNERRLTGRHETADINTFSWGVANRGA------ 313
Query: 344 DCAEQKKGYLEDRRVANRGASIRIPRDCAEQKKGYLEDRRPSSNCDPYSVTEALIRTCVL 403
S+R+ R+ + KGY EDRRP+SN DPY VT + T ++
Sbjct: 314 --------------------SVRVGRETEQNGKGYFEDRRPASNMDPYVVTSMIAETTIV 353
Query: 404 NE 405
+
Sbjct: 354 WK 355
Score = 76.7 bits (189), Expect = 1e-15
Identities = 28/41 (68%), Positives = 33/41 (80%)
Query: 1 LPIWNYDGSSTYQSEGSNSDTFLHPVAIFKDPFRLGNNILM 41
LP WNYDGSST Q+ G +S+ L+P AIFKDPFR GNNIL+
Sbjct: 50 LPKWNYDGSSTGQAPGEDSEVILYPQAIFKDPFRRGNNILV 90
Score = 44.3 bits (105), Expect = 4e-05
Identities = 20/44 (45%), Positives = 25/44 (56%)
Query: 62 YLALPVPADKIQATYIWIDGTGEGIRAKDRTLTGVVKNVSGRPD 105
L L +KI A YIWI G+G +R+K RTL G V + S P
Sbjct: 9 NLNLSDTTEKIIAEYIWIGGSGMDLRSKARTLPGPVTDPSKLPK 52
Score = 36.3 bits (84), Expect = 0.014
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 133 YLALPVPADKIQATYIWIDGTGEGIRAK 160
L L +KI A YIWI G+G +R+K
Sbjct: 9 NLNLSDTTEKIIAEYIWIGGSGMDLRSK 36
Score = 36.3 bits (84), Expect = 0.017
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 261 DLPIWNYDGSSTYQSEMRE 279
LP WNYDGSST Q+ +
Sbjct: 49 KLPKWNYDGSSTGQAPGED 67
>3fky_A Glutamine synthetase; beta-grAsp, catalytic domain, acetylation,
cytoplasm, ligase, UBL conjugation; HET: FLC; 2.95A
{Saccharomyces cerevisiae}
Length = 370
Score = 209 bits (533), Expect = 3e-64
Identities = 105/231 (45%), Positives = 125/231 (54%), Gaps = 63/231 (27%)
Query: 204 TNAEGPYYCGVGANKVYARDIVEAHYRACLYAGIEISGTNAEVMPSQWEFQ----DIAKC 259
+GPYYCGVGA KVYARD++EAHYRACLYAG+EISG NAEVMPSQWEFQ
Sbjct: 152 PAPQGPYYCGVGAGKVYARDMIEAHYRACLYAGLEISGINAEVMPSQWEFQVGPCTGIDM 211
Query: 260 QDL------------------------PI---WNYDGSSTYQS--EMREDNGIIEIEKAI 290
D P+ WN G S EMR+ G IE+AI
Sbjct: 212 GDQLWMARYFLHRVAEEFGIKISFHPKPLKGDWNGAGCHANVSTKEMRQPGGTKYIEQAI 271
Query: 291 DKLSKQHLRHIQAYDPKQGKDNERRLTGKHETSSIHDFSAGVANRGASIRIPRDCAEQKK 350
+KLSK+H HI+ Y G DN+ RLTG+HET+S+ FS+GVANRG+
Sbjct: 272 EKLSKRHAEHIKLY----GSDNDMRLTGRHETASMTAFSSGVANRGS------------- 314
Query: 351 GYLEDRRVANRGASIRIPRDCAEQKKGYLEDRRPSSNCDPYSVTEALIRTC 401
SIRIPR A++ GY EDRRP+SN DPY VT + T
Sbjct: 315 -------------SIRIPRSVAKEGYGYFEDRRPASNIDPYLVTGIMCETV 352
Score = 78.2 bits (193), Expect = 4e-16
Identities = 24/41 (58%), Positives = 32/41 (78%)
Query: 1 LPIWNYDGSSTYQSEGSNSDTFLHPVAIFKDPFRLGNNILM 41
LP WN+DGSST Q+ G +SD +L PVA + DPFR G+NI++
Sbjct: 54 LPEWNFDGSSTNQAPGHDSDIYLKPVAYYPDPFRRGDNIVV 94
Score = 60.1 bits (146), Expect = 3e-10
Identities = 20/56 (35%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 49 SPNAAMNKTVLDKYLALPVPADKIQATYIWIDGTGEGIRAKDRTLTGVVKNVSGRP 104
+ + +L KYL L +I A Y+WIDGTG +R+K RTL + ++ P
Sbjct: 2 AEASIEKTQILQKYLELDQR-GRIIAEYVWIDGTGN-LRSKGRTLKKRITSIDQLP 55
Score = 48.9 bits (117), Expect = 1e-06
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 120 SPNAAMNKTVLDKYLALPVPADKIQATYIWIDGTGEGIRAK 160
+ + +L KYL L +I A Y+WIDGTG +R+K
Sbjct: 2 AEASIEKTQILQKYLELDQR-GRIIAEYVWIDGTGN-LRSK 40
Score = 37.0 bits (86), Expect = 0.010
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 261 DLPIWNYDGSSTYQSEMRE 279
LP WN+DGSST Q+ +
Sbjct: 53 QLPEWNFDGSSTNQAPGHD 71
>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 = 49.7 bits (118), Expect = 2e-06
Identities = 79/530 (14%), Positives = 138/530 (26%), Gaps = 208/530 (39%)
Query: 32 PFRLGNNILMSHGVLGNS---P-NAAMNKTVL-DKYLA-LPVPADKIQATYIWIDGTGEG 85
P L SHG L + P + + L +++ LP P +
Sbjct: 8 PLTL------SHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGF------------- 48
Query: 86 IRAKDRTLTGVV---------------KNVSGRPDQVYYLIMSH---GVL-GNSPNAAMN 126
A D T + G+ DQV L ++ L GN +A
Sbjct: 49 --AADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAA 106
Query: 127 KTVLDKYLALPVPADKIQATYIWIDGTGEGIRAKCSQLPLLRKGPYYCGVGANKVYA--- 183
K + + L + I+ K S L R G G ++ A
Sbjct: 107 KLLQENDTTLVKTKELIKNYITARIMAKRPFD-KKSNSALFRA----VGEGNAQLVAIFG 161
Query: 184 ------------RDIVEAHYRACLYAGIEISGTNAEGPYYCGVGANKVYAR--DIVE--- 226
RD+ + Y + I+ S + A KV+ + +I+E
Sbjct: 162 GQGNTDDYFEELRDLYQ-TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLE 220
Query: 227 --------------------------AHY-RACLYAGIE----------ISGTNAEV--- 246
AHY G +G + +
Sbjct: 221 NPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTA 280
Query: 247 ----MPSQWE-FQDIAK------------CQD------LPIWNYDGSSTYQSEMREDNGI 283
WE F + C + LP S + + + G+
Sbjct: 281 VAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP------PSILEDSLENNEGV 334
Query: 284 ------------IEIEKAIDKLSKQHL---RHIQAYDPKQGKDNERR---LTGKHETSSI 325
+++ ++K + HL + ++ N + ++G S+
Sbjct: 335 PSPMLSISNLTQEQVQDYVNKTN-SHLPAGKQVEI-----SLVNGAKNLVVSG--PPQSL 386
Query: 326 HDFSAGVANRGASI-----RIP------------------------RDCAEQKKGYLEDR 356
+ + + A RIP ++ L
Sbjct: 387 YGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKN 446
Query: 357 RVANRGASIRIP----RDCAEQKKGYLEDRRPSSNCDPYSVTEALIRTCV 402
V+ I+IP D G D R S + + +IR V
Sbjct: 447 NVSFNAKDIQIPVYDTFD------G--SDLRVLSGSISERIVDCIIRLPV 488
Score = 37.3 bits (86), Expect = 0.009
Identities = 41/281 (14%), Positives = 87/281 (30%), Gaps = 88/281 (31%)
Query: 97 VKNVSGRPDQVYYLIMSHGVLGNS---P-NAAMNKTVL-DKYLA-LPVPADKIQ------ 144
+ S RP L +SHG L + P + + L +++ LP P +
Sbjct: 1 MDAYSTRP-----LTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPT 55
Query: 145 ------ATYI-----WIDGTGEGIRAKCSQLPLLR-KGPYYCGVGANKVYA--------- 183
++ ++ + G + L L + Y G N ++A
Sbjct: 56 TPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEG---NDIHALAAKLLQEN 112
Query: 184 -------RDIVEAHYRACLYAGIEISGTNAEGPYYCGV--GANKVYARDIVEAHYRACLY 234
+++++ + A + A + + V G ++ A ++
Sbjct: 113 DTTLVKTKELIKNYITARIMAKRPFD-KKSNSALFRAVGEGNAQLVA-----------IF 160
Query: 235 AGIEISGTNAEVMPSQWEFQDIAKCQDLPIWNYDGSSTYQSEMREDNGIIEIEKAIDKLS 294
G G + E +D+ Y TY + + I + + +L
Sbjct: 161 GG---QGNTDDYFE---ELRDL----------YQ---TYHVLVGD--LIKFSAETLSELI 199
Query: 295 KQHLRHIQAYDPKQGKDNERRLTGKHETSSIHDF--SAGVA 333
+ L + + QG + L T D+ S ++
Sbjct: 200 RTTLDAEKVF--TQGLNILEWLENPSNTPD-KDYLLSIPIS 237
Score = 37.0 bits (85), Expect = 0.014
Identities = 58/360 (16%), Positives = 119/360 (33%), Gaps = 142/360 (39%)
Query: 62 YLAL-PV--PADKIQAT----YI---WIDG--TGEGIRAKDRTLTGVVKNVSGRPDQVYY 109
YL P+ P I Y+ + G GE +R+ + TG + + V
Sbjct: 230 YLLSIPISCPL--IGVIQLAHYVVTAKLLGFTPGE-LRSYLKGATGHSQGL------VTA 280
Query: 110 LIMSHGVLGNSPNAAMNKTVLDKYL---------ALP---VPADKIQATYIWIDGTGEGI 157
+ ++ S ++ K + L A P +P ++ + ++ EG+
Sbjct: 281 VAIAETDSWESFFVSVRKAI--TVLFFIGVRCYEAYPNTSLPPSILEDS---LEN-NEGV 334
Query: 158 RAKCSQLPLLR-KGPYYCGVGANKVYARDIVEAHYRACLYAGIEISGTNAEGPYYCGVGA 216
+ P+L ++ V+ + ++ TN+ P
Sbjct: 335 PS-----PMLSISN-----------LTQEQVQDY----------VNKTNSHLP-----AG 363
Query: 217 NKVY------ARDIVEAHYRACLYAGIEI--------SGTNAEVMP-SQ------WEFQD 255
+V A+++V + LY G+ + SG + +P S+ F
Sbjct: 364 KQVEISLVNGAKNLVVSGPPQSLY-GLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRF-- 420
Query: 256 IAKCQDLPIWNYDGSSTYQSE-MREDNGIIEIEKAIDKLS--KQHLRHIQAYDPKQGKDN 312
LP+ +S + S + + +I + + +S + ++ I YD G D
Sbjct: 421 ------LPV-----ASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQ-IPVYDTFDGSD- 467
Query: 313 ERRLTG---------------------KHETSSIHDF----SAGVAN------RGASIRI 341
R L+G + + + I DF ++G+ G +R+
Sbjct: 468 LRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRV 527
>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 = 39.1 bits (90), Expect = 0.003
Identities = 38/340 (11%), Positives = 85/340 (25%), Gaps = 116/340 (34%)
Query: 6 YDGSSTYQSEGSNSDTFLHPVAIFKDPFRLGNNILMSHGVLGNSPNAAMNKTVLDKYLAL 65
Y + S +S + + R +L S N + VL
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSIQAELR---RLLKSK----PYENCLL---VLL----- 251
Query: 66 PVPADKIQATYIWIDGTGEGIRAKD---RTL-----TGVVKNVSGRPDQVYYLIMSHGVL 117
+ + + A + + L V +S ++ + H +
Sbjct: 252 ----N------VQ---NAKAWNAFNLSCKILLTTRFKQVTDFLSA--ATTTHISLDHHSM 296
Query: 118 GNSPNAAMNKTVLDKYLALPVPADKIQATYIWIDGTGEGIRAKCSQLPL--------LRK 169
+P+ K++L KYL + + P +R
Sbjct: 297 TLTPDEV--KSLLLKYLDCRPQDLPREV---------------LTTNPRRLSIIAESIRD 339
Query: 170 GP----YYCGVGANKVYARDIVEAHYRACLYAGIEISGTNAEGPYYCGVGANKVYARDIV 225
G + V +K+ I+E+ L N P
Sbjct: 340 GLATWDNWKHVNCDKL--TTIIES----SL---------NVLEP-------------AEY 371
Query: 226 EAHYRAC--LYAGIEISGTNAEVMPSQW------EFQDIA-KCQD---LPIWNYDGSSTY 273
+ I ++ W + + K + + + +
Sbjct: 372 RKMFDRLSVFPPSAHIP---TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI 428
Query: 274 QSEMREDNGIIEIEKAIDKLSKQHLRHIQAYDPKQGKDNE 313
S +E++ ++ H + Y+ + D++
Sbjct: 429 PS------IYLELKVKLENEYALHRSIVDHYNIPKTFDSD 462
>2bvc_A Glutamine synthetase 1; ligase, transition state mimic; HET: P3S
ADP; 2.1A {Mycobacterium tuberculosis} SCOP: d.15.9.1
d.128.1.1 PDB: 2wgs_A* 2whi_A* 3zxr_A* 3zxv_A* 1hto_A*
1htq_A*
Length = 486
Score = 33.4 bits (77), Expect = 0.15
Identities = 14/32 (43%), Positives = 18/32 (56%)
Query: 360 NRGASIRIPRDCAEQKKGYLEDRRPSSNCDPY 391
NR A +RIP + K LE R P S+ +PY
Sbjct: 354 NRSACVRIPITGSNPKAKRLEFRSPDSSGNPY 385
>3ng0_A Glutamine synthetase; GSI, nitrogen metabolism, synec ligase; HET:
ANP; 2.80A {Synechocystis SP}
Length = 473
Score = 32.2 bits (74), Expect = 0.35
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 360 NRGASIRIPRDCAEQKKGYLEDRRPSSNCDPY 391
NR AS+RIP K LE R P + +PY
Sbjct: 341 NRSASVRIPLSGGNPKAKRLEFRCPDATSNPY 372
>2j9i_A Glutamate-ammonia ligase domain-containing protein 1; 17.00A {Mus
musculus}
Length = 421
Score = 31.7 bits (73), Expect = 0.41
Identities = 6/32 (18%), Positives = 14/32 (43%), Gaps = 1/32 (3%)
Query: 360 NRGASIRIPRDCAEQKKGYLEDRRPSSNCDPY 391
++ I A K +E++ ++ +PY
Sbjct: 300 AAACALNIAA-AAAAKGAQIENKAGAAAANPY 330
>1fno_A Peptidase T; metallo peptidase, protease, hydrolase; 2.40A
{Salmonella typhimurium} SCOP: c.56.5.4 d.58.19.1 PDB:
1vix_A
Length = 417
Score = 30.2 bits (68), Expect = 1.3
Identities = 13/67 (19%), Positives = 27/67 (40%), Gaps = 2/67 (2%)
Query: 234 YAGIEISGTNAEVMPSQWEFQDIAKCQDLPIWNYDGSSTYQSEMREDNGIIEIEKAIDKL 293
Y G +I+ + + S F + + + DG + ++ + G+ EI A+ L
Sbjct: 98 YRGGDIALGIGDEVLSPVMFPVLHQLLGQTLITTDGKTLLGADDK--AGVAEIMTALAVL 155
Query: 294 SKQHLRH 300
+ H
Sbjct: 156 KGNPIPH 162
>2x4g_A Nucleoside-diphosphate-sugar epimerase; isomerase; 2.65A
{Pseudomonas aeruginosa}
Length = 342
Score = 29.6 bits (67), Expect = 1.7
Identities = 4/26 (15%), Positives = 8/26 (30%)
Query: 168 RKGPYYCGVGANKVYARDIVEAHYRA 193
+ +Y N + A + A
Sbjct: 204 GEMTHYVAGQRNVIDAAEAGRGLLMA 229
Score = 28.8 bits (65), Expect = 2.9
Identities = 4/23 (17%), Positives = 7/23 (30%)
Query: 209 PYYCGVGANKVYARDIVEAHYRA 231
+Y N + A + A
Sbjct: 207 THYVAGQRNVIDAAEAGRGLLMA 229
>3qaj_A Glutamine synthetase; AMP-PCP, ACP, ligase; HET: GLU ADP RGP CIT
AMP; 3.05A {Bacillus subtilis}
Length = 444
Score = 29.4 bits (67), Expect = 2.1
Identities = 15/61 (24%), Positives = 18/61 (29%), Gaps = 28/61 (45%)
Query: 331 GVANRGASIRIPRDCAEQKKGYLEDRRVANRGASIRIPRDCAEQKKGYLEDRRPSSNCDP 390
NR IRIP A+RG S R+ E R +P
Sbjct: 312 SAQNRSPLIRIP----------------ASRGISTRV------------EVRSVDPAANP 343
Query: 391 Y 391
Y
Sbjct: 344 Y 344
>1f52_A Glutamine synthetase; ADP, MPD, ligase; HET: ADP; 2.49A {Salmonella
typhimurium} SCOP: d.15.9.1 d.128.1.1 PDB: 1f1h_A*
1fpy_A* 1lgr_A* 2lgs_A* 2gls_A
Length = 468
Score = 29.1 bits (66), Expect = 3.0
Identities = 16/58 (27%), Positives = 18/58 (31%), Gaps = 27/58 (46%)
Query: 334 NRGASIRIPRDCAEQKKGYLEDRRVANRGASIRIPRDCAEQKKGYLEDRRPSSNCDPY 391
NR ASIRIP V + RI E R P +PY
Sbjct: 338 NRSASIRIP---------------VVASPKARRI------------EVRFPDPAANPY 368
>1iru_I 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_H* 3une_H
Length = 234
Score = 27.7 bits (62), Expect = 6.1
Identities = 14/64 (21%), Positives = 25/64 (39%), Gaps = 17/64 (26%)
Query: 199 IEISGTNAEGPYYCGVGANKVYARDIVEAHYRA-------------CLYAGIE---ISGT 242
I G+ + PY +G+ + A + E +R + AGI SG+
Sbjct: 113 IYPHGSTDKLPYVT-MGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGS 171
Query: 243 NAEV 246
N ++
Sbjct: 172 NIDL 175
>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 = 27.2 bits (59), Expect = 6.3
Identities = 10/27 (37%), Positives = 12/27 (44%), Gaps = 6/27 (22%)
Query: 53 AMNKTVLDKYLAL--P--VPADKIQAT 75
A+ K L L L PA I+AT
Sbjct: 21 ALKK--LQASLKLYADDSAPALAIKAT 45
Score = 27.2 bits (59), Expect = 6.3
Identities = 10/27 (37%), Positives = 12/27 (44%), Gaps = 6/27 (22%)
Query: 124 AMNKTVLDKYLAL--P--VPADKIQAT 146
A+ K L L L PA I+AT
Sbjct: 21 ALKK--LQASLKLYADDSAPALAIKAT 45
Score = 26.8 bits (58), Expect = 9.2
Identities = 5/38 (13%), Positives = 11/38 (28%), Gaps = 18/38 (47%)
Query: 97 VKNVSGR-----PDQVYYLIMSHGVLGNSPNAAMNKTV 129
+K + D ++P A+ T+
Sbjct: 22 LKKLQASLKLYADD-------------SAPALAIKATM 46
>3ghg_B Fibrinogen beta chain; triple-stranded coiled coil, beta sheets,
alpha helices, AMY amyloidosis, blood coagulation,
disease mutation, glycoprot phosphoprotein; HET: NAG NDG
BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_B*
1deq_B 2a45_H*
Length = 461
Score = 28.1 bits (62), Expect = 6.5
Identities = 16/123 (13%), Positives = 40/123 (32%), Gaps = 7/123 (5%)
Query: 278 REDNGIIEIEKAIDKLSKQHLRHIQAYDPKQGKDNER--RLTGKHETSSIHDFSAGVANR 335
+ + ++ + K K + + Y + K + +++ + + N
Sbjct: 116 QYMYLLKDLWQKRQKQVKDNENVVNEYSSELEKHQLYIDETVNSNIPTNLRVLRSILENL 175
Query: 336 GASIRIPRDCAEQKKGYLEDRRVANRGASIRIPRDCAE-QKKGYLEDR----RPSSNCDP 390
+ I+ + Y + + ++C E +KG +P S+ P
Sbjct: 176 RSKIQKLESDVSAQMEYCRTPCTVSCNIPVVSGKECEEIIRKGGETSEMYLIQPDSSVKP 235
Query: 391 YSV 393
Y V
Sbjct: 236 YRV 238
>1q5q_A Proteasome alpha-type subunit 1; proteasome assembly, Pro-peptide,
inter-subunit contacts, RH erythropolis, hydrolase;
2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB:
2h6j_A 1q5r_A
Length = 259
Score = 27.7 bits (61), Expect = 7.0
Identities = 12/72 (16%), Positives = 19/72 (26%), Gaps = 14/72 (19%)
Query: 195 LYAGIEISGTNAEGPYYCGVGANKVYARDIVEAHYR-------------ACLYAGIEISG 241
LY I G+ + ++ +G + YR L G G
Sbjct: 138 LYR-ITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEG 196
Query: 242 TNAEVMPSQWEF 253
V + E
Sbjct: 197 EKRNVDVASLEV 208
>3nzj_H Proteasome component PUP1; ubiquitin, protein degradation,
N-terminal nucleophilic HYDR 19S regulatory particle;
HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB:
3nzw_H* 3nzx_H*
Length = 261
Score = 27.3 bits (61), Expect = 9.7
Identities = 15/64 (23%), Positives = 27/64 (42%), Gaps = 17/64 (26%)
Query: 199 IEISGTNAEGPYYCGVGANKVYARDIVEAHYRA-------------CLYAGIE---ISGT 242
I G+ G Y +G+ + A ++E+H++ + AGI SG+
Sbjct: 142 IHAHGSTDVGYYLS-LGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGS 200
Query: 243 NAEV 246
N +V
Sbjct: 201 NVDV 204
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 0.410
Gapped
Lambda K H
0.267 0.0753 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,407,917
Number of extensions: 396830
Number of successful extensions: 817
Number of sequences better than 10.0: 1
Number of HSP's gapped: 798
Number of HSP's successfully gapped: 42
Length of query: 405
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 309
Effective length of database: 4,021,377
Effective search space: 1242605493
Effective search space used: 1242605493
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: 58 (26.1 bits)