BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 009708
(528 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YXL|A Chain A, Crystal Structure Of Ph0851
Length = 450
Score = 166 bits (420), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 105/314 (33%), Positives = 166/314 (52%), Gaps = 8/314 (2%)
Query: 215 NDRAQARALATIYSHPVWMVRRWTKYLGQEEAIKLMVWNNSDPSFSLRANSRKGVTRADL 274
N + + L Y P W++ R LG E N S+R N+ K ++
Sbjct: 143 NPKNELEELEWKYLAPSWLIERVKGILGDETEDFFRSVNKRHEWISIRVNTLKANVE-EV 201
Query: 275 VMQLNLLKLQVPHELSLHLDEFIRVKTGLQNVIQAGLLKEGLCAVQDESAGLVVAVVDPQ 334
+ +L ++V S + +++K G N + EG VQ+E++ + V+DP+
Sbjct: 202 IGELEEDGVEVVR--SERVPTILKIK-GPYNFDTSSAFNEGKIIVQEEASAVASIVLDPK 258
Query: 335 PGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLRILNETAKLHQVNSVIRTIHA 394
PG+++VD AAPGGKT ++A + +G +YA D++K R++ L + K + +++ +
Sbjct: 259 PGETVVDLAAAPGGKTTHLAELMKNKGKIYAFDVDKMRMKRLKDFVKRMGIK-IVKPLVK 317
Query: 395 DLRTFADNSTVK-CDKVLLDAPCSGLGVLSKRADLRWNRRLEDMEELKILQDELLDAASL 453
D R + + DKVLLDAPC+ G + K +LRW R + + E+ LQ ELL++A+
Sbjct: 318 DARKAPEIIGEEVADKVLLDAPCTSSGTIGKNPELRWRLREDKINEMSQLQRELLESAAR 377
Query: 454 LVKPGGVLVYSTCSIDPEENEERVEAFLLRHPEFSIDPADGLVPSDFVTKHGFFFSDPIK 513
LVKPGG L+Y+TCSI EENE+ + FL HPEF + P P D G + P +
Sbjct: 378 LVKPGGRLLYTTCSIFKEENEKNIRWFLNVHPEFKLVPLKS--PYDPGFLEGTMRAWPHR 435
Query: 514 HSLDGAFAARLVRA 527
HS G F A L ++
Sbjct: 436 HSTIGFFYALLEKS 449
>pdb|1SQF|A Chain A, The Crystal Structure Of E. Coli Fmu Binary Complex With
S- Adenosylmethionine At 2.1 A Resolution
pdb|1SQG|A Chain A, The Crystal Structure Of The E. Coli Fmu Apoenzyme At 1.65
A Resolution
Length = 429
Score = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 124/415 (29%), Positives = 200/415 (48%), Gaps = 46/415 (11%)
Query: 115 VTDIVGGTIRWRRYLDHLICLLCHDEKTFSSMEPLLLQILRIGFYEIVKLDMPPYAVVDE 174
+ ++ G +R LD LI L + + + + ++ +G Y+++ +PP+A + E
Sbjct: 44 LQELCFGVLRTLSQLDWLINKLM--ARPMTGKQRTVHYLIMVGLYQLLYTRIPPHAALAE 101
Query: 175 NVRLAKVALRPGAGNLVNGILRKLVLLKDNNSLPLPKLEGNDRAQARALATI------YS 228
V A RP L+NG+LR+ R Q LA Y
Sbjct: 102 TVEGAIAIKRPQLKGLINGVLRQF-----------------QRQQEELLAEFNASDARYL 144
Query: 229 HPVWMVRRWTK-YLGQEEAIKLMVWNNSDPSFSLRANSRKGVTRADLVMQLNLLKLQ-VP 286
HP W+++R K Y Q ++I + NN P LR N R +R + L+ ++ P
Sbjct: 145 HPSWLLKRLQKAYPEQWQSI--VEANNQRPPMWLRIN-RTHHSRDSWLALLDEAGMKGFP 201
Query: 287 HELSLHLDEFIRVKTGLQNVIQAGLLKEGLCAVQDESAGLVVAVVDPQPGQSIVDCCAAP 346
H + +R++T G ++G VQD SA + + PQ G+ I+D CAAP
Sbjct: 202 HA---DYPDAVRLETPAPVHALPGF-EDGWVTVQDASAQGCMTWLAPQNGEHILDLCAAP 257
Query: 347 GGKTLYMASCLSGQGLVYAIDINKGRLRILNETAKLHQVNSVIRTIHADLRTFAD-NSTV 405
GGKT ++ ++ + V A+DI++ RL + + K + + ++ D R +
Sbjct: 258 GGKTTHILE-VAPEAQVVAVDIDEQRLSRVYDNLKRLGMKATVK--QGDGRYPSQWCGEQ 314
Query: 406 KCDKVLLDAPCSGLGVLSKRADLRWNRRLEDMEELKILQDELLDAASLLVKPGGVLVYST 465
+ D++LLDAPCS GV+ + D++W RR D+ EL LQ E+LDA +K GG LVY+T
Sbjct: 315 QFDRILLDAPCSATGVIRRHPDIKWLRRDRDIPELAQLQSEILDAIWPHLKTGGTLVYAT 374
Query: 466 CSIDPEENEERVEAFLLRHPEFSI-------DPADGLVPSDFVTKHGFFFSDPIK 513
CS+ PEEN +++AFL R + + P +P GFF++ IK
Sbjct: 375 CSVLPEENSLQIKAFLQRTADAELCETGTPEQPGKQNLPG-AEEGDGFFYAKLIK 428
>pdb|1IXK|A Chain A, Crystal Structure Analysis Of Methyltransferase Homolog
Protein From Pyrococcus Horikoshii
Length = 315
Score = 128 bits (321), Expect = 9e-30, Method: Compositional matrix adjust.
Identities = 66/160 (41%), Positives = 97/160 (60%), Gaps = 2/160 (1%)
Query: 315 GLCAVQDESAGLVVAVVDPQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLR 374
GL +Q+ S+ +DP+PG+ + D AAPGGKT Y+A G++YA D+++ RLR
Sbjct: 98 GLIYIQEASSXYPPVALDPKPGEIVADXAAAPGGKTSYLAQLXRNDGVIYAFDVDENRLR 157
Query: 375 ILNETAKLHQVNSVIRTIHADLRTFADNSTVKCDKVLLDAPCSGLGVLSKRADLRWNRRL 434
V +VI + L N V+ DK+LLDAPC+G G + K + +WNR
Sbjct: 158 ETRLNLSRLGVLNVILFHSSSLHIGELN--VEFDKILLDAPCTGSGTIHKNPERKWNRTX 215
Query: 435 EDMEELKILQDELLDAASLLVKPGGVLVYSTCSIDPEENE 474
+D++ + LQ LL+ ++KPGG+LVYSTCS++PEENE
Sbjct: 216 DDIKFCQGLQXRLLEKGLEVLKPGGILVYSTCSLEPEENE 255
>pdb|3M6U|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group 43
pdb|3M6U|B Chain B, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group 43
pdb|3M6V|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P2 In Complex With
S-Adenosyl-L- Methionine
pdb|3M6V|B Chain B, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P2 In Complex With
S-Adenosyl-L- Methionine
Length = 464
Score = 125 bits (315), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 69/176 (39%), Positives = 103/176 (58%), Gaps = 2/176 (1%)
Query: 315 GLCAVQDESAGLVVAVVDPQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLR 374
GL +Q+ SA V ++DP+PG+ ++D AAPGGKT ++A+ + G+GL+ A +++ R+R
Sbjct: 81 GLYYIQEPSAQAVGVLLDPKPGERVLDLAAAPGGKTTHLAARMGGKGLLLANEVDGKRVR 140
Query: 375 ILNETAKLHQVNSVIRTIHADLRTFADNSTVKCDKVLLDAPCSGLGVLSKRADLRWNRRL 434
L E + + + + A R A+ +VLLDAPCSG G+ K + +
Sbjct: 141 GLLEN--VERWGAPLAVTQAPPRALAEAFGTYFHRVLLDAPCSGEGMFRKDREAARHWGP 198
Query: 435 EDMEELKILQDELLDAASLLVKPGGVLVYSTCSIDPEENEERVEAFLLRHPEFSID 490
+ + +Q LL AS L+ PGGVLVYSTC+ PEENE V FL HPEF ++
Sbjct: 199 SAPKRMAEVQKALLAQASRLLGPGGVLVYSTCTFAPEENEGVVAHFLKAHPEFRLE 254
>pdb|3M6W|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P21212 In Complex
With S-Adenosyl-L- Methionine
Length = 464
Score = 125 bits (315), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 69/176 (39%), Positives = 103/176 (58%), Gaps = 2/176 (1%)
Query: 315 GLCAVQDESAGLVVAVVDPQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLR 374
GL +Q+ SA V ++DP+PG+ ++D AAPGGKT ++A+ + G+GL+ A +++ R+R
Sbjct: 81 GLYYIQEPSAQAVGVLLDPKPGERVLDLAAAPGGKTTHLAARMGGKGLLLANEVDGKRVR 140
Query: 375 ILNETAKLHQVNSVIRTIHADLRTFADNSTVKCDKVLLDAPCSGLGVLSKRADLRWNRRL 434
L E + + + + A R A+ +VLLDAPCSG G+ K + +
Sbjct: 141 GLLEN--VERWGAPLAVTQAPPRALAEAFGTYFHRVLLDAPCSGEGMFRKDREAARHWGP 198
Query: 435 EDMEELKILQDELLDAASLLVKPGGVLVYSTCSIDPEENEERVEAFLLRHPEFSID 490
+ + +Q LL AS L+ PGGVLVYSTC+ PEENE V FL HPEF ++
Sbjct: 199 SAPKRMAEVQKALLAQASRLLGPGGVLVYSTCTFAPEENEGVVAHFLKAHPEFRLE 254
>pdb|3M6X|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P21212
Length = 464
Score = 122 bits (307), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 69/176 (39%), Positives = 100/176 (56%), Gaps = 2/176 (1%)
Query: 315 GLCAVQDESAGLVVAVVDPQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLR 374
GL +Q+ SA V ++DP+PG+ ++D AAPGGKT ++A+ G+GL+ A +++ R+R
Sbjct: 81 GLYYIQEPSAQAVGVLLDPKPGERVLDLAAAPGGKTTHLAARXGGKGLLLANEVDGKRVR 140
Query: 375 ILNETAKLHQVNSVIRTIHADLRTFADNSTVKCDKVLLDAPCSGLGVLSKRADLRWNRRL 434
L E + + + + A R A+ +VLLDAPCSG G K + +
Sbjct: 141 GLLEN--VERWGAPLAVTQAPPRALAEAFGTYFHRVLLDAPCSGEGXFRKDREAARHWGP 198
Query: 435 EDMEELKILQDELLDAASLLVKPGGVLVYSTCSIDPEENEERVEAFLLRHPEFSID 490
+ +Q LL AS L+ PGGVLVYSTC+ PEENE V FL HPEF ++
Sbjct: 199 SAPKRXAEVQKALLAQASRLLGPGGVLVYSTCTFAPEENEGVVAHFLKAHPEFRLE 254
>pdb|2FRX|A Chain A, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
pdb|2FRX|B Chain B, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
pdb|2FRX|C Chain C, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
pdb|2FRX|D Chain D, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
Length = 479
Score = 110 bits (274), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 86/277 (31%), Positives = 137/277 (49%), Gaps = 20/277 (7%)
Query: 260 SLRANSRKGVTRADLVMQLNLLKLQVPHELSL----HLDEFIRVKTGLQNVIQAGLLKE- 314
S+R N+ K ++ AD L+L P+ +L +E ++ ++ + G E
Sbjct: 40 SIRVNTLK-ISVADF------LQLTAPYGWTLTPIPWCEEGFWIERDNEDALPLGSTAEH 92
Query: 315 --GLCAVQDESAGLVVAVV--DPQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINK 370
GL +Q+ S+ L VA + D Q + D AAPG KT +++ + +G + A + +
Sbjct: 93 LSGLFYIQEASSXLPVAALFADGNAPQRVXDVAAAPGSKTTQISARXNNEGAILANEFSA 152
Query: 371 GRLRILNETAKLHQVNSVIRTIHADLRTFADNSTVKCDKVLLDAPCSGLGVLSKRADLRW 430
R+++L+ +++V T H D R F D +LLDAPCSG GV+ K D
Sbjct: 153 SRVKVLHANISRCGISNVALT-HFDGRVFGAAVPEXFDAILLDAPCSGEGVVRKDPDALK 211
Query: 431 NRRLEDMEELKILQDELLDAASLLVKPGGVLVYSTCSIDPEENEERVEAFLLRHPE-FSI 489
N E +E+ Q EL+D+A ++PGG LVYSTC+++ EENE +P+
Sbjct: 212 NWSPESNQEIAATQRELIDSAFHALRPGGTLVYSTCTLNQEENEAVCLWLKETYPDAVEF 271
Query: 490 DPADGLVP--SDFVTKHGFFFSDPIKHSLDGAFAARL 524
P L P + +T+ GF P + +G F ARL
Sbjct: 272 LPLGDLFPGANKALTEEGFLHVFPQIYDCEGFFVARL 308
>pdb|3A4T|A Chain A, Crystal Structure Of Atrm4 From M.Jannaschii With
Sinefungin
pdb|3A4T|B Chain B, Crystal Structure Of Atrm4 From M.Jannaschii With
Sinefungin
pdb|3AJD|A Chain A, Crystal Structure Of Atrm4
Length = 274
Score = 103 bits (258), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 63/171 (36%), Positives = 99/171 (57%), Gaps = 10/171 (5%)
Query: 315 GLCAVQDESAGLVVAVVDPQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLR 374
G Q S+ + V++P+ I+D CAAPGGKT ++A + +G + A++I+K R +
Sbjct: 63 GYYMPQSISSMIPPIVLNPREDDFILDMCAAPGGKTTHLAQLMKNKGTIVAVEISKTRTK 122
Query: 375 ILNETA-KLHQVNSVIRTIHADLRTFAD---NSTVKCDKVLLDAPCSGLGVLSKRADLRW 430
L ++ +N++I I+AD+R + D + + DK+LLDAPCSG + D
Sbjct: 123 ALKSNINRMGVLNTII--INADMRKYKDYLLKNEIFFDKILLDAPCSGNII----KDKNR 176
Query: 431 NRRLEDMEELKILQDELLDAASLLVKPGGVLVYSTCSIDPEENEERVEAFL 481
N ED++ + Q EL+D L+K G LVYSTCS++ EENEE ++ L
Sbjct: 177 NVSEEDIKYCSLRQKELIDIGIDLLKKDGELVYSTCSMEVEENEEVIKYIL 227
>pdb|3M4X|A Chain A, Structure Of A Ribosomal Methyltransferase
Length = 456
Score = 97.8 bits (242), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 59/175 (33%), Positives = 91/175 (52%), Gaps = 1/175 (0%)
Query: 311 LLKEGLCAVQDESAGLVVAVVDPQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINK 370
L + G Q+ SA +V +PG+ ++D CAAPGGK+ +A+ G+GL+ +I
Sbjct: 81 LHQAGYEYSQEPSAXIVGTAAAAKPGEKVLDLCAAPGGKSTQLAAQXKGKGLLVTNEIFP 140
Query: 371 GRLRILNETAKLHQVNSVIRTIHADLRTFADNSTVKCDKVLLDAPCSGLGVLSKRADLRW 430
R +IL+E + V++ I T HA S D++++DAPCSG G K +
Sbjct: 141 KRAKILSENIERWGVSNAIVTNHAPAELVPHFSGF-FDRIVVDAPCSGEGXFRKDPNAIK 199
Query: 431 NRRLEDMEELKILQDELLDAASLLVKPGGVLVYSTCSIDPEENEERVEAFLLRHP 485
E + Q E+L +A +K G L+YSTC+ PEENEE + + +P
Sbjct: 200 EWTEESPLYCQKRQQEILSSAIKXLKNKGQLIYSTCTFAPEENEEIISWLVENYP 254
>pdb|2B9E|A Chain A, Human Nsun5 Protein
Length = 309
Score = 72.0 bits (175), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 62/195 (31%), Positives = 90/195 (46%), Gaps = 23/195 (11%)
Query: 311 LLKEGLCAVQDESAGLVVAVVDPQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINK 370
L + G +QD ++ L ++DP PG ++D CAAPG KT ++A+ L QG ++A D++
Sbjct: 78 LYRAGHLILQDRASCLPAMLLDPPPGSHVIDACAAPGNKTSHLAALLKNQGKIFAFDLDA 137
Query: 371 GRLRILNETAKLHQVNSVIRTIHADLRTFA--DNSTVKCDKVLLDAPCSGLGVLSKRADL 428
RL + V S D + D + +LLD CSG G+ S
Sbjct: 138 KRLASMATLLARAGV-SCCELAEEDFLAVSPSDPRYHEVHYILLDPSCSGSGMPS----- 191
Query: 429 RWNRRLED----------MEELKILQDELLDAASLLVKPGGVLVYSTCSIDPEENEERVE 478
R+LE+ + L Q L A L LVYSTCS+ EENE+ V
Sbjct: 192 ---RQLEEPGAGTPSPVRLHALAGFQQRALCHA-LTFPSLQRLVYSTCSLCQEENEDVVR 247
Query: 479 AFLLRHP-EFSIDPA 492
L ++P F + PA
Sbjct: 248 DALQQNPGAFRLAPA 262
>pdb|4FP9|A Chain A, Human Mterf4-Nsun4 Protein Complex
pdb|4FP9|C Chain C, Human Mterf4-Nsun4 Protein Complex
pdb|4FP9|D Chain D, Human Mterf4-Nsun4 Protein Complex
pdb|4FP9|F Chain F, Human Mterf4-Nsun4 Protein Complex
Length = 360
Score = 69.7 bits (169), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 51/168 (30%), Positives = 84/168 (50%), Gaps = 8/168 (4%)
Query: 319 VQDESAGLVVAVVDPQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLRILNE 378
+ D ++ L V + QPG ++D CAAPGGKTL + + L A D++ R+ L +
Sbjct: 133 LMDAASLLPVLALGLQPGDIVLDLCAAPGGKTLALLQTGCCRNLA-ANDLSPSRIARLQK 191
Query: 379 TAKLHQVNSV-----IRTIHADLRTFADNSTVKCDKVLLDAPCSG--LGVLSKRADLRWN 431
+ + +R D R + + D+VL+D PC+ + + ++
Sbjct: 192 ILHSYVPEEIRDGNQVRVTSWDGRKWGELEGDTYDRVLVDVPCTTDRHSLHEEENNIFKR 251
Query: 432 RRLEDMEELKILQDELLDAASLLVKPGGVLVYSTCSIDPEENEERVEA 479
R ++ + L +LQ +LL A L KPGG +VYSTCS+ +NE V+
Sbjct: 252 SRKKERQILPVLQVQLLAAGLLATKPGGHVVYSTCSLSHLQNEYVVQG 299
>pdb|4FZV|A Chain A, Crystal Structure Of The Human Mterf4:nsun4:sam Ternary
Complex
Length = 359
Score = 68.9 bits (167), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 51/166 (30%), Positives = 83/166 (50%), Gaps = 8/166 (4%)
Query: 321 DESAGLVVAVVDPQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLRILNETA 380
D ++ L V + QPG ++D CAAPGGKTL + + L A D++ R+ L +
Sbjct: 134 DAASLLPVLALGLQPGDIVLDLCAAPGGKTLALLQTGCCRNLA-ANDLSPSRIARLQKIL 192
Query: 381 KLHQVNSV-----IRTIHADLRTFADNSTVKCDKVLLDAPCSG--LGVLSKRADLRWNRR 433
+ + +R D R + + D+VL+D PC+ + + ++ R
Sbjct: 193 HSYVPEEIRDGNQVRVTSWDGRKWGELEGDTYDRVLVDVPCTTDRHSLHEEENNIFKRSR 252
Query: 434 LEDMEELKILQDELLDAASLLVKPGGVLVYSTCSIDPEENEERVEA 479
++ + L +LQ +LL A L KPGG +VYSTCS+ +NE V+
Sbjct: 253 KKERQILPVLQVQLLAAGLLATKPGGHVVYSTCSLSHLQNEYVVQG 298
>pdb|3LHD|C Chain C, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
pdb|3LHD|A Chain A, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
pdb|3LHD|B Chain B, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
pdb|3LHD|D Chain D, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
pdb|3LGA|A Chain A, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
pdb|3LGA|B Chain B, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
pdb|3LGA|C Chain C, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
pdb|3LGA|D Chain D, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Homocysteine
Length = 253
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/157 (22%), Positives = 62/157 (39%), Gaps = 30/157 (19%)
Query: 312 LKEGLCAVQDESAGLVVAVVDPQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKG 371
+K G V + A L+VA PG IV+ G TL++A+ + +G V + +I +
Sbjct: 70 MKRGPQIVHPKDAALIVAYAGISPGDFIVEAGVGSGALTLFLANIVGPEGRVVSYEIRED 129
Query: 372 RLRILNETAKLHQVNSVIRTIHADLRTFADNSTVKCDKVLLDAPCSGLGVLSKRADLRWN 431
++ E K + + D+ + V D V+LD P
Sbjct: 130 FAKLAWENIKWAGFDDRVTIKLKDIYEGIEEENV--DHVILDLPQP-------------- 173
Query: 432 RRLEDMEELKILQDELLDAASLLVKPGGVLV-YSTCS 467
+ +++ A+ +KPGG V Y+ CS
Sbjct: 174 -------------ERVVEHAAKALKPGGFFVAYTPCS 197
>pdb|3MB5|A Chain A, Crystal Structure Of P. Abyssi Trna M1a58
Methyltransferase In Complex With
S-Adenosyl-L-Methionine
Length = 255
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/157 (22%), Positives = 62/157 (39%), Gaps = 30/157 (19%)
Query: 312 LKEGLCAVQDESAGLVVAVVDPQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKG 371
+K G V + A L+VA PG IV+ G TL++A+ + +G V + +I +
Sbjct: 70 MKRGPQIVHPKDAALIVAYAGISPGDFIVEAGVGSGALTLFLANIVGPEGRVVSYEIRED 129
Query: 372 RLRILNETAKLHQVNSVIRTIHADLRTFADNSTVKCDKVLLDAPCSGLGVLSKRADLRWN 431
++ E K + + D+ + V D V+LD P
Sbjct: 130 FAKLAWENIKWAGFDDRVTIKLKDIYEGIEEENV--DHVILDLPQP-------------- 173
Query: 432 RRLEDMEELKILQDELLDAASLLVKPGGVLV-YSTCS 467
+ +++ A+ +KPGG V Y+ CS
Sbjct: 174 -------------ERVVEHAAKALKPGGFFVAYTPCS 197
>pdb|3TMA|A Chain A, Crystal Structure Of Trmn From Thermus Thermophilus
Length = 354
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 40/130 (30%), Positives = 55/130 (42%), Gaps = 16/130 (12%)
Query: 330 VVDPQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLRILNETAKLHQVNSVI 389
+ D +PG ++D G L AS L VYA D+++ RL + E A L S I
Sbjct: 198 LADARPGMRVLDPFTGSGTIALEAASTLGPTSPVYAGDLDEKRLGLAREAA-LASGLSWI 256
Query: 390 RTIHADLRTFADNSTVKCDKVLLDAPCSGLGVLSKRADLRWNRRLEDMEELKILQDELLD 449
R + AD R + D++L + P GL RL E L L + L
Sbjct: 257 RFLRADARHL-PRFFPEVDRILAN-PPHGL-------------RLGRKEGLFHLYWDFLR 301
Query: 450 AASLLVKPGG 459
A L+ PGG
Sbjct: 302 GALALLPPGG 311
>pdb|2B25|A Chain A, Human Putative Trna(1-Methyladenosine)methyltransferase
pdb|2B25|B Chain B, Human Putative Trna(1-Methyladenosine)methyltransferase
Length = 336
Score = 36.6 bits (83), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 25/114 (21%), Positives = 52/114 (45%), Gaps = 11/114 (9%)
Query: 311 LLKEGLCAVQDESAGLVVAVVDPQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAI---- 366
L+K G + ++++++D PG ++++ + GG +L+++ + QG V +
Sbjct: 81 LMKRGTAITFPKDINMILSMMDINPGDTVLEAGSGSGGMSLFLSKAVGSQGRVISFEVRK 140
Query: 367 ---DINKGRLRILNETAKLHQVNSV---IRTIHADLR-TFADNSTVKCDKVLLD 413
D+ K + ++ KL V + IH D+ D ++ D V LD
Sbjct: 141 DHHDLAKKNYKHWRDSWKLSHVEEWPDNVDFIHKDISGATEDIKSLTFDAVALD 194
>pdb|1EIZ|A Chain A, Ftsj Rna Methyltransferase Complexed With S-
Adenosylmethionine
pdb|1EJ0|A Chain A, Ftsj Rna Methyltransferase Complexed With S-
Adenosylmethionine, Mercury Derivative
Length = 180
Score = 36.2 bits (82), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 24/35 (68%)
Query: 334 QPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDI 368
+PG ++VD AAPGG + Y+ + + G+G + A D+
Sbjct: 21 KPGMTVVDLGAAPGGWSQYVVTQIGGKGRIIACDL 55
>pdb|1WXW|A Chain A, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
pdb|1WXW|B Chain B, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
pdb|1WXW|C Chain C, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
pdb|1WXW|D Chain D, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
pdb|1WXX|A Chain A, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
pdb|1WXX|B Chain B, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
pdb|1WXX|C Chain C, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
pdb|1WXX|D Chain D, Crystal Structure Of Tt1595, A Putative Sam-Dependent
Methyltransferase From Thermus Thermophillus Hb8
Length = 382
Score = 33.1 bits (74), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 37/135 (27%), Positives = 59/135 (43%), Gaps = 20/135 (14%)
Query: 336 GQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLRILNETAKLHQVNSVIRTIHA- 394
G+ +D + GG L++A G V A+D + LR E A+L+ + +V R + A
Sbjct: 210 GERALDVFSYAGGFALHLAL---GFREVVAVDSSAEALRRAEENARLNGLGNV-RVLEAN 265
Query: 395 --DLRTFADNSTVKCDKVLLDAPCSGLGVLSKRADLRWNRRLEDMEELKILQDELLDAAS 452
DL + + D V+LD P G +D+E E+ A
Sbjct: 266 AFDLLRRLEKEGERFDLVVLDPPAFAKGK-------------KDVERAYRAYKEVNLRAI 312
Query: 453 LLVKPGGVLVYSTCS 467
L+K GG+L ++CS
Sbjct: 313 KLLKEGGILATASCS 327
>pdb|2CWW|A Chain A, Crystal Structure Of Thermus Thermophilus Ttha1280, A
Putative Sam- Dependent Rna Methyltransferase, In
Complex With S-Adenosyl-L- Homocysteine
pdb|2CWW|B Chain B, Crystal Structure Of Thermus Thermophilus Ttha1280, A
Putative Sam- Dependent Rna Methyltransferase, In
Complex With S-Adenosyl-L- Homocysteine
Length = 382
Score = 33.1 bits (74), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 37/135 (27%), Positives = 59/135 (43%), Gaps = 20/135 (14%)
Query: 336 GQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLRILNETAKLHQVNSVIRTIHA- 394
G+ +D + GG L++A G V A+D + LR E A+L+ + +V R + A
Sbjct: 210 GERALDVFSYAGGFALHLAL---GFREVVAVDSSAEALRRAEENARLNGLGNV-RVLEAN 265
Query: 395 --DLRTFADNSTVKCDKVLLDAPCSGLGVLSKRADLRWNRRLEDMEELKILQDELLDAAS 452
DL + + D V+LD P G +D+E E+ A
Sbjct: 266 AFDLLRRLEKEGERFDLVVLDPPAFAKGK-------------KDVERAYRAYKEVNLRAI 312
Query: 453 LLVKPGGVLVYSTCS 467
L+K GG+L ++CS
Sbjct: 313 KLLKEGGILATASCS 327
>pdb|1EYV|A Chain A, The Crystal Structure Of Nusb From Mycobacterium
Tuberculosis
pdb|1EYV|B Chain B, The Crystal Structure Of Nusb From Mycobacterium
Tuberculosis
Length = 156
Score = 33.1 bits (74), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 31/50 (62%), Gaps = 1/50 (2%)
Query: 153 ILRIGFYEIVKL-DMPPYAVVDENVRLAKVALRPGAGNLVNGILRKLVLL 201
ILR+ +E++ D+P VVDE V+LAK + VNG+L +++L+
Sbjct: 92 ILRVSVWELLHAADVPEPVVVDEAVQLAKELSTDDSPGFVNGVLGQVMLV 141
>pdb|1F8F|A Chain A, Crystal Structure Of Benzyl Alcohol Dehydrogenase From
Acinetobacter Calcoaceticus
Length = 371
Score = 32.7 bits (73), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 38/87 (43%), Gaps = 1/87 (1%)
Query: 317 CAVQDESAGLVVAVVDPQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLRIL 376
C +Q AG + + P S V A G + +A+ + G ++ A+DI + RL +
Sbjct: 173 CGIQ-TGAGACINALKVTPASSFVTWGAGAVGLSALLAAKVCGASIIIAVDIVESRLELA 231
Query: 377 NETAKLHQVNSVIRTIHADLRTFADNS 403
+ H +NS + A ++ D
Sbjct: 232 KQLGATHVINSKTQDPVAAIKEITDGG 258
>pdb|2AS0|A Chain A, Crystal Structure Of Ph1915 (Apc 5817): A Hypothetical Rna
Methyltransferase
pdb|2AS0|B Chain B, Crystal Structure Of Ph1915 (Apc 5817): A Hypothetical Rna
Methyltransferase
Length = 396
Score = 32.0 bits (71), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 54/139 (38%), Gaps = 22/139 (15%)
Query: 334 QPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLRILNETAKLHQVNSVIRTIH 393
QPG ++D GG ++ A ++G V ID + + E AKL+ V + I
Sbjct: 216 QPGDRVLDVFTYTGGFAIHAA--IAGADEVIGIDKSPRAIETAKENAKLNGVEDRXKFIV 273
Query: 394 ADLRTFADNSTV-----KCDKVLLDAPCSGLGVLSKRADLRWNRRLEDMEELKILQDELL 448
F + + K D V+LD P + DL+ R L
Sbjct: 274 GS--AFEEXEKLQKKGEKFDIVVLDPPA----FVQHEKDLKAGLRAYFNVNFAGLN---- 323
Query: 449 DAASLLVKPGGVLVYSTCS 467
LVK GG+LV +CS
Sbjct: 324 -----LVKDGGILVTCSCS 337
>pdb|2PWY|A Chain A, Crystal Structure Of A M1a58 Trna Methyltransferase
pdb|2PWY|B Chain B, Crystal Structure Of A M1a58 Trna Methyltransferase
Length = 258
Score = 32.0 bits (71), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 9/95 (9%)
Query: 282 KLQVPHELSLHLDE--FIRVKTGLQNVIQAGLLKEGLCAVQDES-------AGLVVAVVD 332
K VPHE L +R G + + L+E L ++ + A +V ++D
Sbjct: 34 KGSVPHEALLEAGPGGVVRTHLGEELSVHRPTLEEYLLHMKRSATPTYPKDASAMVTLLD 93
Query: 333 PQPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAID 367
PG +++ GG TL++A + +GLV + +
Sbjct: 94 LAPGMRVLEAGTGSGGLTLFLARAVGEKGLVESYE 128
>pdb|1TZT|A Chain A, T. Maritima Nusb, P21
pdb|1TZT|B Chain B, T. Maritima Nusb, P21
pdb|1TZU|A Chain A, T. Maritima Nusb, P212121
pdb|1TZV|A Chain A, T. Maritima Nusb, P3121, Form 1
pdb|1TZW|A Chain A, T. Maritima Nusb, P3121, Form 2
pdb|1TZX|A Chain A, T. Maritima Nusb, P3221
pdb|1TZX|B Chain B, T. Maritima Nusb, P3221
Length = 142
Score = 31.6 bits (70), Expect = 1.0, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 153 ILRIGFYEIV-KLDMPPYAVVDENVRLAKVALRPGAGNLVNGILRKL 198
+LR+ YE++ + D+P +DE + +AK +G VNGIL ++
Sbjct: 84 VLRLATYELLFEKDIPIEVTIDEAIEIAKRYGTENSGKFVNGILDRI 130
>pdb|1MHP|H Chain H, Crystal Structure Of A Chimeric Alpha1 Integrin I-Domain
In Complex With The Fab Fragment Of A Humanized
Neutralizing Antibody
pdb|1MHP|X Chain X, Crystal Structure Of A Chimeric Alpha1 Integrin I-Domain
In Complex With The Fab Fragment Of A Humanized
Neutralizing Antibody
Length = 219
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 42/102 (41%), Gaps = 26/102 (25%)
Query: 322 ESAGLVVAVVDPQPGQSIVDCCAAPG---------------GKTLYMASCLSGQGLVYAI 366
ES G +V QPG S+ CAA G GK L + +SG G Y +
Sbjct: 6 ESGGGLV-----QPGGSLRLSCAASGFTFSRYTMSWVRQAPGKGLEWVATISGGGHTYYL 60
Query: 367 DINKGRLRILNETAK---LHQVNSV---IRTIHADLRTFADN 402
D KGR I + +K Q+NS+ ++ R F D
Sbjct: 61 DSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCTRGFGDG 102
>pdb|2WZJ|A Chain A, Catalytic And Uba Domain Of Kinase Mark2(PAR-1) K82r,
T208e Double Mutant
pdb|2WZJ|B Chain B, Catalytic And Uba Domain Of Kinase Mark2(PAR-1) K82r,
T208e Double Mutant
pdb|2WZJ|C Chain C, Catalytic And Uba Domain Of Kinase Mark2(PAR-1) K82r,
T208e Double Mutant
pdb|2WZJ|D Chain D, Catalytic And Uba Domain Of Kinase Mark2(PAR-1) K82r,
T208e Double Mutant
pdb|2WZJ|E Chain E, Catalytic And Uba Domain Of Kinase Mark2(PAR-1) K82r,
T208e Double Mutant
pdb|2WZJ|F Chain F, Catalytic And Uba Domain Of Kinase Mark2(PAR-1) K82r,
T208e Double Mutant
Length = 327
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 3/66 (4%)
Query: 349 KTLYMASCLSGQGLVYAIDINKGRLRILNETAKLHQVNSVIRTIHADLRTFADNSTVKCD 408
KTLY+ + G V+ + GR++ AK Q+ S ++ H + F + +K +
Sbjct: 86 KTLYLVMEYASGGEVFDYLVAHGRMKEKEARAKFRQIVSAVQYCH---QKFIVHRDLKAE 142
Query: 409 KVLLDA 414
+LLDA
Sbjct: 143 NLLLDA 148
>pdb|1ZMW|A Chain A, Catalytic And Ubiqutin-Associated Domains Of Mark2PAR-1:
T208aS212A INACTIVE DOUBLE MUTANT
pdb|1ZMW|B Chain B, Catalytic And Ubiqutin-Associated Domains Of Mark2PAR-1:
T208aS212A INACTIVE DOUBLE MUTANT
Length = 327
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 3/66 (4%)
Query: 349 KTLYMASCLSGQGLVYAIDINKGRLRILNETAKLHQVNSVIRTIHADLRTFADNSTVKCD 408
KTLY+ + G V+ + GR++ AK Q+ S ++ H + F + +K +
Sbjct: 86 KTLYLVMEYASGGEVFDYLVAHGRMKEKEARAKFRQIVSAVQYCH---QKFIVHRDLKAE 142
Query: 409 KVLLDA 414
+LLDA
Sbjct: 143 NLLLDA 148
>pdb|1ZMV|A Chain A, Catalytic And Ubiqutin-Associated Domains Of Mark2PAR-1:
K82r Mutant
pdb|1ZMV|B Chain B, Catalytic And Ubiqutin-Associated Domains Of Mark2PAR-1:
K82r Mutant
Length = 327
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 3/66 (4%)
Query: 349 KTLYMASCLSGQGLVYAIDINKGRLRILNETAKLHQVNSVIRTIHADLRTFADNSTVKCD 408
KTLY+ + G V+ + GR++ AK Q+ S ++ H + F + +K +
Sbjct: 86 KTLYLVMEYASGGEVFDYLVAHGRMKEKEARAKFRQIVSAVQYCH---QKFIVHRDLKAE 142
Query: 409 KVLLDA 414
+LLDA
Sbjct: 143 NLLLDA 148
>pdb|3IMQ|A Chain A, Crystal Structure Of The Nusb101-S10(Delta Loop) Complex
pdb|3IMQ|B Chain B, Crystal Structure Of The Nusb101-S10(Delta Loop) Complex
pdb|3IMQ|C Chain C, Crystal Structure Of The Nusb101-S10(Delta Loop) Complex
Length = 141
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 153 ILRIGFYEIVKLDMPPYAV-VDENVRLAKVALRPGAGNLVNGILRK 197
+LRI YE+ K PY V ++E + LAK + VNG+L K
Sbjct: 86 VLRIALYELSKRSDVPYKVAINEAIELAKSFGAENSHKFVNGVLDK 131
>pdb|2R0I|A Chain A, Crystal Structure Of A Kinase Mark2PAR-1 Mutant
pdb|2R0I|B Chain B, Crystal Structure Of A Kinase Mark2PAR-1 Mutant
Length = 327
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 3/66 (4%)
Query: 349 KTLYMASCLSGQGLVYAIDINKGRLRILNETAKLHQVNSVIRTIHADLRTFADNSTVKCD 408
KTLY+ + G V+ + GR++ AK Q+ S ++ H + F + +K +
Sbjct: 86 KTLYLVMEYASGGEVFDYLVAHGRMKEKEARAKFRQIVSAVQYCH---QKFIVHRDLKAE 142
Query: 409 KVLLDA 414
+LLDA
Sbjct: 143 NLLLDA 148
>pdb|1ZMU|A Chain A, Catalytic And Ubiqutin-Associated Domains Of Mark2PAR-1:
Wild Type
pdb|1ZMU|B Chain B, Catalytic And Ubiqutin-Associated Domains Of Mark2PAR-1:
Wild Type
Length = 327
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 3/66 (4%)
Query: 349 KTLYMASCLSGQGLVYAIDINKGRLRILNETAKLHQVNSVIRTIHADLRTFADNSTVKCD 408
KTLY+ + G V+ + GR++ AK Q+ S ++ H + F + +K +
Sbjct: 86 KTLYLVMEYASGGEVFDYLVAHGRMKEKEARAKFRQIVSAVQYCH---QKFIVHRDLKAE 142
Query: 409 KVLLDA 414
+LLDA
Sbjct: 143 NLLLDA 148
>pdb|1T2J|A Chain A, Crystal Structure Of A Human Vh Domain
Length = 116
Score = 31.2 bits (69), Expect = 1.3, Method: Composition-based stats.
Identities = 27/79 (34%), Positives = 33/79 (41%), Gaps = 22/79 (27%)
Query: 319 VQDESAGLVVAVVDPQPGQSIVDCCAAPG---------------GKTLYMASCLSGQG-L 362
+Q+ GLV QPG S+ CAA G GK L S +SG G
Sbjct: 4 LQESGGGLV------QPGGSLRLSCAASGFTFSNSAMSWVRQAPGKGLEWVSSISGSGGN 57
Query: 363 VYAIDINKGRLRILNETAK 381
Y+ D KGR I + AK
Sbjct: 58 TYSADSVKGRFTISRDNAK 76
>pdb|4EC8|A Chain A, Structure Of Full Length Cdk9 In Complex With Cyclint And
Drb
pdb|4EC9|A Chain A, Crystal Structure Of Full-Length Cdk9 In Complex With
Cyclin T
Length = 373
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 489 IDPADGLVPSDFVTKHGFFFSDPIKHSLDGAFAARLVRAF 528
+DPA + SD H FF+SDP+ L G + L F
Sbjct: 299 LDPAQR-IDSDDALNHDFFWSDPMPSDLKGMLSTHLTSMF 337
>pdb|3MI9|A Chain A, Crystal Structure Of Hiv-1 Tat Complexed With Human P-Tefb
pdb|3MIA|A Chain A, Crystal Structure Of Hiv-1 Tat Complexed With Atp-Bound
Human P-Tefb
Length = 351
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 489 IDPADGLVPSDFVTKHGFFFSDPIKHSLDGAFAARLVRAF 528
+DPA + SD H FF+SDP+ L G + L F
Sbjct: 298 LDPAQR-IDSDDALNHDFFWSDPMPSDLKGMLSTHLTSMF 336
>pdb|1EY1|A Chain A, Solution Structure Of Escherichia Coli Nusb
Length = 139
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 153 ILRIGFYEIVKLDMPPYAV-VDENVRLAKVALRPGAGNLVNGILRK 197
+LRI YE+ K PY V ++E + LAK + VNG+L K
Sbjct: 84 VLRIALYELSKRSDVPYKVAINEAIELAKSFGAEDSHKFVNGVLDK 129
>pdb|3EOT|H Chain H, Crystal Structure Of Lac031, An Engineered Anti-Vla1 Fab
Length = 226
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 42/102 (41%), Gaps = 26/102 (25%)
Query: 322 ESAGLVVAVVDPQPGQSIVDCCAAPG---------------GKTLYMASCLSGQGLVYAI 366
ES G +V QPG S+ CAA G GK L + +SG G Y +
Sbjct: 6 ESGGGLV-----QPGGSLRLSCAASGFTFSRYTMSWVRQAPGKGLEWVATISGGGHTYYL 60
Query: 367 DINKGRLRILNETAK---LHQVNSV---IRTIHADLRTFADN 402
D KGR I + +K Q+NS+ ++ R F D
Sbjct: 61 DSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCTRGFGDG 102
>pdb|3D3B|A Chain A, Structural And Functional Analysis Of The E. Coli Nusb-s10
Transcription Antitermination Complex.
pdb|3D3C|A Chain A, Structural And Functional Analysis Of The E. Coli Nusb-S10
Transcription Antitermination Complex.
pdb|3D3C|B Chain B, Structural And Functional Analysis Of The E. Coli Nusb-S10
Transcription Antitermination Complex.
pdb|3D3C|C Chain C, Structural And Functional Analysis Of The E. Coli Nusb-S10
Transcription Antitermination Complex
Length = 141
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 153 ILRIGFYEIVKLDMPPYAV-VDENVRLAKVALRPGAGNLVNGILRK 197
+LRI YE+ K PY V ++E + LAK + VNG+L K
Sbjct: 86 VLRIALYELSKRSDVPYKVAINEAIELAKSFGAEDSHKFVNGVLDK 131
>pdb|2ZZN|A Chain A, The Complex Structure Of Atrm5 And Trnacys
pdb|2ZZN|B Chain B, The Complex Structure Of Atrm5 And Trnacys
pdb|3AY0|A Chain A, Crystal Structure Of Methanocaldococcus Jannaschii Trm5 In
Complex With Adenosine
pdb|3AY0|B Chain B, Crystal Structure Of Methanocaldococcus Jannaschii Trm5 In
Complex With Adenosine
Length = 336
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 45/90 (50%), Gaps = 8/90 (8%)
Query: 339 IVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLRILNETAKLHQVNSVIRTIHADLRT 398
+VD A G + +C + + +YAIDIN + +L + KL+++ I I +D+R
Sbjct: 199 VVDMFAGVGP---FSIACKNAKK-IYAIDINPHAIELLKKNIKLNKLEHKIIPILSDVRE 254
Query: 399 FADNSTVKCDKVLLDAPCSGLGVLSKRADL 428
VK ++V+++ P + K D+
Sbjct: 255 V----DVKGNRVIMNLPKFAHKFIDKALDI 280
>pdb|2VGL|A Chain A, Ap2 Clathrin Adaptor Core
pdb|2XA7|A Chain A, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 621
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 30/98 (30%), Positives = 49/98 (50%), Gaps = 5/98 (5%)
Query: 245 EAIKLMVWNNSDPSFSLRANSRKGVTRADLVMQLNLLKLQVPHELSLHLDEFIR--VKTG 302
EAI L++ ++S+P+ +RA ++ G + NL L + +L EF VKT
Sbjct: 312 EAISLIIHHDSEPNLLVRACNQLGQFLQH--RETNLRYLALESMCTLASSEFSHEAVKTH 369
Query: 303 LQNVIQAGLLKEGLCAVQDESAGLVVAVVDPQPGQSIV 340
++ VI A L E +V+ + L+ A+ D Q IV
Sbjct: 370 IETVINA-LKTERDVSVRQRAVDLLYAMCDRSNAQQIV 406
>pdb|2ZZM|A Chain A, The Complex Structure Of Atrm5 And Trnaleu
Length = 336
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 45/90 (50%), Gaps = 8/90 (8%)
Query: 339 IVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLRILNETAKLHQVNSVIRTIHADLRT 398
+VD A G + +C + + +YAIDIN + +L + KL+++ I I +D+R
Sbjct: 199 VVDMFAGVGP---FSIACKNAKK-IYAIDINPHAIELLXKNIKLNKLEHKIIPILSDVRE 254
Query: 399 FADNSTVKCDKVLLDAPCSGLGVLSKRADL 428
VK ++V+++ P + K D+
Sbjct: 255 V----DVKGNRVIMNLPKFAHKFIDKALDI 280
>pdb|2JKR|A Chain A, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKR|L Chain L, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKT|A Chain A, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
pdb|2JKT|L Chain L, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
Length = 623
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 30/98 (30%), Positives = 49/98 (50%), Gaps = 5/98 (5%)
Query: 245 EAIKLMVWNNSDPSFSLRANSRKGVTRADLVMQLNLLKLQVPHELSLHLDEFIR--VKTG 302
EAI L++ ++S+P+ +RA ++ G + NL L + +L EF VKT
Sbjct: 312 EAISLIIHHDSEPNLLVRACNQLGQFLQH--RETNLRYLALESMCTLASSEFSHEAVKTH 369
Query: 303 LQNVIQAGLLKEGLCAVQDESAGLVVAVVDPQPGQSIV 340
++ VI A L E +V+ + L+ A+ D Q IV
Sbjct: 370 IETVINA-LKTERDVSVRQRAVDLLYAMCDRSNAQQIV 406
>pdb|3ENH|C Chain C, Crystal Structure Of Cgi121BUD32KAE1 COMPLEX
pdb|3ENH|D Chain D, Crystal Structure Of Cgi121BUD32KAE1 COMPLEX
pdb|2K8Y|A Chain A, Solution Nmr Structure Of Cgi121 From Methanococcus
Jannaschii. Northeast Structural Genomics Consortium
Target Mj0187
Length = 150
Score = 29.6 bits (65), Expect = 4.4, Method: Composition-based stats.
Identities = 20/76 (26%), Positives = 38/76 (50%), Gaps = 15/76 (19%)
Query: 130 DHLICLLCHDEKTFSSMEPLLLQILRIGFYEIV--KLDMPPYAVVDENVRLAKVALR-PG 186
D +CL+C DE+TF + YE++ ++D + ++ RL + + G
Sbjct: 83 DGNVCLICEDEETFRKI------------YELIGGEIDDSVLEINEDKERLIREIFKIRG 130
Query: 187 AGNLVNGILRKLVLLK 202
GN+V +L K+ L++
Sbjct: 131 FGNVVERVLEKIALIE 146
>pdb|2YX1|A Chain A, Crystal Structure Of M.Jannaschii Trna M1g37
Methyltransferase
pdb|2YX1|B Chain B, Crystal Structure Of M.Jannaschii Trna M1g37
Methyltransferase
Length = 336
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 44/90 (48%), Gaps = 8/90 (8%)
Query: 339 IVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLRILNETAKLHQVNSVIRTIHADLRT 398
+VD A G + +C + + +YAIDIN + +L + KL+++ I I +D+R
Sbjct: 199 VVDXFAGVGP---FSIACKNAKK-IYAIDINPHAIELLKKNIKLNKLEHKIIPILSDVRE 254
Query: 399 FADNSTVKCDKVLLDAPCSGLGVLSKRADL 428
VK ++V+ + P + K D+
Sbjct: 255 V----DVKGNRVIXNLPKFAHKFIDKALDI 280
>pdb|3A27|A Chain A, Crystal Structure Of M. Jannaschii Tyw2 In Complex With
Adomet
Length = 272
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 337 QSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRLRILNETAKLHQVNSVI 389
+ +VD A G T+ +A S LVYAI+ N L E KL+++N+VI
Sbjct: 121 EVVVDMFAGIGYFTIPLAK-YSKPKLVYAIEKNPTAYHYLCENIKLNKLNNVI 172
>pdb|2B2X|H Chain H, Vla1 Rdeltah I-Domain Complexed With A Quadruple Mutant Of
The Aqc2 Fab
pdb|2B2X|I Chain I, Vla1 Rdeltah I-Domain Complexed With A Quadruple Mutant Of
The Aqc2 Fab
Length = 226
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 42/102 (41%), Gaps = 26/102 (25%)
Query: 322 ESAGLVVAVVDPQPGQSIVDCCAAPG---------------GKTLYMASCLSGQGLVYAI 366
ES G +V QPG S+ CAA G GK L + +SG G Y +
Sbjct: 6 ESGGGLV-----QPGGSLRLSCAASGFTFSRYTMSWVRQAPGKGLEWVAVISGGGHTYYL 60
Query: 367 DINKGRLRILNETAK---LHQVNSV---IRTIHADLRTFADN 402
D +GR I + +K Q+NS+ ++ R F D
Sbjct: 61 DSVEGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCTRGFGDG 102
>pdb|1YB2|A Chain A, Structure Of A Putative Methyltransferase From
Thermoplasma Acidophilum
Length = 275
Score = 29.3 bits (64), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 18/83 (21%), Positives = 41/83 (49%), Gaps = 4/83 (4%)
Query: 334 QPGQSIVDCCAAPGGKTLYMASCLSGQGLVYAIDINKGRL-RILNETAKLHQVNSVIRTI 392
+PG I++ G + Y+ L+G+G + ++ ++ L + + ++ + + +V RT
Sbjct: 109 RPGXDILEVGVGSGNXSSYILYALNGKGTLTVVERDEDNLKKAXDNLSEFYDIGNV-RTS 167
Query: 393 HADLRTFADNSTVKCDKVLLDAP 415
+D+ F + D V+ D P
Sbjct: 168 RSDIADFISDQX--YDAVIADIP 188
>pdb|1ZMY|A Chain A, Cabbcii-10 Vhh Framework With Cdr Loops Of Cablys3 Grafted
On It And In Complex With Hen Egg White Lysozyme
Length = 142
Score = 28.9 bits (63), Expect = 7.3, Method: Composition-based stats.
Identities = 15/37 (40%), Positives = 20/37 (54%)
Query: 345 APGGKTLYMASCLSGQGLVYAIDINKGRLRILNETAK 381
APGG+ +A+ G G+ Y D KGR I + AK
Sbjct: 40 APGGEREAVAAINMGGGITYYADSVKGRFTISRDNAK 76
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.136 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,685,646
Number of Sequences: 62578
Number of extensions: 600716
Number of successful extensions: 1581
Number of sequences better than 100.0: 47
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 1532
Number of HSP's gapped (non-prelim): 50
length of query: 528
length of database: 14,973,337
effective HSP length: 103
effective length of query: 425
effective length of database: 8,527,803
effective search space: 3624316275
effective search space used: 3624316275
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)