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= 043144
(580 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 32/128 (25%), Positives = 55/128 (42%), Gaps = 17/128 (13%)
Query: 268 KEGRLDEAIKFLNDMPSYGCQPNVITHNIILRSMCSTG-------------RWMDAERLL 314
K+G + EA++ ++ G Q + +N++L +CS R D +
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLL-YVCSLAEAATESSPNPGLSRGFD---IF 93
Query: 315 AEMVLKGCSPSVVTFNILINFLCRKGLLGRAIDILEKMPKHGCTPNSLSYNPVLHGFCKE 374
+M++ P+ TF K A D++++M G P SY P L GFC++
Sbjct: 94 KQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRK 153
Query: 375 KKMDRAIE 382
D+A E
Sbjct: 154 GDADKAYE 161
Score = 37.0 bits (84), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 47/101 (46%), Gaps = 11/101 (10%)
Query: 477 SREGKVDEAIKLFHDLERLGVRPNVITYNSIMLGLCKARQTY----------RAIDILAD 526
S++G V EA++L+ + R GV+ + YN ++L +C + R DI
Sbjct: 37 SKKGDVLEALRLYDEARRNGVQLSQYHYN-VLLYVCSLAEAATESSPNPGLSRGFDIFKQ 95
Query: 527 MVTRSCKPTEATYTILIEGIAYEGLAKEALDLLNQLCSRGV 567
M+ P EAT+T + + A D++ Q+ + G+
Sbjct: 96 MIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGI 136
Score = 28.9 bits (63), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 11/41 (26%), Positives = 24/41 (58%)
Query: 448 EQAMKLLEEMRTKGLKPDTITYSSLVGGLSREGKVDEAIKL 488
E A ++++M+ G++P +Y + G R+G D+A ++
Sbjct: 122 EMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEV 162
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 36.6 bits (83), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 36/155 (23%), Positives = 57/155 (36%), Gaps = 26/155 (16%)
Query: 228 IEATCKESGVGQAMKLLDEMRNKGCIPDVVTYNVLVNGICKEGRLDEAIKFLNDMPSYGC 287
++ K+ V +A++L DE R G YNVL+ +C L EA + P
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCS---LAEAATESSPNPGLSR 88
Query: 288 QPNVITHNIILRSMCSTGRWMDAERLLAEMVLKGCSPSVVTFNILINFLCRKGLLGRAID 347
++ I+ + + P+ TF K A D
Sbjct: 89 GFDIFKQXIVDKVV----------------------PNEATFTNGARLAVAKDDPEXAFD 126
Query: 348 ILEKMPKHGCTPNSLSYNPVLHGFCKEKKMDRAIE 382
+++ G P SY P L GFC++ D+A E
Sbjct: 127 XVKQXKAFGIQPRLRSYGPALFGFCRKGDADKAYE 161
Score = 32.7 bits (73), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 25/101 (24%), Positives = 44/101 (43%), Gaps = 11/101 (10%)
Query: 477 SREGKVDEAIKLFHDLERLGVRPNVITYNSIMLGLCKARQTY----------RAIDILAD 526
S++G V EA++L+ + R GV+ + YN ++L +C + R DI
Sbjct: 37 SKKGDVLEALRLYDEARRNGVQLSQYHYN-VLLYVCSLAEAATESSPNPGLSRGFDIFKQ 95
Query: 527 MVTRSCKPTEATYTILIEGIAYEGLAKEALDLLNQLCSRGV 567
+ P EAT+T + + A D + Q + G+
Sbjct: 96 XIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGI 136
>pdb|1BVY|F Chain F, Complex Of The Heme And Fmn-Binding Domains Of The
Cytochrome P450(Bm-3)
Length = 191
Score = 33.5 bits (75), Expect = 0.36, Method: Composition-based stats.
Identities = 21/69 (30%), Positives = 32/69 (46%), Gaps = 7/69 (10%)
Query: 415 AVEILNQLSNKHCSPVLITYNTVIDGLSKVGKTEQAMKLLEEM-RTKGLKPDTITYSSLV 473
A ++ + N H +P+L+ Y S +G E + L ++ +KG P T S
Sbjct: 9 AKKVRKKAENAHNTPLLVLYG------SNMGTAEGTARDLADIAMSKGFAPQVATLDSHA 62
Query: 474 GGLSREGKV 482
G L REG V
Sbjct: 63 GNLPREGAV 71
>pdb|3ISM|C Chain C, Crystal Structure Of The EndogENDOGI COMPLEX: MECHANISM OF
ENDOG Inhibition
Length = 359
Score = 33.5 bits (75), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 28/63 (44%)
Query: 220 DVITYTILIEATCKESGVGQAMKLLDEMRNKGCIPDVVTYNVLVNGICKEGRLDEAIKFL 279
DVI + EA +S +A +LL+E R C D YN + + E E + F
Sbjct: 68 DVIWRLLFDEAGTSQSNTEKASQLLEEYRGDACFYDPTPYNEWIVKLRDEVLKKELLDFW 127
Query: 280 NDM 282
D+
Sbjct: 128 RDV 130
>pdb|3L6T|A Chain A, Crystal Structure Of An N-Terminal Mutant Of The Plasmid
Pcu1 Trai Relaxase Domain
pdb|3L6T|B Chain B, Crystal Structure Of An N-Terminal Mutant Of The Plasmid
Pcu1 Trai Relaxase Domain
Length = 302
Score = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%)
Query: 203 NLAMEVLHKQLEKECYPDVITYTILIEATCKESGVGQAMKLLDEMRNKGCIPDV 256
NL + + + PD+ T+ ++ T +E G +A+K + MRNK + DV
Sbjct: 144 NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDV 197
>pdb|3L57|A Chain A, Crystal Structure Of The Plasmid Pcu1 Trai Relaxase Domain
pdb|3L57|B Chain B, Crystal Structure Of The Plasmid Pcu1 Trai Relaxase Domain
Length = 299
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%)
Query: 203 NLAMEVLHKQLEKECYPDVITYTILIEATCKESGVGQAMKLLDEMRNKGCIPDV 256
NL + + + PD+ T+ ++ T +E G +A+K + MRNK + DV
Sbjct: 141 NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDV 194
>pdb|3C4A|A Chain A, Crystal Structure Of Viod Hydroxylase In Complex With Fad
From Chromobacterium Violaceum. Northeast Structural
Genomics Consortium Target Cvr158
Length = 381
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 3/61 (4%)
Query: 189 YNTILRTLCDSGKLNL---AMEVLHKQLEKECYPDVITYTILIEATCKESGVGQAMKLLD 245
+ T+ C GKL L A++ H + V+ +L++A C E GV A+K +
Sbjct: 251 FXTLSHDRCHDGKLVLLGDALQSGHFSIGHGTTXAVVVAQLLVKALCTEDGVPAALKRFE 310
Query: 246 E 246
E
Sbjct: 311 E 311
>pdb|3GSI|A Chain A, Crystal Structure Of D552a Dimethylglycine Oxidase Mutant
Of Arthrobacter Globiformis In Complex With
Tetrahydrofolate
Length = 827
Score = 29.3 bits (64), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 31/59 (52%), Gaps = 8/59 (13%)
Query: 450 AMKLLEEMRTKGL--KPDTITYSSLVGGLSREGKVDEAI---KLFHDLERLGVRPNVIT 503
A+KLL+E+ T L KP +TY+ L L G V AI +L D +LG N+ T
Sbjct: 515 ALKLLQELTTADLAKKPGAVTYTLL---LDHAGGVRSAITVARLSEDTFQLGANGNIDT 570
>pdb|3S5H|A Chain A, Crystal Structures Of Falcilysin, A M16 Metalloprotease
From The Malaria Parasite Plasmodium Falciparum
pdb|3S5I|A Chain A, Crystal Structures Of Falcilysin, A M16 Metalloprotease
From The Malaria Parasite Plasmodium Falciparum
pdb|3S5K|A Chain A, Crystal Structures Of Falcilysin, A M16 Metalloprotease
From The Malaria Parasite Plasmodium Falciparum
pdb|3S5M|A Chain A, Crystal Structures Of Falcilysin, A M16 Metalloprotease
From The Malaria Parasite Plasmodium Falciparum
Length = 1193
Score = 28.9 bits (63), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 29/132 (21%), Positives = 58/132 (43%), Gaps = 7/132 (5%)
Query: 138 ATRVMEIVEDSGAVPDVITYNVLISGYCRLGEIDNALQVLERMSVAPDVVTYNTILRTLC 197
A V + +P ++ ++VL SG + N++ +LE+ ++ + Y RT+
Sbjct: 114 AFYVKTLTHSGKGIPHILEHSVL-SG-SKNYNYKNSIGLLEKGTLHTHLNAYTFNDRTVY 171
Query: 198 DSGKLNLA--MEVLHKQLEKECYPDVITYTILIEATCKESGVGQAMKLLDEMRNKGCIPD 255
+G +N ++ ++ P+V+ + E E + KL ++ + K IP
Sbjct: 172 MAGSMNNKDFFNIMGVYMDSVFQPNVLENKYIFET---EGWTYEVEKLKEDEKGKAEIPQ 228
Query: 256 VVTYNVLVNGIC 267
+ Y V NGI
Sbjct: 229 MKDYKVSFNGIV 240
>pdb|3MDY|A Chain A, Crystal Structure Of The Cytoplasmic Domain Of The Bone
Morp Protein Receptor Type-1b (Bmpr1b) In Complex With
Fkbp12 An 193189
pdb|3MDY|C Chain C, Crystal Structure Of The Cytoplasmic Domain Of The Bone
Morp Protein Receptor Type-1b (Bmpr1b) In Complex With
Fkbp12 An 193189
Length = 337
Score = 28.9 bits (63), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 31/128 (24%), Positives = 57/128 (44%), Gaps = 18/128 (14%)
Query: 255 DVVTYNVLV--NGICKEGRLDEAIKFLNDMPSYGCQPNVITHNIILRSMCSTGRWMDAER 312
D+ + N+LV NG C L A+KF++D PN + T R+M E
Sbjct: 167 DLKSKNILVKKNGTCCIADLGLAVKFISDTNEVDIPPN---------TRVGTKRYMPPE- 216
Query: 313 LLAEMVLKGCSPSVV-----TFNILINFLCRKGLLGRAIDILEKMPKHGCTPNSLSYNPV 367
+L E + + S + +F +++ + R+ + G ++ + +P H P+ SY +
Sbjct: 217 VLDESLNRNHFQSYIMADMYSFGLILWEVARRCVSGGIVEEYQ-LPYHDLVPSDPSYEDM 275
Query: 368 LHGFCKEK 375
C +K
Sbjct: 276 REIVCIKK 283
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 0.137 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,431,859
Number of Sequences: 62578
Number of extensions: 680655
Number of successful extensions: 1670
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1646
Number of HSP's gapped (non-prelim): 31
length of query: 580
length of database: 14,973,337
effective HSP length: 104
effective length of query: 476
effective length of database: 8,465,225
effective search space: 4029447100
effective search space used: 4029447100
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)