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= psy17974
(583 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 140 bits (352), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 75/158 (47%), Positives = 103/158 (65%), Gaps = 23/158 (14%)
Query: 139 INLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNL 198
I+L F+TMNPGYAGR+ LPDNLK LFR MAM+ PD +IA+V+LYS+GF++++ L
Sbjct: 702 ISLHQDMGIFVTMNPGYAGRSNLPDNLKKLFRSMAMIKPDREMIAQVMLYSQGFKTAEVL 761
Query: 199 AQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRA-------------NPDKNE 245
A K+V ++KLC EQLS Q HYDFG+RA+KSVLV AG +KR + K +
Sbjct: 762 AGKIVPLFKLCQEQLSAQSHYDFGLRALKSVLVSAGGIKRKCQPPQLPPITDAESKTKAD 821
Query: 246 DV-------VLIRALRDSNLPKFLADDAGL---FLVDV 273
+ VL+ ++ D+ +PK +ADD L L+DV
Sbjct: 822 QIYCQYEIGVLLNSINDTMIPKLVADDIPLIQSLLLDV 859
Score = 100 bits (250), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 89/325 (27%), Positives = 146/325 (44%), Gaps = 37/325 (11%)
Query: 264 DDAGL--FLVDVSKARMICS---LMESTLIEPGMLDRSHNS-----ENTGPLLVQTFLWS 313
+DAG ++D ++ R++ S LM +++ ++ H+ EN + L+S
Sbjct: 1154 EDAGQRPHIMDFTRLRVLNSFFSLMNRSIVNVIEYNQLHSDFPMSPENQSNYITNRLLYS 1213
Query: 314 YLWAVGGNLTDESRDRFEAFARE-QFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITP 372
+W +GG++ R+ F F + T P ++ L Y VS D + W P
Sbjct: 1214 LMWGLGGSMGLVERENFSKFIQTIAITPVPANTIP----LLDYSVSIDDANWSLWKNKVP 1269
Query: 373 ---IFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFXXXXXXXXXXXARSILNK 429
+ T+ P D+++PT+DT R ++ L + P++ S L
Sbjct: 1270 SVEVETHKVASP--DVVIPTVDTTRHVDVLHAWLSEHRPLILCGPPGSGKTMTLTSTLR- 1326
Query: 430 LLASNTWAALTINFSAQTSSARTQEILEGKLD-----KRTKT----LLGAPLGKRLAVFV 480
A + +++NFS SA T E+L D KRT + L LGK L VF
Sbjct: 1327 --AFPDFEVVSLNFS----SATTPELLLKTFDHHCEYKRTPSGETVLRPTQLGKWLVVFC 1380
Query: 481 DDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP-GGGRMPL 539
D++N+P + YG Q I +RQ ++ GG + W L + AC PP GR+ L
Sbjct: 1381 DEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQL 1440
Query: 540 TPRFVRHFGLLSLPSPTEDTLKVIF 564
T RF+RH +L + P+ +L I+
Sbjct: 1441 THRFLRHAPILLVDFPSTSSLTQIY 1465
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/58 (44%), Positives = 39/58 (67%)
Query: 30 LESILKSLESYLDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPHLGKCFDGIAGWT 87
L + K+L YL+ +RSAF RFYF+ +E+LLEI+G +++ +Q H K F G+A T
Sbjct: 313 LGKVQKALGEYLERQRSAFARFYFVGDEDLLEIIGNSKDIIKIQKHFRKMFAGLANLT 370
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein
Motor Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein
Motor Domain
Length = 3245
Score = 140 bits (352), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 75/158 (47%), Positives = 103/158 (65%), Gaps = 23/158 (14%)
Query: 139 INLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNL 198
I+L F+TMNPGYAGR+ LPDNLK LFR MAM+ PD +IA+V+LYS+GF++++ L
Sbjct: 702 ISLHQDMGIFVTMNPGYAGRSNLPDNLKKLFRSMAMIKPDREMIAQVMLYSQGFKTAEVL 761
Query: 199 AQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRA-------------NPDKNE 245
A K+V ++KLC EQLS Q HYDFG+RA+KSVLV AG +KR + K +
Sbjct: 762 AGKIVPLFKLCQEQLSAQSHYDFGLRALKSVLVSAGGIKRKCQPPQLPPITDAESKTKAD 821
Query: 246 DV-------VLIRALRDSNLPKFLADDAGL---FLVDV 273
+ VL+ ++ D+ +PK +ADD L L+DV
Sbjct: 822 QIYCQYEIGVLLNSINDTMIPKLVADDIPLIQSLLLDV 859
Score = 100 bits (249), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 89/325 (27%), Positives = 146/325 (44%), Gaps = 37/325 (11%)
Query: 264 DDAGL--FLVDVSKARMICS---LMESTLIEPGMLDRSHNS-----ENTGPLLVQTFLWS 313
+DAG ++D ++ R++ S LM +++ ++ H+ EN + L+S
Sbjct: 1154 EDAGQRPHIMDFTRLRVLNSFFSLMNRSIVNVIEYNQLHSDFPMSPENQSNYITNRLLYS 1213
Query: 314 YLWAVGGNLTDESRDRFEAFARE-QFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITP 372
+W +GG++ R+ F F + T P ++ L Y VS D + W P
Sbjct: 1214 LMWGLGGSMGLVERENFSKFIQTIAITPVPANTIP----LLDYSVSIDDANWSLWKNKVP 1269
Query: 373 ---IFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFXXXXXXXXXXXARSILNK 429
+ T+ P D+++PT+DT R ++ L + P++ S L
Sbjct: 1270 SVEVETHKVASP--DVVIPTVDTTRHVDVLHAWLSEHRPLILCGPPGSGKTMTLTSTLR- 1326
Query: 430 LLASNTWAALTINFSAQTSSARTQEILEGKLD-----KRTKT----LLGAPLGKRLAVFV 480
A + +++NFS SA T E+L D KRT + L LGK L VF
Sbjct: 1327 --AFPDFEVVSLNFS----SATTPELLLKTFDHHCEYKRTPSGETVLRPTQLGKWLVVFC 1380
Query: 481 DDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP-GGGRMPL 539
D++N+P + YG Q I +RQ ++ GG + W L + AC PP GR+ L
Sbjct: 1381 DEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQL 1440
Query: 540 TPRFVRHFGLLSLPSPTEDTLKVIF 564
T RF+RH +L + P+ +L I+
Sbjct: 1441 THRFLRHAPILLVDFPSTSSLTQIY 1465
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/58 (44%), Positives = 39/58 (67%)
Query: 30 LESILKSLESYLDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPHLGKCFDGIAGWT 87
L + K+L YL+ +RSAF RFYF+ +E+LLEI+G +++ +Q H K F G+A T
Sbjct: 313 LGKVQKALGEYLERQRSAFARFYFVGDEDLLEIIGNSKDIIKIQKHFRKMFAGLANLT 370
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 100 bits (248), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 60/149 (40%), Positives = 83/149 (55%), Gaps = 2/149 (1%)
Query: 127 VRKFCATAIHQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVV 186
V K T + + L P A FIT+NPGY GR+ELP+NLK FR +M P G IAE++
Sbjct: 730 VGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKSFREFSMKSPQSGTIAEMI 789
Query: 187 LYSEGFESSKNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNED 246
L GFE SK+LA K+V+ +L S + S +HY FG+R +K VL L + +
Sbjct: 790 LQIMGFEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNCSPLISEFGEGEKT 849
Query: 247 VVLIRALRDSNLPKFLADDAGLFLVDVSK 275
VV +L+ LP D +F ++SK
Sbjct: 850 VV--ESLKRVILPSLGDTDELVFKDELSK 876
Score = 93.2 bits (230), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 71/266 (26%), Positives = 120/266 (45%), Gaps = 25/266 (9%)
Query: 313 SYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDP----DLRSYFVSKDTKQLTPWT 368
S L+A+ G+ T ES+ F N G D D + ++ D + +
Sbjct: 1177 SLLYALAGDSTGESQ--------RAFIQTINTYFGHDSQELSDYSTIVIANDKLSFSSFC 1228
Query: 369 TITPIFT---YDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFXXXXXXXXXXXARS 425
+ P + ++ P D+++PTIDTI+ I LL ++
Sbjct: 1229 SEIPSVSLEAHEVMRP--DIVIPTIDTIKHEKIFYDLLNSKRGIILCGPPGSGKTMIMN- 1285
Query: 426 ILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTK----TLLGAPLGKRLAVFVD 481
N L S+ + + INFS T++ L + T TLL K L +F D
Sbjct: 1286 --NALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVLFCD 1343
Query: 482 DVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-GRMPLT 540
++N+PKL+ YG+Q + LRQ ++ G + + W T++ + + AC PP GR+P++
Sbjct: 1344 EINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMS 1403
Query: 541 PRFVRHFGLLSLPSPTEDTLKVIFKV 566
RF RH +L L P+ +L I+++
Sbjct: 1404 ERFTRHAAILYLGYPSGKSLSQIYEI 1429
Score = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 38/67 (56%)
Query: 17 PDFLPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPHL 76
P+F + L+ I SL ++L+ +R FPRFYFL N++LL+I+G ++ V +
Sbjct: 359 PNFDTTLKLTIDSLKMIKSSLSTFLERQRRQFPRFYFLGNDDLLKIIGSGKHHDQVSKFM 418
Query: 77 GKCFDGI 83
K F I
Sbjct: 419 KKMFGSI 425
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 99.8 bits (247), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 60/149 (40%), Positives = 83/149 (55%), Gaps = 2/149 (1%)
Query: 127 VRKFCATAIHQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVV 186
V K T + + L P A FIT+NPGY GR+ELP+NLK FR +M P G IAE++
Sbjct: 511 VGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKSFREFSMKSPQSGTIAEMI 570
Query: 187 LYSEGFESSKNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNED 246
L GFE SK+LA K+V+ +L S + S +HY FG+R +K VL L + +
Sbjct: 571 LQIMGFEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNCSPLISEFGEGEKT 630
Query: 247 VVLIRALRDSNLPKFLADDAGLFLVDVSK 275
VV +L+ LP D +F ++SK
Sbjct: 631 VV--ESLKRVILPSLGDTDELVFKDELSK 657
Score = 92.8 bits (229), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 71/266 (26%), Positives = 120/266 (45%), Gaps = 25/266 (9%)
Query: 313 SYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDP----DLRSYFVSKDTKQLTPWT 368
S L+A+ G+ T ES+ F N G D D + ++ D + +
Sbjct: 958 SLLYALAGDSTGESQ--------RAFIQTINTYFGHDSQELSDYSTIVIANDKLSFSSFC 1009
Query: 369 TITPIFT---YDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFXXXXXXXXXXXARS 425
+ P + ++ P D+++PTIDTI+ I LL ++
Sbjct: 1010 SEIPSVSLEAHEVMRP--DIVIPTIDTIKHEKIFYDLLNSKRGIILCGPPGSGKTMIMN- 1066
Query: 426 ILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTK----TLLGAPLGKRLAVFVD 481
N L S+ + + INFS T++ L + T TLL K L +F D
Sbjct: 1067 --NALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVLFCD 1124
Query: 482 DVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-GRMPLT 540
++N+PKL+ YG+Q + LRQ ++ G + + W T++ + + AC PP GR+P++
Sbjct: 1125 EINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMS 1184
Query: 541 PRFVRHFGLLSLPSPTEDTLKVIFKV 566
RF RH +L L P+ +L I+++
Sbjct: 1185 ERFTRHAAILYLGYPSGKSLSQIYEI 1210
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 38/67 (56%)
Query: 17 PDFLPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPHL 76
P+F + L+ I SL ++L+ +R FPRFYFL N++LL+I+G ++ V +
Sbjct: 140 PNFDTTLKLTIDSLKMIKSSLSTFLERQRRQFPRFYFLGNDDLLKIIGSGKHHDQVSKFM 199
Query: 77 GKCFDGI 83
K F I
Sbjct: 200 KKMFGSI 206
>pdb|3HUM|A Chain A, Crystal Structure Of Penicillin Binding Protein 4 From
Staphylococcus Aureus Col In Complex With Cefotaxime
pdb|3HUM|B Chain B, Crystal Structure Of Penicillin Binding Protein 4 From
Staphylococcus Aureus Col In Complex With Cefotaxime
pdb|3HUN|A Chain A, Crystal Structure Of Penicillin Binding Protein 4 From
Staphylococcus Aureus Col In Complex With Ampicillin
pdb|3HUN|B Chain B, Crystal Structure Of Penicillin Binding Protein 4 From
Staphylococcus Aureus Col In Complex With Ampicillin
Length = 453
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 8/85 (9%)
Query: 321 NLTDESRDRFEAFAREQFTD-EPNVSLGKDPDLRSYFVSKDT-------KQLTPWTTITP 372
N T R +FA ++ D E V+ +D + V K+T KQL P T
Sbjct: 200 NPTGAENSRLRSFAPTKYKDQERTVTTARDYAILDLHVIKETPKILDFTKQLAPTTHAVT 259
Query: 373 IFTYDPTMPFFDMMVPTIDTIRFGS 397
+T++ ++ M +P D ++ GS
Sbjct: 260 YYTFNFSLEGAKMSLPGTDGLKTGS 284
>pdb|3R1O|A Chain A, Odorant Binding Protein 7 From Anopheles Gambiae With Four
Disulfide Bridges
pdb|3R1O|B Chain B, Odorant Binding Protein 7 From Anopheles Gambiae With Four
Disulfide Bridges
pdb|3R1P|A Chain A, Odorant Binding Protein 7 From Anopheles Gambiae With Four
Disulfide Bridges, Form P1
pdb|3R1P|B Chain B, Odorant Binding Protein 7 From Anopheles Gambiae With Four
Disulfide Bridges, Form P1
pdb|3R1P|C Chain C, Odorant Binding Protein 7 From Anopheles Gambiae With Four
Disulfide Bridges, Form P1
pdb|3R1P|D Chain D, Odorant Binding Protein 7 From Anopheles Gambiae With Four
Disulfide Bridges, Form P1
pdb|3R1P|E Chain E, Odorant Binding Protein 7 From Anopheles Gambiae With Four
Disulfide Bridges, Form P1
pdb|3R1P|F Chain F, Odorant Binding Protein 7 From Anopheles Gambiae With Four
Disulfide Bridges, Form P1
pdb|3R1V|A Chain A, Odorant Binding Protein 7 From Anopheles Gambiae With Four
Disulfide Bridges, In Complex With An Azo Compound
pdb|3R1V|B Chain B, Odorant Binding Protein 7 From Anopheles Gambiae With Four
Disulfide Bridges, In Complex With An Azo Compound
Length = 127
Score = 30.4 bits (67), Expect = 2.6, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 22/43 (51%)
Query: 71 AVQPHLGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEFEEVIL 113
A + L C DG P K +++ LFDK+ ++ E ++L
Sbjct: 27 ASEEQLRTCLDGTVPTAPAAKCYIHCLFDKIDVVDEATGRILL 69
>pdb|3KMW|A Chain A, Crystal Structure Of The IlkALPHA-Parvin Core Complex
(Mgatp)
pdb|3REP|A Chain A, Crystal Structure Of The IlkALPHA-Parvin Core Complex
(Mnatp)
Length = 271
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 7/67 (10%)
Query: 49 PRFYFLSNEELLEILGQARNPQAVQPHLGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEF 108
PR S+ +L +LG ++P A P L I W PY S N+L + + ++
Sbjct: 59 PRLRIFSHPNVLPVLGACQSPPAPHPTL------ITHWMPY-GSLYNVLHEGTNFVVDQS 111
Query: 109 EEVILAL 115
+ V AL
Sbjct: 112 QAVKFAL 118
>pdb|3CIA|A Chain A, Crystal Structure Of Cold-Aminopeptidase From Colwellia
Psychrerythraea
pdb|3CIA|B Chain B, Crystal Structure Of Cold-Aminopeptidase From Colwellia
Psychrerythraea
pdb|3CIA|C Chain C, Crystal Structure Of Cold-Aminopeptidase From Colwellia
Psychrerythraea
pdb|3CIA|D Chain D, Crystal Structure Of Cold-Aminopeptidase From Colwellia
Psychrerythraea
Length = 605
Score = 30.4 bits (67), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 40/90 (44%), Gaps = 5/90 (5%)
Query: 56 NEELLEILGQARNPQAVQPHLGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEFEEVILAL 115
N E+LE+ A + Q G+ D PYVK L L++ + RE F+ +L
Sbjct: 355 NAEILEL--DASDTQLYIDLKGRDPDDAFSGVPYVKGQLFLMYLEEKFGRERFDAFVLEY 412
Query: 116 FEKYVDPGL---NFVRKFCATAIHQMINLV 142
F+ + L NFV+ A + N+V
Sbjct: 413 FDSHAFQSLGTDNFVKYLKANLTDKYPNIV 442
>pdb|3KMU|A Chain A, Crystal Structure Of The IlkALPHA-Parvin Core Complex
(Apo)
Length = 271
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 7/67 (10%)
Query: 49 PRFYFLSNEELLEILGQARNPQAVQPHLGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEF 108
PR S+ +L +LG ++P A P L I W PY S N+L + + ++
Sbjct: 59 PRLRIFSHPNVLPVLGACQSPPAPHPTL------ITHWXPY-GSLYNVLHEGTNFVVDQS 111
Query: 109 EEVILAL 115
+ V AL
Sbjct: 112 QAVKFAL 118
>pdb|1TVF|A Chain A, Crystal Structure Of Penicillin-Binding Protein 4 (Pbp4)
From Staphylococcus Aureus
pdb|1TVF|B Chain B, Crystal Structure Of Penicillin-Binding Protein 4 (Pbp4)
From Staphylococcus Aureus
Length = 369
Score = 30.0 bits (66), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 8/85 (9%)
Query: 321 NLTDESRDRFEAFAREQFTD-EPNVSLGKDPDLRSYFVSKDT-------KQLTPWTTITP 372
N T R +FA ++ D E V+ +D + V K+T KQL P T
Sbjct: 164 NPTGAENSRLRSFAPTKYKDQERTVTTARDYAILDLHVIKETPKILDFTKQLAPTTHAVT 223
Query: 373 IFTYDPTMPFFDMMVPTIDTIRFGS 397
+T++ ++ M +P D ++ GS
Sbjct: 224 YYTFNFSLEGAKMSLPGTDGLKTGS 248
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 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,613,833
Number of Sequences: 62578
Number of extensions: 671171
Number of successful extensions: 1300
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1270
Number of HSP's gapped (non-prelim): 22
length of query: 583
length of database: 14,973,337
effective HSP length: 104
effective length of query: 479
effective length of database: 8,465,225
effective search space: 4054842775
effective search space used: 4054842775
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)