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= 015892
(398 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KB1|A Chain A, Crystal Structure Of The Nucleotide-Binding Protein Af_226
In Complex With Adp From Archaeoglobus Fulgidus,
Northeast Structural Genomics Consortium Target Gr157
pdb|3KB1|B Chain B, Crystal Structure Of The Nucleotide-Binding Protein Af_226
In Complex With Adp From Archaeoglobus Fulgidus,
Northeast Structural Genomics Consortium Target Gr157
Length = 262
Score = 159 bits (403), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 94/235 (40%), Positives = 130/235 (55%), Gaps = 5/235 (2%)
Query: 34 EQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVS 93
E + E L KI +AV S KGGVGKSTV LA A G +VGI DAD GPS+P +
Sbjct: 8 EDIKERLDKIGFRIAVXSGKGGVGKSTVTALLAVHYAKQGKKVGILDADFLGPSIPHLFG 67
Query: 94 PENRLLEMNPEKRTIIPTEYLGVKLVSFGFSGQGR---AIMRGPMVSGVINQLLTTTEWG 150
E + ++ E + T+ LG+K+ S F R I RGP+++G I + L WG
Sbjct: 68 LEKGKVAVSDEGLEPVLTQRLGIKVXSIQFLLPKRETPVIWRGPLIAGXIREFLGRVAWG 127
Query: 151 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAV 210
ELDYL+ID+PPGTGD LT+ Q AVIV+TPQ+L V K + + K + +
Sbjct: 128 ELDYLLIDLPPGTGDAPLTVXQDAKPNGAVIVSTPQELTAAVVEKAITXAEQTKTAVLGI 187
Query: 211 VENMCHFDAD--GKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTLSASGDSGMPE 263
VEN +F+ G+R Y FG G S++ +++ I + ++PI L D G E
Sbjct: 188 VENXAYFECPNCGERTYLFGEGKASELARKYKIEFITEIPIDSDLLKLSDLGRVE 242
>pdb|2PH1|A Chain A, Crystal Structure Of Nucleotide-Binding Protein Af2382
From Archaeoglobus Fulgidus, Northeast Structural
Genomics Target Gr165
Length = 262
Score = 153 bits (387), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 89/235 (37%), Positives = 126/235 (53%), Gaps = 5/235 (2%)
Query: 34 EQLPEGLQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVS 93
E++ E L KI + +AV S KGGVGKSTV LA A G +VGI DAD GPS+P +
Sbjct: 8 EEIKERLGKIKSRIAVXSGKGGVGKSTVTALLAVHYARQGKKVGILDADFLGPSIPILFG 67
Query: 94 PENRLLEMNPEKRTIIPTEYLGVKLVSFGF---SGQGRAIMRGPMVSGVINQLLTTTEWG 150
N + ++ E + T+ G+K+ S F I RGP+++G I + L WG
Sbjct: 68 LRNARIAVSAEGLEPVLTQKYGIKVXSXQFLLPKENTPVIWRGPLIAGXIREFLGRVAWG 127
Query: 151 ELDYLVIDMPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAV 210
ELD+L+ID+PPGTGD LT+ Q T V+V+TPQ+L + V K + + + +
Sbjct: 128 ELDHLLIDLPPGTGDAPLTVXQDAKPTGVVVVSTPQELTAVIVEKAINXAEETNTSVLGL 187
Query: 211 VENMCHFDAD--GKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTLSASGDSGMPE 263
VEN +F G + Y FG G G + +++ I +PI L DSG E
Sbjct: 188 VENXSYFVCPNCGHKSYIFGEGKGESLAKKYNIGFFTSIPIEEELIKLADSGRIE 242
>pdb|3VX3|A Chain A, Crystal Structure Of [nife] Hydrogenase Maturation Protein
Hypb From Thermococcus Kodakarensis Kod1
pdb|3VX3|B Chain B, Crystal Structure Of [nife] Hydrogenase Maturation Protein
Hypb From Thermococcus Kodakarensis Kod1
Length = 248
Score = 124 bits (310), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 77/222 (34%), Positives = 114/222 (51%), Gaps = 16/222 (7%)
Query: 40 LQKISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLL 99
L+ + I+ V S KGGVGKS V+ LA LA G RVG+ D D +G S ++ E +
Sbjct: 15 LEGVKRIIPVVSGKGGVGKSLVSTTLALVLAEKGYRVGLLDLDFHGASDHVILGFEPK-- 72
Query: 100 EMNPEKRTIIPTEYLGVKLVSFGFSGQGRAI-MRGPMVSGVINQLLTTTEWGELDYLVID 158
E E R ++P G+K ++ + + R +RG +S + +LLT T W ELDYLVID
Sbjct: 73 EFPEEDRGVVPPTVHGIKFMTIAYYTEDRPTPLRGKEISDALIELLTITRWDELDYLVID 132
Query: 159 MPPGTGDIQLTLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMC--- 215
MPPG GD L + + + ++V TP KL+ V K + + + I VVENM
Sbjct: 133 MPPGLGDQLLDVLRFLKRGEFLVVATPSKLSLNVVRKLIELLKEEGHKVIGVVENMKLRS 192
Query: 216 -HFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTLSAS 256
D + ++ ++FG+P+L +P P L A
Sbjct: 193 EQLDDE---------KDVEKLAEEFGVPYLVGIPFYPDLDAK 225
>pdb|1HYQ|A Chain A, Mind Bacterial Cell Division Regulator From A. Fulgidus
Length = 263
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 50/176 (28%), Positives = 80/176 (45%), Gaps = 19/176 (10%)
Query: 47 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPEN---RLLEMNP 103
+ V+S KGG GK+T+ NL LA +G V I DAD+ +L ++ E L +
Sbjct: 5 ITVASGKGGTGKTTITANLGVALAQLGHDVTIVDADITMANLELILGMEGLPVTLQNVLA 64
Query: 104 EKRTIIPTEYL---GVKLVSFGFSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDMP 160
+ I Y+ GVK+V G S +G + V+ Q++ +T D L++D P
Sbjct: 65 GEARIDEAIYVGPGGVKVVPAGVSLEGLRKANPEKLEDVLTQIMEST-----DILLLDAP 119
Query: 161 PGTGDIQLTLCQVVPLTAA---VIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVEN 213
G L V+ + AA ++V P+ + D K + +L + VV N
Sbjct: 120 AG-----LERSAVIAIAAAQELLLVVNPEISSITDGLKTKIVAERLGTKVLGVVVN 170
>pdb|1WCV|1 Chain 1, Structure Of The Bacterial Chromosome Segregation
Protein Soj
pdb|2BEJ|A Chain A, Structure Of The Bacterial Chromosome Segregation
Protein Soj
Length = 257
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/39 (51%), Positives = 28/39 (71%)
Query: 47 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYG 85
+A+++ KGGVGK+T A+NLA LA +G RV + D D G
Sbjct: 9 IALANQKGGVGKTTTAINLAAYLARLGKRVLLVDLDPQG 47
>pdb|2BEK|A Chain A, Structure Of The Bacterial Chromosome Segregation
Protein Soj
pdb|2BEK|B Chain B, Structure Of The Bacterial Chromosome Segregation
Protein Soj
pdb|2BEK|C Chain C, Structure Of The Bacterial Chromosome Segregation
Protein Soj
pdb|2BEK|D Chain D, Structure Of The Bacterial Chromosome Segregation
Protein Soj
Length = 257
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/34 (52%), Positives = 26/34 (76%)
Query: 47 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD 80
+A+++ KGGVGK+T A+NLA LA +G RV + D
Sbjct: 9 IALANQKGGVGKTTTAINLAAYLARLGKRVLLVD 42
>pdb|2XIT|A Chain A, Crystal Structure Of Monomeric Mipz
pdb|2XIT|B Chain B, Crystal Structure Of Monomeric Mipz
Length = 294
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 39/150 (26%), Positives = 64/150 (42%), Gaps = 15/150 (10%)
Query: 44 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNP 103
+ ++ V + KGG GKST+AV+L L GA+V + D D+ + ENR ++
Sbjct: 4 TRVIVVGNEKGGAGKSTIAVHLVTALLYGGAKVAVIDLDLRQRTSARFF--ENRRAWLD- 60
Query: 104 EKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVIN-QLLTTTEWGELDYLVIDMPPG 162
K+ +P ++ S A+ P V + E D+++ID P G
Sbjct: 61 NKKIELPEP------LALNLSDNDVALAERPEEEQVAGFEAAFARAMAECDFILIDTPGG 114
Query: 163 TGDIQLTLCQVVPLTAAVIVTTPQKLAFID 192
I + A +V TP +F+D
Sbjct: 115 DSAITR-----MAHGRADLVVTPMNDSFVD 139
>pdb|1DE0|A Chain A, Modulating The Midpoint Potential Of The [4fe-4s] Cluster
Of The Nitrogenase Fe Protein
pdb|1DE0|B Chain B, Modulating The Midpoint Potential Of The [4fe-4s] Cluster
Of The Nitrogenase Fe Protein
pdb|1XCP|A Chain A, Crystal Structure Of The Nitrogenase Fe Protein Phe135trp
With Mgadp Bound
pdb|1XCP|B Chain B, Crystal Structure Of The Nitrogenase Fe Protein Phe135trp
With Mgadp Bound
pdb|1XCP|C Chain C, Crystal Structure Of The Nitrogenase Fe Protein Phe135trp
With Mgadp Bound
pdb|1XCP|D Chain D, Crystal Structure Of The Nitrogenase Fe Protein Phe135trp
With Mgadp Bound
Length = 289
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 37/80 (46%), Gaps = 10/80 (12%)
Query: 53 KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMV--SPENRLLEMNPEKRTIIP 110
KGG+GKST NL LA MG +V I D S ++ +N ++EM E T+
Sbjct: 10 KGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADSTRLILHSKAQNTIMEMAAEAGTVED 69
Query: 111 TE--------YLGVKLVSFG 122
E Y GVK V G
Sbjct: 70 LELEDVLKAGYGGVKCVESG 89
>pdb|2C8V|A Chain A, Insights Into The Role Of Nucleotide-Dependent
Conformational Change In Nitrogenase Catalysis:
Structural Characterization Of The Nitrogenase Fe
Protein Leu127 Deletion Variant With Bound Mgatp
Length = 288
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 37/80 (46%), Gaps = 10/80 (12%)
Query: 53 KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMV--SPENRLLEMNPEKRTIIP 110
KGG+GKST NL LA MG +V I D S ++ +N ++EM E T+
Sbjct: 10 KGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADSTRLILHSKAQNTIMEMAAEAGTVED 69
Query: 111 TE--------YLGVKLVSFG 122
E Y GVK V G
Sbjct: 70 LELEDVLKAGYGGVKCVESG 89
>pdb|2XJ4|A Chain A, Structure Of The Bacterial Cell Division Regulator Protein
Mipz
Length = 286
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 39/150 (26%), Positives = 64/150 (42%), Gaps = 15/150 (10%)
Query: 44 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMNP 103
+ ++ V + KGG GKST+AV+L L GA+V + D D+ + ENR ++
Sbjct: 4 TRVIVVGNEKGGAGKSTIAVHLVTALLYGGAKVAVIDLDLRQRTSARFF--ENRRAWLD- 60
Query: 104 EKRTIIPTEYLGVKLVSFGFSGQGRAIMRGPMVSGVIN-QLLTTTEWGELDYLVIDMPPG 162
K+ +P ++ S A+ P V + E D+++ID P G
Sbjct: 61 NKKIELPEP------LALNLSDNDVALAERPEEEQVAGFEAAFARAMAECDFILIDTPGG 114
Query: 163 TGDIQLTLCQVVPLTAAVIVTTPQKLAFID 192
I + A +V TP +F+D
Sbjct: 115 DSAITR-----MAHGRADLVVTPMNDSFVD 139
>pdb|1G20|E Chain E, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G20|F Chain F, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G20|G Chain G, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G20|H Chain H, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|E Chain E, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|F Chain F, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|G Chain G, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
pdb|1G21|H Chain H, Mgatp-Bound And Nucleotide-Free Structures Of A
Nitrogenase Protein Complex Between Leu127del-Fe Protein
And The Mofe Protein
Length = 289
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 37/80 (46%), Gaps = 10/80 (12%)
Query: 53 KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMV--SPENRLLEMNPEKRTIIP 110
KGG+GKST NL LA MG +V I D S ++ +N ++EM E T+
Sbjct: 11 KGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADSTRLILHSKAQNTIMEMAAEAGTVED 70
Query: 111 TE--------YLGVKLVSFG 122
E Y GVK V G
Sbjct: 71 LELEDVLKAGYGGVKCVESG 90
>pdb|1NIP|A Chain A, Crystallographic Structure Of The Nitrogenase Iron Protein
From Azotobacter Vinelandii
pdb|1NIP|B Chain B, Crystallographic Structure Of The Nitrogenase Iron Protein
From Azotobacter Vinelandii
pdb|1N2C|E Chain E, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp-Tetrafluoroaluminate
pdb|1N2C|F Chain F, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp-Tetrafluoroaluminate
pdb|1N2C|G Chain G, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp-Tetrafluoroaluminate
pdb|1N2C|H Chain H, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp-Tetrafluoroaluminate
pdb|2NIP|A Chain A, Nitrogenase Iron Protein From Azotobacter Vinelandii
pdb|2NIP|B Chain B, Nitrogenase Iron Protein From Azotobacter Vinelandii
pdb|1G1M|A Chain A, All-Ferrous Nitrogenase Iron Protein From Azotobacter
Vinelandii
pdb|1G1M|B Chain B, All-Ferrous Nitrogenase Iron Protein From Azotobacter
Vinelandii
pdb|1G5P|A Chain A, Nitrogenase Iron Protein From Azotobacter Vinelandii
pdb|1G5P|B Chain B, Nitrogenase Iron Protein From Azotobacter Vinelandii
pdb|1FP6|A Chain A, The Nitrogenase Fe Protein From Azotobacter Vinelandii
Complexed With Mgadp
pdb|1FP6|B Chain B, The Nitrogenase Fe Protein From Azotobacter Vinelandii
Complexed With Mgadp
pdb|1FP6|C Chain C, The Nitrogenase Fe Protein From Azotobacter Vinelandii
Complexed With Mgadp
pdb|1FP6|D Chain D, The Nitrogenase Fe Protein From Azotobacter Vinelandii
Complexed With Mgadp
pdb|1M1Y|E Chain E, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|F Chain F, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|G Chain G, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|H Chain H, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|M Chain M, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|N Chain N, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|O Chain O, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M1Y|P Chain P, Chemical Crosslink Of Nitrogenase Mofe Protein And Fe
Protein
pdb|1M34|E Chain E, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|F Chain F, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|G Chain G, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|H Chain H, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|M Chain M, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|N Chain N, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|O Chain O, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|1M34|P Chain P, Nitrogenase Complex From Azotobacter Vinelandii Stabilized
By Adp- Tetrafluoroaluminate
pdb|2AFH|E Chain E, Crystal Structure Of Nucleotide-Free Av2-Av1 Complex
pdb|2AFH|F Chain F, Crystal Structure Of Nucleotide-Free Av2-Av1 Complex
pdb|2AFI|E Chain E, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|F Chain F, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|G Chain G, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|H Chain H, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|M Chain M, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|N Chain N, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|O Chain O, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFI|P Chain P, Crystal Structure Of Mgadp Bound Av2-Av1 Complex
pdb|2AFK|E Chain E, Crystal Structure Of Mgamppcp-Bound Av2-Av1 Complex
pdb|2AFK|F Chain F, Crystal Structure Of Mgamppcp-Bound Av2-Av1 Complex
pdb|2AFK|G Chain G, Crystal Structure Of Mgamppcp-Bound Av2-Av1 Complex
pdb|2AFK|H Chain H, Crystal Structure Of Mgamppcp-Bound Av2-Av1 Complex
Length = 289
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 37/80 (46%), Gaps = 10/80 (12%)
Query: 53 KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMV--SPENRLLEMNPEKRTIIP 110
KGG+GKST NL LA MG +V I D S ++ +N ++EM E T+
Sbjct: 10 KGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADSTRLILHSKAQNTIMEMAAEAGTVED 69
Query: 111 TE--------YLGVKLVSFG 122
E Y GVK V G
Sbjct: 70 LELEDVLKAGYGGVKCVESG 89
>pdb|1XDB|A Chain A, Crystal Structure Of The Nitrogenase Fe Protein Asp129glu
pdb|1XDB|B Chain B, Crystal Structure Of The Nitrogenase Fe Protein Asp129glu
Length = 289
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 37/80 (46%), Gaps = 10/80 (12%)
Query: 53 KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMV--SPENRLLEMNPEKRTIIP 110
KGG+GKST NL LA MG +V I D S ++ +N ++EM E T+
Sbjct: 10 KGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADSTRLILHSKAQNTIMEMAAEAGTVED 69
Query: 111 TE--------YLGVKLVSFG 122
E Y GVK V G
Sbjct: 70 LELEDVLKAGYGGVKCVESG 89
>pdb|1RW4|A Chain A, Nitrogenase Fe Protein L127 Deletion Variant
Length = 272
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 37/80 (46%), Gaps = 10/80 (12%)
Query: 53 KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMV--SPENRLLEMNPEKRTIIP 110
KGG+GKST NL LA MG +V I D S ++ +N ++EM E T+
Sbjct: 11 KGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADSTRLILHSKAQNTIMEMAAEAGTVED 70
Query: 111 TE--------YLGVKLVSFG 122
E Y GVK V G
Sbjct: 71 LELEDVLKAGYGGVKCVESG 90
>pdb|1ION|A Chain A, The Septum Site-Determining Protein Mind Complexed With
Mg-Adp From Pyrococcus Horikoshii Ot3
Length = 243
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 59/261 (22%), Positives = 105/261 (40%), Gaps = 29/261 (11%)
Query: 44 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLLEMN- 102
+ I+++ S KGG GK+TV NL+ L G +V D D+ +L ++ ++ + ++
Sbjct: 2 TRIISIVSGKGGTGKTTVTANLSVALGEXGRKVLAVDGDLTXANLSLVLGVDDVNITLHD 61
Query: 103 ------PEKRTIIPTEYLGVKLVSFGFSGQGRAIMRGP-MVSGVINQLLTTTEWGELDYL 155
+ I T++ V ++ + I P + VI L G+ D++
Sbjct: 62 VLAGDAKLEDAIYXTQFENVYILPGAVDWE-HVIKADPRKLPEVIKSL-----KGKYDFI 115
Query: 156 VIDMPPGTGDIQL-TLCQVVPLTAAVIVTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENM 214
+ID P G +QL + A++VT P+ D K + K + + + N
Sbjct: 116 LIDCPAG---LQLRAXSAXLSGEEAILVTNPEISCLTDTXKVGXVLKKAGLAILGFILN- 171
Query: 215 CHFDADGKRYYPFGRGSGSQVVQQF-GIPHLFDLPIRPTLSASGDSGMPEVAADPCGEVA 273
RY R + Q +P L +P P + G+P V P + A
Sbjct: 172 --------RYGRSERDIPPEAAQDVXDVPLLAVIPEDPVIREGTLEGIPAVKYKPESKGA 223
Query: 274 NTFQDLGVCVVQQCAKIRQQV 294
F L V + A I+ ++
Sbjct: 224 QAFIKLAE-EVDKLAGIKAKI 243
>pdb|3BFV|A Chain A, Crystal Structure Of The Chimerical Protein Capab
pdb|3BFV|B Chain B, Crystal Structure Of The Chimerical Protein Capab
Length = 271
Score = 37.4 bits (85), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 46/192 (23%), Positives = 76/192 (39%), Gaps = 19/192 (9%)
Query: 47 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS------LPTMVSPENRLLE 100
+ ++S G GKST+A NLA A G + I D D+ P+ LP + LL
Sbjct: 85 IVITSEAPGAGKSTIAANLAVAYAQAGYKTLIVDGDMRKPTQHYIFNLPNNEGLSSLLLN 144
Query: 101 MNPEKRTIIPTEYLGVKLVSFG-FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDM 159
+ + +II TE + +++ G ++ + + + LL ++++ID
Sbjct: 145 WSTYQDSIISTEIEDLDVLTSGPIPPNPSELITSRAFANLYDTLLMN-----YNFVIIDT 199
Query: 160 PP--GTGDIQLTLCQVVPLTAAVI-VTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCH 216
PP D QL T V+ V + +V KG + + VV N
Sbjct: 200 PPVNTVTDAQL----FSKFTGNVVYVVNSENNNKDEVKKGKELIEATGAKLLGVVLNRMP 255
Query: 217 FDADGKRYYPFG 228
D Y +G
Sbjct: 256 KDKSASYYAYYG 267
>pdb|1XD8|A Chain A, Crystal Structure Of The Nitrogenase Fe Protein Asp39asn
pdb|1XD8|B Chain B, Crystal Structure Of The Nitrogenase Fe Protein Asp39asn
pdb|1XD9|A Chain A, Crystal Structure Of The Nitrogenase Fe Protein Asp39asn
With Mgadp Bound
pdb|1XD9|B Chain B, Crystal Structure Of The Nitrogenase Fe Protein Asp39asn
With Mgadp Bound
Length = 289
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 37/80 (46%), Gaps = 10/80 (12%)
Query: 53 KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMV--SPENRLLEMNPEKRTIIP 110
KGG+GKST NL LA MG +V I + S ++ +N ++EM E T+
Sbjct: 10 KGGIGKSTTTQNLVAALAEMGKKVMIVGCNPKADSTRLILHSKAQNTIMEMAAEAGTVED 69
Query: 111 TE--------YLGVKLVSFG 122
E Y GVK V G
Sbjct: 70 LELEDVLKAGYGGVKCVESG 89
>pdb|2XJ9|A Chain A, Dimer Structure Of The Bacterial Cell Division Regulator
Mipz
pdb|2XJ9|B Chain B, Dimer Structure Of The Bacterial Cell Division Regulator
Mipz
Length = 286
Score = 35.4 bits (80), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 24/37 (64%)
Query: 44 SNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFD 80
+ ++ V + KGG GKST+AV+L L GA+V + D
Sbjct: 4 TRVIVVGNEKGGAGKSTIAVHLVTALLYGGAKVAVID 40
>pdb|3K9G|A Chain A, Crystal Structure Of A Plasmid Partition Protein From
Borrelia Burgdorferi At 2.25a Resolution, Iodide Soak
pdb|3K9H|A Chain A, Crystal Structure Of A Plasmid Partition Protein From
Borrelia Burgdorferi At 2.25a Resolution
pdb|3K9H|B Chain B, Crystal Structure Of A Plasmid Partition Protein From
Borrelia Burgdorferi At 2.25a Resolution
Length = 267
Score = 35.0 bits (79), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 24/37 (64%), Gaps = 1/37 (2%)
Query: 46 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD 82
I+ ++S KGGVGKST A+ LA TL +V + D D
Sbjct: 29 IITIASIKGGVGKSTSAIILA-TLLSKNNKVLLIDMD 64
>pdb|1G3Q|A Chain A, Crystal Structure Analysis Of Pyrococcus Furiosus Cell
Division Atpase Mind
pdb|1G3R|A Chain A, Crystal Structure Analysis Of Pyrococcus Furiosus Cell
Division Atpase Mind
Length = 237
Score = 34.7 bits (78), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 30/54 (55%)
Query: 43 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPEN 96
+ I+++ S KGG GK+TV NL+ L G +V D D+ +L ++ ++
Sbjct: 1 MGRIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGDLTMANLSLVLGVDD 54
>pdb|2VED|A Chain A, Crystal Structure Of The Chimerical Mutant Capabk55m
Protein
pdb|2VED|B Chain B, Crystal Structure Of The Chimerical Mutant Capabk55m
Protein
Length = 271
Score = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 45/192 (23%), Positives = 75/192 (39%), Gaps = 19/192 (9%)
Query: 47 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS------LPTMVSPENRLLE 100
+ ++S G G ST+A NLA A G + I D D+ P+ LP + LL
Sbjct: 85 IVITSEAPGAGMSTIAANLAVAYAQAGYKTLIVDGDMRKPTQHYIFNLPNNEGLSSLLLN 144
Query: 101 MNPEKRTIIPTEYLGVKLVSFG-FSGQGRAIMRGPMVSGVINQLLTTTEWGELDYLVIDM 159
+ + +II TE + +++ G ++ + + + LL ++++ID
Sbjct: 145 WSTYQDSIISTEIEDLDVLTSGPIPPNPSELITSRAFANLYDTLLMN-----YNFVIIDT 199
Query: 160 PP--GTGDIQLTLCQVVPLTAAVI-VTTPQKLAFIDVAKGVRMFSKLKVPCIAVVENMCH 216
PP D QL T V+ V + +V KG + + VV N
Sbjct: 200 PPVNTVTDAQL----FSKFTGNVVYVVNSENNNKDEVKKGKELIEATGAKLLGVVLNRMP 255
Query: 217 FDADGKRYYPFG 228
D Y +G
Sbjct: 256 KDKSASYYAYYG 267
>pdb|3CWQ|A Chain A, Crystal Structure Of Chromosome Partitioning Protein
(Para) In Complex With Adp From Synechocystis Sp.
Northeast Structural Genomics Consortium Target Sgr89
pdb|3CWQ|B Chain B, Crystal Structure Of Chromosome Partitioning Protein
(Para) In Complex With Adp From Synechocystis Sp.
Northeast Structural Genomics Consortium Target Sgr89
Length = 209
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 39/72 (54%), Gaps = 9/72 (12%)
Query: 46 IVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD------VYGP--SLPTMVSPENR 97
I+ V+S KGGVGK+T AV+L+ LA G + + D D +G SLP V E +
Sbjct: 2 IITVASFKGGVGKTTTAVHLSAYLALQGETL-LIDGDPNRSATGWGKRGSLPFKVVDERQ 60
Query: 98 LLEMNPEKRTII 109
+ P+ + I+
Sbjct: 61 AAKYAPKYQNIV 72
>pdb|1J8M|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From
A. Ambivalens
Length = 297
Score = 33.5 bits (75), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 20/33 (60%)
Query: 55 GVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS 87
G GK+T A LAY G +VG+ ADVY P+
Sbjct: 108 GTGKTTTAGKLAYFYKKKGFKVGLVGADVYRPA 140
>pdb|1J8Y|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From
A. Ambivalens T112a Mutant
Length = 297
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 20/33 (60%)
Query: 55 GVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS 87
G GK+T A LAY G +VG+ ADVY P+
Sbjct: 108 GTGKATTAGKLAYFYKKKGFKVGLVGADVYRPA 140
>pdb|3PG5|A Chain A, Crystal Structure Of Protein Dip2308 From
Corynebacterium Diphtheriae, Northeast Structural
Genomics Consortium Target Cdr78
pdb|3PG5|B Chain B, Crystal Structure Of Protein Dip2308 From
Corynebacterium Diphtheriae, Northeast Structural
Genomics Consortium Target Cdr78
pdb|3PG5|C Chain C, Crystal Structure Of Protein Dip2308 From
Corynebacterium Diphtheriae, Northeast Structural
Genomics Consortium Target Cdr78
pdb|3PG5|D Chain D, Crystal Structure Of Protein Dip2308 From
Corynebacterium Diphtheriae, Northeast Structural
Genomics Consortium Target Cdr78
Length = 361
Score = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 23/36 (63%)
Query: 47 VAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDAD 82
++ + KGGVGK+T++ N+A+ A G RV D D
Sbjct: 4 ISFFNNKGGVGKTTLSTNVAHYFALQGKRVLYVDCD 39
>pdb|3Q9L|A Chain A, The Structure Of The Dimeric E.Coli Mind-Atp Complex
pdb|3Q9L|B Chain B, The Structure Of The Dimeric E.Coli Mind-Atp Complex
pdb|3R9I|A Chain A, 2.6a Resolution Structure Of Mind Complexed With Mine
(12-31) Peptide
pdb|3R9I|B Chain B, 2.6a Resolution Structure Of Mind Complexed With Mine
(12-31) Peptide
pdb|3R9I|C Chain C, 2.6a Resolution Structure Of Mind Complexed With Mine
(12-31) Peptide
pdb|3R9I|D Chain D, 2.6a Resolution Structure Of Mind Complexed With Mine
(12-31) Peptide
pdb|3R9J|A Chain A, 4.3a Resolution Structure Of A Mind-Mine(I24n) Protein
Complex
pdb|3R9J|B Chain B, 4.3a Resolution Structure Of A Mind-Mine(I24n) Protein
Complex
Length = 260
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%)
Query: 43 ISNIVAVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRLL 99
++ I+ V+S KGGVGK+T + +A LA G + + D + +L ++ E R++
Sbjct: 1 MARIIVVTSGKGGVGKTTSSAAIATGLAQKGKKTVVIDFAIGLRNLDLIMGCERRVV 57
>pdb|1QZW|A Chain A, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZW|C Chain C, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZW|E Chain E, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZW|G Chain G, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZX|A Chain A, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZX|B Chain B, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
Length = 440
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 20/33 (60%)
Query: 55 GVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS 87
G GK+T A LAY G +VG+ ADVY P+
Sbjct: 114 GSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPA 146
>pdb|3KL4|A Chain A, Recognition Of A Signal Peptide By The Signal Recognition
Particle
Length = 433
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 20/33 (60%)
Query: 55 GVGKSTVAVNLAYTLAGMGARVGIFDADVYGPS 87
G GK+T A LAY G +VG+ ADVY P+
Sbjct: 107 GSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPA 139
>pdb|1F48|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1IHU|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase In Complex With
Mg-Adp-Alf3
pdb|1II0|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II0|B Chain B, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II9|A Chain A, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
pdb|1II9|B Chain B, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
Length = 589
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 20/30 (66%)
Query: 53 KGGVGKSTVAVNLAYTLAGMGARVGIFDAD 82
KGGVGK+T+A +A LA MG V + +D
Sbjct: 335 KGGVGKTTMAAAIAVRLADMGFDVHLTTSD 364
>pdb|2X8T|A Chain A, Crystal Structure Of The Abn2 H318a Mutant
pdb|2X8T|B Chain B, Crystal Structure Of The Abn2 H318a Mutant
Length = 471
Score = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 49/130 (37%), Gaps = 15/130 (11%)
Query: 134 PMVSGVINQLLTTTEWGELDYL----VIDMPPGTGDIQLTLCQ------VVPLTAAVIVT 183
P++ V +L T EW + D L V + G + C+ + + A +
Sbjct: 78 PLIPNVYEELKETFEWAQSDTLWAADVTQLADGKYYMYYNACRGDSPRSAMGVAVADNIE 137
Query: 184 TPQKLAFIDVAKGVRMFSKLKVPCIA-----VVENMCHFDADGKRYYPFGRGSGSQVVQQ 238
P K I + G+ S P A VV+ FD DGK + +G SG + +
Sbjct: 138 GPYKNKGIFLKSGMEGTSSDGTPYDATKHPNVVDPHTFFDKDGKLWMVYGSYSGGIFILE 197
Query: 239 FGIPHLFDLP 248
F LP
Sbjct: 198 MNPKTGFPLP 207
>pdb|2X8F|A Chain A, Native Structure Of Endo-1,5-Alpha-L-Arabinanases From
Bacillus Subtilis
pdb|2X8F|B Chain B, Native Structure Of Endo-1,5-Alpha-L-Arabinanases From
Bacillus Subtilis
Length = 470
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 49/130 (37%), Gaps = 15/130 (11%)
Query: 134 PMVSGVINQLLTTTEWGELDYL----VIDMPPGTGDIQLTLCQ------VVPLTAAVIVT 183
P++ V +L T EW + D L V + G + C+ + + A +
Sbjct: 78 PLIPNVYEELKETFEWAQSDTLWAADVTQLADGKYYMYYNACRGDSPRSAMGVAVADNIE 137
Query: 184 TPQKLAFIDVAKGVRMFSKLKVPCIA-----VVENMCHFDADGKRYYPFGRGSGSQVVQQ 238
P K I + G+ S P A VV+ FD DGK + +G SG + +
Sbjct: 138 GPYKNKGIFLKSGMEGTSSDGTPYDATKHPNVVDPHTFFDKDGKLWMVYGSYSGGIFILE 197
Query: 239 FGIPHLFDLP 248
F LP
Sbjct: 198 MNPKTGFPLP 207
>pdb|4DZZ|A Chain A, Structure Of Parf-Adp, Crystal Form 1
pdb|4DZZ|B Chain B, Structure Of Parf-Adp, Crystal Form 1
pdb|4E03|A Chain A, Structure Of Parf-Adp Form 2
pdb|4E03|B Chain B, Structure Of Parf-Adp Form 2
pdb|4E07|A Chain A, Parf-Amppcp-C2221 Form
pdb|4E07|B Chain B, Parf-Amppcp-C2221 Form
pdb|4E09|A Chain A, Structure Of Parf-Amppcp, I422 Form
Length = 206
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 53 KGGVGKSTVAVNLAYTLAGMGARVGIFDAD 82
KGG GK+T +N+A L+ G + + D D
Sbjct: 10 KGGSGKTTAVINIATALSRSGYNIAVVDTD 39
>pdb|4EMZ|C Chain C, Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain And Mu1
Adaptin Subunit Of Ap1 Adaptor (Second Domain)
pdb|4EMZ|B Chain B, Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain And Mu1
Adaptin Subunit Of Ap1 Adaptor (Second Domain)
Length = 206
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 20/41 (48%)
Query: 319 FLHPATVRRNDRSAQSVDEWTGDQKLQYTDVPEDIEPEEIR 359
LHP ++ D + V EW D +L + V ++ PE +
Sbjct: 164 LLHPVSLHGXDDPEREVLEWRFDSRLAFHHVARELHPEYFK 204
>pdb|3RRW|A Chain A, Crystal Structure Of The Tl29 Protein From Arabidopsis
Thaliana
pdb|3RRW|B Chain B, Crystal Structure Of The Tl29 Protein From Arabidopsis
Thaliana
Length = 268
Score = 29.3 bits (64), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 48 AVSSCKGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVSPENRL 98
A+ C G K NL YT G + G+FD + +G S T PE R+
Sbjct: 118 AIRKCGGNEEKG----NLLYTAYGSAGQWGLFDRN-FGRSDATEADPEGRV 163
>pdb|3BL8|A Chain A, Crystal Structure Of The Extracellular Domain Of
Neuroligin 2a From Mouse
pdb|3BL8|B Chain B, Crystal Structure Of The Extracellular Domain Of
Neuroligin 2a From Mouse
pdb|3BL8|C Chain C, Crystal Structure Of The Extracellular Domain Of
Neuroligin 2a From Mouse
pdb|3BL8|D Chain D, Crystal Structure Of The Extracellular Domain Of
Neuroligin 2a From Mouse
Length = 580
Score = 29.3 bits (64), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 23/46 (50%)
Query: 212 ENMCHFDADGKRYYPFGRGSGSQVVQQFGIPHLFDLPIRPTLSASG 257
EN+ HF D +R FG G+G+ V + H + + ++ SG
Sbjct: 208 ENIAHFGGDPERITIFGSGAGASCVNLLILSHHSEGLFQKAIAQSG 253
>pdb|4EN2|B Chain B, Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain And Mu1
Adaptin Subunit Of Ap1 Adaptor (Second Domain)
pdb|4EN2|C Chain C, Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain And Mu1
Adaptin Subunit Of Ap1 Adaptor (Second Domain)
Length = 206
Score = 29.3 bits (64), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 20/41 (48%)
Query: 319 FLHPATVRRNDRSAQSVDEWTGDQKLQYTDVPEDIEPEEIR 359
LHP ++ D + V EW D +L + V ++ PE +
Sbjct: 164 LLHPVSLHGMDDPEREVLEWRFDSRLAFHHVARELHPEYFK 204
>pdb|1AVZ|A Chain A, V-1 Nef Protein In Complex With Wild Type Fyn Sh3 Domain
pdb|1AVZ|B Chain B, V-1 Nef Protein In Complex With Wild Type Fyn Sh3 Domain
pdb|1AVV|A Chain A, Hiv-1 Nef Protein, Unliganded Core Domain
pdb|4D8D|B Chain B, Crystal Structure Of Hiv-1 Nef Fyn-sh3 R96w Variant
pdb|4D8D|D Chain D, Crystal Structure Of Hiv-1 Nef Fyn-sh3 R96w Variant
Length = 151
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 20/41 (48%)
Query: 319 FLHPATVRRNDRSAQSVDEWTGDQKLQYTDVPEDIEPEEIR 359
LHP ++ D + V EW D +L + V ++ PE +
Sbjct: 109 LLHPVSLHGMDDPEREVLEWRFDSRLAFHHVARELHPEYFK 149
>pdb|3FWY|A Chain A, Crystal Structure Of The L Protein Of Rhodobacter
Sphaeroides Light- Independent Protochlorophyllide
Reductase (Bchl) With Mgadp Bound: A Homologue Of The
Nitrogenase Fe Protein
pdb|3FWY|B Chain B, Crystal Structure Of The L Protein Of Rhodobacter
Sphaeroides Light- Independent Protochlorophyllide
Reductase (Bchl) With Mgadp Bound: A Homologue Of The
Nitrogenase Fe Protein
Length = 314
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 53 KGGVGKSTVAVNLAYTLAGMGARV 76
KGG+GKST + NL+ + +G RV
Sbjct: 56 KGGIGKSTTSSNLSAAFSILGKRV 79
>pdb|3TB8|A Chain A, Crystal Structure Of Full-Length Myristoylated Hiv-1 Nef
Length = 206
Score = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 20/41 (48%)
Query: 319 FLHPATVRRNDRSAQSVDEWTGDQKLQYTDVPEDIEPEEIR 359
LHP ++ D + V EW D +L + V ++ PE +
Sbjct: 164 LLHPVSLHGMDDPEREVLEWRFDSRLAFHHVARELHPEYFK 204
>pdb|1VRP|A Chain A, The 2.1 Structure Of T. Californica Creatine Kinase
Complexed With The Transition-State Analogue Complex,
Adp- Mg 2+ NO3-CREATINE
pdb|1VRP|B Chain B, The 2.1 Structure Of T. Californica Creatine Kinase
Complexed With The Transition-State Analogue Complex,
Adp- Mg 2+ NO3-CREATINE
Length = 381
Score = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 18/35 (51%)
Query: 223 RYYPFGRGSGSQVVQQFGIPHLFDLPIRPTLSASG 257
+YYP S ++ Q LFD PI P L ASG
Sbjct: 172 KYYPLSSMSDAEQQQLIDDHFLFDKPISPLLLASG 206
>pdb|1EFN|B Chain B, Hiv-1 Nef Protein In Complex With R96i Mutant Fyn Sh3
Domain
pdb|1EFN|D Chain D, Hiv-1 Nef Protein In Complex With R96i Mutant Fyn Sh3
Domain
Length = 152
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 20/41 (48%)
Query: 319 FLHPATVRRNDRSAQSVDEWTGDQKLQYTDVPEDIEPEEIR 359
LHP ++ D + V EW D +L + V ++ PE +
Sbjct: 111 LLHPVSLHGMDDPEREVLEWRFDSRLAFHHVARELHPEYFK 151
>pdb|2X8S|A Chain A, Crystal Structure Of The Abn2 D171a Mutant In Complex With
Arabinotriose
pdb|2X8S|B Chain B, Crystal Structure Of The Abn2 D171a Mutant In Complex With
Arabinotriose
Length = 470
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 48/130 (36%), Gaps = 15/130 (11%)
Query: 134 PMVSGVINQLLTTTEWGELDYL----VIDMPPGTGDIQLTLCQ------VVPLTAAVIVT 183
P++ V +L T EW + D L V + G + C+ + + A +
Sbjct: 78 PLIPNVYEELKETFEWAQSDTLWAADVTQLADGKYYMYYNACRGDSPRSAMGVAVADNIE 137
Query: 184 TPQKLAFIDVAKGVRMFSKLKVPCIA-----VVENMCHFDADGKRYYPFGRGSGSQVVQQ 238
P K I + G+ S P A VV FD DGK + +G SG + +
Sbjct: 138 GPYKNKGIFLKSGMEGTSSDGTPYDATKHPNVVAPHTFFDKDGKLWMVYGSYSGGIFILE 197
Query: 239 FGIPHLFDLP 248
F LP
Sbjct: 198 MNPKTGFPLP 207
>pdb|1CP2|A Chain A, Nitrogenase Iron Protein From Clostridium Pasteurianum
pdb|1CP2|B Chain B, Nitrogenase Iron Protein From Clostridium Pasteurianum
Length = 269
Score = 28.5 bits (62), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 42/170 (24%), Positives = 76/170 (44%), Gaps = 28/170 (16%)
Query: 53 KGGVGKSTVAVNLAYTLAGMGARVGIFDADVYGPSLPTMVS--PENRLLEM------NPE 104
KGG+GKST NL L MG + + D S ++ + +L+ + E
Sbjct: 9 KGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKADSTRLLLGGLAQKSVLDTLREEGEDVE 68
Query: 105 KRTIIPTEYLGVKLVSFGFSGQGRAIM-RGPMVS-GVINQLLTTTEWGELDYLVIDMPPG 162
+I+ Y G++ V G G RG + S ++ QL T+ +LDY+ D+
Sbjct: 69 LDSILKEGYGGIRCVESGGPEPGVGCAGRGIITSINMLEQLGAYTD--DLDYVFYDV--- 123
Query: 163 TGDIQLTLCQ--VVPLTAA-----VIVTTPQKLAFI---DVAKGVRMFSK 202
GD+ +C +P+ IV + + +A +++KG++ ++K
Sbjct: 124 LGDV---VCGGFAMPIREGKAQEIYIVASGEMMALYAANNISKGIQKYAK 170
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
0.319 0.136 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,154,526
Number of Sequences: 62578
Number of extensions: 525555
Number of successful extensions: 1330
Number of sequences better than 100.0: 44
Number of HSP's better than 100.0 without gapping: 39
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1276
Number of HSP's gapped (non-prelim): 50
length of query: 398
length of database: 14,973,337
effective HSP length: 101
effective length of query: 297
effective length of database: 8,652,959
effective search space: 2569928823
effective search space used: 2569928823
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)