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= 006829
(629 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2VC9|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
In Complex With 2-Acetamido-1,2-Dideoxynojirmycin
pdb|2VCA|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
In Complex With Beta-N-Acetyl-D-Glucosamine
pdb|2VCB|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
In Complex With Pugnac
pdb|2VCC|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
Length = 891
Score = 276 bits (705), Expect = 3e-74, Method: Compositional matrix adjust.
Identities = 180/625 (28%), Positives = 290/625 (46%), Gaps = 49/625 (7%)
Query: 2 ALQGINLPLAFNGQEAIWQKVFMNFNVTMEDLNDFFSGPAFLAWARMGNLHGWGGPLAQN 61
A+ G+NL L GQE + ++ F + E++ +F SGPA+ AW M N+ G+GGPL +
Sbjct: 298 AMNGVNLVLDIIGQEEVLRRTLNEFGYSDEEVKEFISGPAYFAWFYMQNMTGFGGPLPND 357
Query: 62 WLNQQLVLQKKIVSRMLELGMTPVLPSFAGNVPAALKKIFPSANITRLGDWNTVDRNPRW 121
W Q+ L +K+ RM G+ PVL ++G VP K+ A G W DR P
Sbjct: 358 WFEQRAELGRKMHDRMQSFGINPVLQGYSGMVPRDFKEKNQEAQTISQGGWCGFDR-PDM 416
Query: 122 CCTYLLDPTDPLFVEIGEAFIKQQILEYGDVTDIYNCDTFNENTPPTNDTNYISSLGAAV 181
TY+ + F ++ + F ++Q +GDVT+ Y D F+E + N + +
Sbjct: 417 LKTYVNEGEADYFQKVADVFYEKQKEVFGDVTNFYGVDPFHEGGNTGDLDN--GKIYEII 474
Query: 182 YKAMSEGDKDAVWLMQGWLFYSDSAFWKPPQMKALLHSVPLGKMIVLDLFAEVKPIWRTS 241
M E D DAVW++Q W P L + +VLDLF+EV P W
Sbjct: 475 QNKMIEHDNDAVWVIQNWQ--------GNPSNNKLEGLTKKDQAMVLDLFSEVSPDWNRL 526
Query: 242 SQFYGAPYVWCMLHNFGGNIEIYGILDSIASGPVDARVSENSTMVGVGMCMEGIEQNPVV 301
+ P++W MLHNFGG + + + +A+ + ++ + MVG+G+ E I NP+
Sbjct: 527 EE-RDLPWIWNMLHNFGGRMGMDAAPEKLAT-EIPKALANSEHMVGIGITPEAINTNPLA 584
Query: 302 YELMSEMAFRNEKVQVLEWLKTYAHRRYGKAVPEVEATWEILYHTVYNCTDGIADHNTDF 361
YEL+ +MA+ +++ W + Y RRYGK E+ W I+ T Y +
Sbjct: 585 YELLFDMAWTRDQINFRTWTEDYIERRYGKTNKEILEAWNIILDTAYKKRN--------- 635
Query: 362 IVKFPDWDPSLLSGSAISKRDQMHALHALPGPRRFLSEENSDMPQAHLWYSNQELIKGLK 421
G+A S ++A PG F + S + + Y E K ++
Sbjct: 636 ---------DYYQGAAES------IINARPG---FGIKSASTWGHSKIVYDKSEFEKAIE 677
Query: 422 LFLNAGNALAGCATYRYDLVDITRQALSKLANQVYMDAVIAFQHKDASAFNIHSQKFLQL 481
+F + + YD DI +Q L+ A + Y A+ + + F S KFL+L
Sbjct: 678 IFAKNYDEFKDSDAFLYDFADILKQLLANSAQEYYEVMCNAYNNGNGEKFKFVSGKFLEL 737
Query: 482 IKDIDELLASNDNFLLGTWLESAKKLATNPSEMIQ--YEYNARTQVTMWYDTNITTQSKL 539
IK + +L++ FL+G W+E A+ + + + + +E+NAR VT W N L
Sbjct: 738 IKLQERVLSTRPEFLIGNWIEDARTMLKDSDDWTKDLFEFNARALVTTWGSRNNADGGGL 797
Query: 540 HDYANKFWSGLLVDYYLPRASTYFDYMSKSLREKSEF-QVDRWRQQWVFISISWQSNWKT 598
DY+N+ WSGL DYY R + + + L ++ +D W + W +
Sbjct: 798 KDYSNRQWSGLTEDYYYARWEKWINGLQAELDGGAKAPNID-----WFKMEYDWVNKKSD 852
Query: 599 GTKNYPIRAKGDSIA-IAKVLYDKY 622
K YP A +++ +AK+ + Y
Sbjct: 853 TDKLYPTEASNENLGELAKIAMESY 877
>pdb|4A4A|A Chain A, Cpgh89 (E483q, E601q), From Clostridium Perfringens, In
Complex With Its Substrate Glcnac-Alpha-1,4-Galactose
Length = 914
Score = 273 bits (699), Expect = 2e-73, Method: Compositional matrix adjust.
Identities = 178/625 (28%), Positives = 290/625 (46%), Gaps = 49/625 (7%)
Query: 2 ALQGINLPLAFNGQEAIWQKVFMNFNVTMEDLNDFFSGPAFLAWARMGNLHGWGGPLAQN 61
A+ G+NL L GQE + ++ F + E++ +F SGPA+ AW M N+ G+GGPL +
Sbjct: 321 AMNGVNLVLDIIGQEEVLRRTLNEFGYSDEEVKEFISGPAYFAWFYMQNMTGFGGPLPND 380
Query: 62 WLNQQLVLQKKIVSRMLELGMTPVLPSFAGNVPAALKKIFPSANITRLGDWNTVDRNPRW 121
W Q+ L +K+ RM G+ PVL ++G VP K+ A G W DR P
Sbjct: 381 WFEQRAELGRKMHDRMQSFGINPVLQGYSGMVPRDFKEKNQEAQTISQGGWCGFDR-PDM 439
Query: 122 CCTYLLDPTDPLFVEIGEAFIKQQILEYGDVTDIYNCDTFNENTPPTNDTNYISSLGAAV 181
TY+ + F ++ + F ++Q +GDVT+ Y D F++ + N + +
Sbjct: 440 LKTYVNEGEADYFQKVADVFYEKQKEVFGDVTNFYGVDPFHQGGNTGDLDN--GKIYEII 497
Query: 182 YKAMSEGDKDAVWLMQGWLFYSDSAFWKPPQMKALLHSVPLGKMIVLDLFAEVKPIWRTS 241
M E D DAVW++Q W P L + +VLDLF+EV P W
Sbjct: 498 QNKMIEHDNDAVWVIQNWQ--------GNPSNNKLEGLTKKDQAMVLDLFSEVSPDWNRL 549
Query: 242 SQFYGAPYVWCMLHNFGGNIEIYGILDSIASGPVDARVSENSTMVGVGMCMEGIEQNPVV 301
+ P++W MLHNFGG + + + +A+ + ++ + MVG+G+ + I NP+
Sbjct: 550 EE-RDLPWIWNMLHNFGGRMGMDAAPEKLAT-EIPKALANSEHMVGIGITPQAINTNPLA 607
Query: 302 YELMSEMAFRNEKVQVLEWLKTYAHRRYGKAVPEVEATWEILYHTVYNCTDGIADHNTDF 361
YEL+ +MA+ +++ W + Y RRYGK E+ W I+ T Y +
Sbjct: 608 YELLFDMAWTRDQINFRTWTEDYIERRYGKTNKEILEAWNIILDTAYKKRN--------- 658
Query: 362 IVKFPDWDPSLLSGSAISKRDQMHALHALPGPRRFLSEENSDMPQAHLWYSNQELIKGLK 421
G+A S ++A PG F + S + + Y E K ++
Sbjct: 659 ---------DYYQGAAES------IINARPG---FGIKSASTWGHSKIVYDKSEFEKAIE 700
Query: 422 LFLNAGNALAGCATYRYDLVDITRQALSKLANQVYMDAVIAFQHKDASAFNIHSQKFLQL 481
+F + + YD DI +Q L+ A + Y A+ + + F S KFL+L
Sbjct: 701 IFAKNYDEFKDSDAFLYDFADILKQLLANSAQEYYEVMCNAYNNGNGEKFKFVSGKFLEL 760
Query: 482 IKDIDELLASNDNFLLGTWLESAKKLATNPSEMIQ--YEYNARTQVTMWYDTNITTQSKL 539
IK + +L++ FL+G W+E A+ + + + + +E+NAR VT W N L
Sbjct: 761 IKLQERVLSTRPEFLIGNWIEDARTMLKDSDDWTKDLFEFNARALVTTWGSRNNADGGGL 820
Query: 540 HDYANKFWSGLLVDYYLPRASTYFDYMSKSLREKSEF-QVDRWRQQWVFISISWQSNWKT 598
DY+N+ WSGL DYY R + + + L ++ +D W + W +
Sbjct: 821 KDYSNRQWSGLTEDYYYARWEKWINGLQAELDGGAKAPNID-----WFKMEYDWVNKKSD 875
Query: 599 GTKNYPIRAKGDSIA-IAKVLYDKY 622
K YP A +++ +AK+ + Y
Sbjct: 876 TDKLYPTEASNENLGELAKIAMESY 900
>pdb|1D5R|A Chain A, Crystal Structure Of The Pten Tumor Suppressor
Length = 324
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 39/85 (45%), Gaps = 13/85 (15%)
Query: 434 ATYRYDLVDITRQALSKLANQVYMDAVIAFQHKDASAFNI---------HSQKFLQLIK- 483
YR ++ D+ R SK N + + A +H D + FN H+ L+LIK
Sbjct: 38 GVYRNNIDDVVRFLDSKHKNHYKIYNLCAERHYDTAKFNCRVAQYPFEDHNPPQLELIKP 97
Query: 484 ---DIDELLASNDNFLLGTWLESAK 505
D+D+ L+ +DN + ++ K
Sbjct: 98 FCEDLDQWLSEDDNHVAAIHCKAGK 122
>pdb|3G5W|A Chain A, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
Europaea
pdb|3G5W|B Chain B, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
Europaea
pdb|3G5W|C Chain C, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
Europaea
pdb|3G5W|D Chain D, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
Europaea
pdb|3G5W|E Chain E, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
Europaea
pdb|3G5W|F Chain F, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
Europaea
Length = 318
Score = 28.9 bits (63), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 25/60 (41%), Gaps = 6/60 (10%)
Query: 498 GTW----LESAKKLATNPSEMIQYEYNARTQVTMWYDTNITTQSKLHDYANKFWSGLLVD 553
GTW + A + A P + Y++ A TMWY ++ H W L+V+
Sbjct: 67 GTWQSDGVPHATQHAIEPGDTFTYKFKAEPAGTMWYHCHVNVNE--HVTMRGMWGPLIVE 124
>pdb|3FBU|A Chain A, The Crystal Structure Of The Acetyltransferase (gnat
Family) From Bacillus Anthracis
pdb|3FBU|B Chain B, The Crystal Structure Of The Acetyltransferase (gnat
Family) From Bacillus Anthracis
Length = 168
Score = 28.9 bits (63), Expect = 9.6, Method: Composition-based stats.
Identities = 10/32 (31%), Positives = 19/32 (59%)
Query: 595 NWKTGTKNYPIRAKGDSIAIAKVLYDKYFGQQ 626
N KN+P+ G++I + +++ KYFG+
Sbjct: 51 NMGENAKNFPVILIGENILVGHIVFHKYFGEH 82
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 0.135 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,976,126
Number of Sequences: 62578
Number of extensions: 858730
Number of successful extensions: 1770
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1752
Number of HSP's gapped (non-prelim): 11
length of query: 629
length of database: 14,973,337
effective HSP length: 105
effective length of query: 524
effective length of database: 8,402,647
effective search space: 4402987028
effective search space used: 4402987028
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)