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= 018486
         (355 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|3T5O|A Chain A, Crystal Structure Of Human Complement Component C6
 pdb|4A5W|B Chain B, Crystal Structure Of C5b6
 pdb|4E0S|B Chain B, Crystal Structure Of C5b-6
          Length = 913

 Score = 38.1 bits (87), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 37/178 (20%), Positives = 81/178 (45%), Gaps = 34/178 (19%)

Query: 154 VPYSWDPPLLASFIENYGTHIVTSITIGG-RDVVY---IRQHQSSPLSMMDIENYVKDIG 209
           +P  ++  L +   +++GTH  TS ++GG  D++Y     + ++S L+  + ++ V+   
Sbjct: 324 LPLEYNSALYSRIFDDFGTHYFTSGSLGGVYDLLYQFSSEELKNSGLTEEEAKHCVRIET 383

Query: 210 DERFMDSK--------------SQSSAAPLKYKDKDVTVIFRRR-----------GGDDL 244
            +R + +K               +   + ++  +K +++I   R           G   L
Sbjct: 384 KKRVLFAKKTKVEHRCTTNKLSEKHEGSFIQGAEKSISLIRGGRSEYGAALAWEKGSSGL 443

Query: 245 EQ-SHAKWAETVQLAPDVINMTFTPIVSLLEGVPGI----KHLARAIELYLEYKPPIE 297
           E+ + ++W E+V+  P VI+    PIV L+  +P       +L +A++ Y     P +
Sbjct: 444 EEKTFSEWLESVKENPAVIDFELAPIVDLVRNIPCAVTKRNNLRKALQEYAAKFDPCQ 501


>pdb|3OJY|A Chain A, Crystal Structure Of Human Complement Component C8
          Length = 554

 Score = 33.5 bits (75), Expect = 0.19,   Method: Compositional matrix adjust.
 Identities = 16/48 (33%), Positives = 31/48 (64%), Gaps = 3/48 (6%)

Query: 138 KLAKLNLVLREEIRRAV---PYSWDPPLLASFIENYGTHIVTSITIGG 182
           K+ K +++L E + +++   P  ++  + A FI +YGTH +TS ++GG
Sbjct: 272 KMRKDDIMLDEGMLQSLMELPDQYNYGMYAKFINDYGTHYITSGSMGG 319


>pdb|2RD7|A Chain A, Human Complement Membrane Attack Proteins Share A Common
           Fold With Bacterial Cytolysins
          Length = 367

 Score = 33.5 bits (75), Expect = 0.20,   Method: Compositional matrix adjust.
 Identities = 16/48 (33%), Positives = 31/48 (64%), Gaps = 3/48 (6%)

Query: 138 KLAKLNLVLREEIRRAV---PYSWDPPLLASFIENYGTHIVTSITIGG 182
           K+ K +++L E + +++   P  ++  + A FI +YGTH +TS ++GG
Sbjct: 177 KMRKDDIMLDEGMLQSLMELPDQYNYGMYAKFINDYGTHYITSGSMGG 224


>pdb|2QQH|A Chain A, Structure Of C8a-Macpf Reveals Mechanism Of Membrane
           Attack In Complement Immune Defense
          Length = 334

 Score = 33.1 bits (74), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 16/48 (33%), Positives = 31/48 (64%), Gaps = 3/48 (6%)

Query: 138 KLAKLNLVLREEIRRAV---PYSWDPPLLASFIENYGTHIVTSITIGG 182
           K+ K +++L E + +++   P  ++  + A FI +YGTH +TS ++GG
Sbjct: 172 KMRKDDIMLDEGMLQSLMELPDQYNYGMYAKFINDYGTHYITSGSMGG 219


>pdb|3NSJ|A Chain A, The X-Ray Crystal Structure Of Lymphocyte Perforin
          Length = 540

 Score = 32.7 bits (73), Expect = 0.31,   Method: Compositional matrix adjust.
 Identities = 47/222 (21%), Positives = 99/222 (44%), Gaps = 56/222 (25%)

Query: 117 ADAAATKSLAMVGNFIS------LYKVKLAK---LNLVLREEIRRAVPYSWDPPLLASF- 166
           A+ AA K+     NF S      +Y  +L +   L+L  ++ +R A+P +++     ++ 
Sbjct: 134 ANFAAEKTYQDQYNFNSDTVECRMYSFRLVQKPPLHLDFKKALR-ALPRNFNSSTEHAYH 192

Query: 167 --IENYGTHIVTSITIGGRDVVYIRQHQSSPLSM-----------MDIENYVKDIGDERF 213
             I +YGTH +T++ +GGR +  +   ++  L++           +++E  V  IG +  
Sbjct: 193 ELISSYGTHFITAVDLGGR-ISVLTALRTCQLTLNGLTADEVGDCLNVEAQVS-IGAQAS 250

Query: 214 MDSKSQSSAAPLK-----------YKDKDVTVIFRRRGGDDLEQSH-------------A 249
           + S+ ++     K           Y+++ V V+     G  L+ +H             +
Sbjct: 251 VSSEYKACEEKKKQHKMATSFHQTYRERHVEVL-----GGPLDSTHDLLFGNQATPEQFS 305

Query: 250 KWAETVQLAPDVINMTFTPIVSLLEGV-PGIKHLARAIELYL 290
            W  ++   P +++ +  P+ +LLE   P  + L +AI  Y+
Sbjct: 306 TWTASLPSNPGLVDYSLEPLHTLLEEQNPKREALRQAISHYI 347


>pdb|3ZQS|A Chain A, Human Fancl Central Domain
 pdb|3ZQS|B Chain B, Human Fancl Central Domain
          Length = 186

 Score = 29.6 bits (65), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 21/58 (36%), Positives = 28/58 (48%), Gaps = 5/58 (8%)

Query: 263 NMTFTPIVSLLEGVPGIKHLARAIELYLEYKPPIEDLQYFLDYQIPRV--WAPQHSNI 318
           +  F+ I    E   G +HL   I L L+ K P E   YF+D+ +P    W PQ S I
Sbjct: 22  DTCFSTIKLKAEDASGREHL---ITLKLKAKYPAESPDYFVDFPVPFCASWTPQSSLI 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
   0.320    0.137    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,451,300
Number of Sequences: 62578
Number of extensions: 431561
Number of successful extensions: 793
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 787
Number of HSP's gapped (non-prelim): 7
length of query: 355
length of database: 14,973,337
effective HSP length: 100
effective length of query: 255
effective length of database: 8,715,537
effective search space: 2222461935
effective search space used: 2222461935
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: 52 (24.6 bits)