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= 039990
(1217 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type Iii
Effector Xcv3220 (Xopl)
Length = 328
Score = 45.4 bits (106), Expect = 2e-04, Method: Composition-based stats.
Identities = 41/155 (26%), Positives = 65/155 (41%), Gaps = 35/155 (22%)
Query: 910 LESLSVQSCPSLTRL-------------------------WSSGR-LPVT------LKCI 937
L LS+++CP LT L W+ R LP + LK +
Sbjct: 152 LRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSL 211
Query: 938 QIEDCSNFKVLTSECQLSVAVEELTIDSCSNIESIAERFHDDACLRSIRLSYCKNLKSLP 997
+I + S L +EEL + C+ + + F A L+ + L C NL +LP
Sbjct: 212 KIRN-SPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLP 270
Query: 998 KGLNNLSHLHRRSIQGCHNLVSLPE--DALPSNVV 1030
++ L+ L + ++GC NL LP LP+N +
Sbjct: 271 LDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCI 305
Score = 33.1 bits (74), Expect = 0.89, Method: Composition-based stats.
Identities = 53/198 (26%), Positives = 77/198 (38%), Gaps = 28/198 (14%)
Query: 987 LSYCKN-LKSLPKGLNNLSHLHRRSIQGCHNLVSLPEDALPSNVVDVSIEDCDKLKAPLP 1045
L+ +N L++LP + +L+ L SI+ C L LPE P D S E
Sbjct: 132 LTLARNPLRALPASIASLNRLRELSIRACPELTELPE---PLASTDASGEH--------- 179
Query: 1046 TGKLSSLQLLTLIECPGIVFFPEEGLS-TNLTDLEISGDNIYKPLVKWG--FDKFSSLRK 1102
L +LQ L L E GI P + NL L+I PL G L +
Sbjct: 180 -QGLVNLQSLRL-EWTGIRSLPASIANLQNLKSLKIRN----SPLSALGPAIHHLPKLEE 233
Query: 1103 HCINRCSDAVSFPEVEKGVILPTSLTLIRISDFPKLERLSSKGFHYLLSLEQLKVSSCPN 1162
+ C+ ++P + G L L S+ L H L LE+L + C N
Sbjct: 234 LDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTL----PLDIHRLTQLEKLDLRGCVN 289
Query: 1163 FTSFPE--AGFPSSLLFL 1178
+ P A P++ + L
Sbjct: 290 LSRLPSLIAQLPANCIIL 307
Score = 30.8 bits (68), Expect = 5.0, Method: Composition-based stats.
Identities = 23/63 (36%), Positives = 28/63 (44%), Gaps = 2/63 (3%)
Query: 502 GC--LKCLPEAITSLFNLEILILSYCWCLLKLPSSIGNLVNLHHLDIEGADRLCELPLGM 559
GC L+ P L+ LIL C LL LP I L L LD+ G L LP +
Sbjct: 238 GCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLI 297
Query: 560 KEL 562
+L
Sbjct: 298 AQL 300
Score = 30.0 bits (66), Expect = 7.2, Method: Composition-based stats.
Identities = 30/107 (28%), Positives = 46/107 (42%), Gaps = 8/107 (7%)
Query: 659 SLP-SLGQLCSLKDLTIVGMSALKSVGSEIYGEGCSKPFRSLQTLYFEDLQEWEHWEPNR 717
+LP S+ L L++L+I L + + S + L L L+ W R
Sbjct: 141 ALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLE----WTGIR 196
Query: 718 ENDEHVQAFSHLRKLSIKRCPKLSGRLP--NHLPSLEEIVIAGCMHL 762
+ +L+ L I+ P LS P +HLP LEE+ + GC L
Sbjct: 197 SLPASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTAL 242
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 33.5 bits (75), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 46/107 (42%), Gaps = 17/107 (15%)
Query: 448 EVENLRTF---LPIFMEDFFISFCISPMVLSDLLPKCKKL---RVLSLEKDNIAEVPISI 501
++ NL+ F IF DF ++ L++L + K L RVL L + + +P +
Sbjct: 230 DLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAEL 289
Query: 502 GCLKCLPEAITSLFNLEILILSYCWCLLKLPSSIGNLVNLHHLDIEG 548
G S F L+ + + LP GNL NL L +EG
Sbjct: 290 G----------SCFQLKYFYF-FDNMVTTLPWEFGNLCNLQFLGVEG 325
>pdb|3SI2|A Chain A, Structure Of Glycosylated Murine Glutaminyl Cyclase In
Presence Of The Inhibitor Pq50 (Pdbd150)
Length = 327
Score = 31.2 bits (69), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 41/106 (38%), Gaps = 18/106 (16%)
Query: 610 NILDMLKPHCNIKRLEIISYGSTRFPSWVGDPSFSNVAVLKLENCDRCTSLPSLGQLCSL 669
NI+ L P + Y S FP W S V V ++ C + L +
Sbjct: 88 NIISTLNPEAKRHLVLACHYDSKYFPRWD-----SRVFVGATDSAVPCAMMLELARALDK 142
Query: 670 KDLTIVGMSALKSVGSEIYGEGCSKPFRSLQTLYFEDLQEWEHWEP 715
K + +LK V SKP SLQ ++F+ + + HW P
Sbjct: 143 K------LHSLKDVSG-------SKPDLSLQLIFFDGEEAFHHWSP 175
>pdb|1N26|A Chain A, Crystal Structure Of The Extra-Cellular Domains Of Human
Interleukin-6 Receptor Alpha Chain
Length = 325
Score = 31.2 bits (69), Expect = 3.8, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 2/71 (2%)
Query: 757 AGCMHLAVSLP-SLPALCTMEIDGCKRLVCD-GPSESKSLNEMALCNISKFENWSMENLV 814
AG +HL V +P P L +VC+ GP + SL A+ + KF+N E+
Sbjct: 84 AGTVHLLVDVPPEEPQLSCFRKSPLSNVVCEWGPRSTPSLTTKAVLLVRKFQNSPAEDFQ 143
Query: 815 RFGFYSVDTSK 825
YS ++ K
Sbjct: 144 EPCQYSQESQK 154
>pdb|3T6Q|A Chain A, Crystal Structure Of Mouse Rp105MD-1 Complex
pdb|3T6Q|B Chain B, Crystal Structure Of Mouse Rp105MD-1 Complex
Length = 606
Score = 30.8 bits (68), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 68/285 (23%), Positives = 111/285 (38%), Gaps = 41/285 (14%)
Query: 494 IAEVPISIGCLKCLPEAITSLFNLEILILSYCWCLLKLPSSIGNLVNLHHLDIEGADRLC 553
+ E+ ++ L LP + L L+ L+LS S N +L HL I+G +
Sbjct: 280 LQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRL 339
Query: 554 ELPLG-MKELKCLRTLTDFINVIDSQEANEAMLRGKKDLEVLKLVWSGGPVDELREKNIL 612
EL G ++ L+ LR L + I++ + LR L+ L L ++ P+ E
Sbjct: 340 ELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYN-EPLSLKTEA--- 395
Query: 613 DMLKPHCNIKRLEIISYGSTRFPSWVGDPSFSNVAVLKLENCDRCTSLPSLGQLCSLKDL 672
C +LE++ TR F N+ +LK+ N S QL
Sbjct: 396 ---FKEC--PQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFD---- 446
Query: 673 TIVGMSALKSVG--SEIYGEGCSKPFRSLQTL-------------------YFEDLQEWE 711
G+ AL+ + + +G + SLQTL F L+
Sbjct: 447 ---GLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMN 503
Query: 712 HWE--PNRENDEHVQAFSHLRKLSIKRCPK-LSGRLPNHLPSLEE 753
H + NR ++A SHL+ + + +S LP+ LP L +
Sbjct: 504 HVDLSHNRLTSSSIEALSHLKGIYLNLASNHISIILPSLLPILSQ 548
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 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 36,174,869
Number of Sequences: 62578
Number of extensions: 1509024
Number of successful extensions: 3580
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 3561
Number of HSP's gapped (non-prelim): 20
length of query: 1217
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1107
effective length of database: 8,089,757
effective search space: 8955360999
effective search space used: 8955360999
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: 57 (26.6 bits)