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= psy11347
(294 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PH1|A Chain A, Crystal Structure Of Nucleotide-Binding Protein Af2382
From Archaeoglobus Fulgidus, Northeast Structural
Genomics Target Gr165
Length = 262
Score = 145 bits (366), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 85/214 (39%), Positives = 121/214 (56%), Gaps = 9/214 (4%)
Query: 63 TFTNLLARVLAKSNESVDVGVLDLDICGPSMPRMMGLLNEQVHQSASGWSPVFLEE-NLS 121
T T LLA A+ + V G+LD D GPS+P + GL N ++ SA G PV ++ +
Sbjct: 34 TVTALLAVHYARQGKKV--GILDADFLGPSIPILFGLRNARIAVSAEGLEPVLTQKYGIK 91
Query: 122 VMSIGFLLNSPDDAVIWRGPKKNTMIRQFLSEVDWGNGLEYLLIDTPPGTSDEHLSLVQY 181
V S FLL + VIWRGP IR+FL V WG L++LLID PPGT D L++ Q
Sbjct: 92 VXSXQFLLPKENTPVIWRGPLIAGXIREFLGRVAWGE-LDHLLIDLPPGTGDAPLTVXQD 150
Query: 182 LKGLPDIGAIVVTTPQEVSLLDVRKEIDFCRKVNIPIIGVVENMATFVCPKCTKPSEIFP 241
K G +VV+TPQE++ + V K I+ + N ++G+VEN + FVCP C S IF
Sbjct: 151 AK---PTGVVVVSTPQELTAVIVEKAINXAEETNTSVLGLVENXSYFVCPNCGHKSYIFG 207
Query: 242 KDSGGAEKMCAELSVPFLGSVPIDPLVTRHCDEG 275
+ G E + + ++ F S+PI+ + + D G
Sbjct: 208 EGKG--ESLAKKYNIGFFTSIPIEEELIKLADSG 239
>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 = 139 bits (351), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 85/214 (39%), Positives = 118/214 (55%), Gaps = 9/214 (4%)
Query: 63 TFTNLLARVLAKSNESVDVGVLDLDICGPSMPRMMGLLNEQVHQSASGWSPVFLEE-NLS 121
T T LLA AK + V G+LD D GPS+P + GL +V S G PV + +
Sbjct: 34 TVTALLAVHYAKQGKKV--GILDADFLGPSIPHLFGLEKGKVAVSDEGLEPVLTQRLGIK 91
Query: 122 VMSIGFLLNSPDDAVIWRGPKKNTMIRQFLSEVDWGNGLEYLLIDTPPGTSDEHLSLVQY 181
V SI FLL + VIWRGP IR+FL V WG L+YLLID PPGT D L++ Q
Sbjct: 92 VXSIQFLLPKRETPVIWRGPLIAGXIREFLGRVAWGE-LDYLLIDLPPGTGDAPLTVXQD 150
Query: 182 LKGLPDIGAIVVTTPQEVSLLDVRKEIDFCRKVNIPIIGVVENMATFVCPKCTKPSEIFP 241
K P+ GA++V+TPQE++ V K I + ++G+VEN A F CP C + + +F
Sbjct: 151 AK--PN-GAVIVSTPQELTAAVVEKAITXAEQTKTAVLGIVENXAYFECPNCGERTYLF- 206
Query: 242 KDSGGAEKMCAELSVPFLGSVPIDPLVTRHCDEG 275
G A ++ + + F+ +PID + + D G
Sbjct: 207 -GEGKASELARKYKIEFITEIPIDSDLLKLSDLG 239
>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 = 74.3 bits (181), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 61/199 (30%), Positives = 99/199 (49%), Gaps = 18/199 (9%)
Query: 68 LARVLAKSNESVDVGVLDLDICGPSMPRMMGLLNEQVHQSASGWSPVFLEENLSVMSIGF 127
LA VLA+ V G+LDLD G S ++G ++ + G P + + M+I +
Sbjct: 40 LALVLAEKGYRV--GLLDLDFHGASDHVILGFEPKEFPEEDRGVVPPTVH-GIKFMTIAY 96
Query: 128 LLNSPDDAVIWRGPKKNTMIRQFLSEVDWGNGLEYLLIDTPPGTSDEHLSLVQYLKGLPD 187
+ D RG + + + + L+ W + L+YL+ID PPG D+ L ++++LK
Sbjct: 97 Y--TEDRPTPLRGKEISDALIELLTITRW-DELDYLVIDMPPGLGDQLLDVLRFLKRGE- 152
Query: 188 IGAIVVTTPQEVSLLDVRKEIDFCRKVNIPIIGVVENMATFVCPKCTKPSEIFPKDSGGA 247
+VV TP ++SL VRK I+ ++ +IGVVENM + ++ D
Sbjct: 153 --FLVVATPSKLSLNVVRKLIELLKEEGHKVIGVVENMK-------LRSEQL--DDEKDV 201
Query: 248 EKMCAELSVPFLGSVPIDP 266
EK+ E VP+L +P P
Sbjct: 202 EKLAEEFGVPYLVGIPFYP 220
>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 = 31.2 bits (69), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 53/122 (43%), Gaps = 17/122 (13%)
Query: 158 NGLEYLLIDTPPGTSDEHLSLVQYLKGLPDIGAIVVTTPQEVSLLDVRKEIDFCRKVNIP 217
+ +++LID P G + +S + L A++VT P+ L D K +K +
Sbjct: 110 DKFDFILIDCPAGLQLDAMSAM-----LSGEEALLVTNPEISCLTDTMKVGIVLKKAGLA 164
Query: 218 IIGVVENMATFVCPKCTKPSEIFPKDSGGAEKMCAELSVPFLGSVPIDPLVTRHCDEGTS 277
I+G FV + + P ++ AE + + VP L +P DP + EG
Sbjct: 165 ILG-------FVLNRYGRSDRDIPPEA--AEDV---MEVPLLAVIPEDPAIREGTLEGIP 212
Query: 278 AI 279
A+
Sbjct: 213 AV 214
>pdb|1ION|A Chain A, The Septum Site-Determining Protein Mind Complexed With
Mg-Adp From Pyrococcus Horikoshii Ot3
Length = 243
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 50/119 (42%), Gaps = 17/119 (14%)
Query: 161 EYLLIDTPPGTSDEHLSLVQYLKGLPDIGAIVVTTPQEVSLLDVRKEIDFCRKVNIPIIG 220
+++LID P G L L L AI+VT P+ L D K +K + I+G
Sbjct: 113 DFILIDCPAG-----LQLRAXSAXLSGEEAILVTNPEISCLTDTXKVGXVLKKAGLAILG 167
Query: 221 VVENMATFVCPKCTKPSEIFPKDSGGAEKMCAELSVPFLGSVPIDPLVTRHCDEGTSAI 279
F+ + + P ++ A+ + VP L +P DP++ EG A+
Sbjct: 168 -------FILNRYGRSERDIPPEA--AQDVX---DVPLLAVIPEDPVIREGTLEGIPAV 214
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
0.317 0.135 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,222,096
Number of Sequences: 62578
Number of extensions: 316871
Number of successful extensions: 629
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 614
Number of HSP's gapped (non-prelim): 6
length of query: 294
length of database: 14,973,337
effective HSP length: 98
effective length of query: 196
effective length of database: 8,840,693
effective search space: 1732775828
effective search space used: 1732775828
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)