RPSBLAST alignment for GI: 254780865 and conserved domain: TIGR01960

>gnl|CDD|131015 TIGR01960, ndhF3_CO2, NAD(P)H dehydrogenase, subunit NdhF3 family. This family represents a subfamily of NAD(P)H dehydrogenase subunit 5, or ndhF. It is restricted to two paralogs in each completed cyanobacterial genome, in which several subtypes of ndhF are found. Included in this family is NdhF3, shown to play a role in high-affinity CO2 uptake in Synechococcus sp. PCC7002. In all cases, neighboring genes include a paralog of ndhD but do include other NAD(P)H dehydrogenase subunits. Instead, genes related to C02 uptake tend to be found nearby. Length = 606
 Score =  208 bits (530), Expect = 6e-54
 Identities = 162/659 (24%), Positives = 289/659 (43%), Gaps = 74/659 (11%)

Query: 8   IVFLPLIGAVFSGFFG----RLMGKQFADIFTSLLMVIGAFLSWYVFYEIGFGHDVQVVK 63
           + F  LIGA+ S  +     R  G + A  F  L+  +    S      I       +V 
Sbjct: 12  VPFYGLIGALLSLPWSPGITRQTGPRPAGYFNLLMTFVAFVHSLLALQAIWSQPPQYLV- 70

Query: 64  REIFPWIIFDGLDIPWGLRIDTLSSVMFVVVNSISAVVHIYSIGYMHDDPHRPRFFSYLS 123
              + W+   GLD+ + L I ++S+   V++  ++ +  I+++GYM  D    RFF+ L 
Sbjct: 71  ---WHWLQAAGLDLTFALEISSVSTGALVLITGLNLLAQIFALGYMEKDWGLARFFALLG 127

Query: 124 FFTFAMLVLVSSDNLLQMFFGWEGVGLASYLLIGFWSFKESAIKASMKAFVVNRIGDLGL 183
            F   +  LV SD+L   +   E + L++YLLIGFW  +   +  +  AF+  R+GDL L
Sbjct: 128 LFEAGLGGLVLSDSLFFSYVLLEILTLSTYLLIGFWFAQPLVVTGARDAFLTKRVGDLIL 187

Query: 184 ILAISAIIYLFHSVDFDAVFQNASHYWKIGNSVSSGMVSHRSFSFFGIDVHPHDSIAIIC 243
           ++ + A+  L  S ++D + Q     W    +V+                       ++ 
Sbjct: 188 LMGVVALSPLAGSWNYDDLAQ-----WAATANVNPTT------------------ATLLG 224

Query: 244 LLFFLGAMGKSAQLLLHVWLPDAMEGPTPVSALIHAATMVTAGVFLVARMSPLFELSPFV 303
           L    G  GK AQ  LH+WL +AMEGP P S L   + +V  G +++ ++ P+  LSP  
Sbjct: 225 LALIAGPTGKCAQFPLHLWLDEAMEGPNPASIL-RNSVVVATGAWVLIKLQPVLTLSPVA 283

Query: 304 LDCITVLGCITAFFAATVGLVQHDIKRVIAYSTCSQLGYMFVALGCRAYGASIFHLFTHA 363
           L  +  +G +TA   + + + Q DIKR ++YS  + +G +F+A+G      ++  L THA
Sbjct: 284 LTALIAIGSVTAIGGSLIAIAQIDIKRALSYSVSAYMGLVFIAVGLGQGDLALLLLLTHA 343

Query: 364 FFKALLFLGSGSVIHAVAGEQDMRRMGGLYPHLPRTCWMMIVGTLALTGFGIPETSIGFS 423
             KALLF+  GS+I      QD+  +GGL+   P +    +VG+  L             
Sbjct: 344 IAKALLFMSIGSIIWNTVT-QDLTELGGLWSRRPISGLSFVVGSAGLIAV------PPLG 396

Query: 424 GFFSKDIILEVAYTSSHFTFVFFLLLFAAFLTSFYSWRLMFLTFFGKMRVDKDISHKIHE 483
            F++   + +  + +S   ++  +LL    LT+F   R+  L F G+    K ++ +  E
Sbjct: 397 SFWAWLKLADGLWATS--PWLVGVLLVVNLLTAFNLTRVFRLVFGGEA---KPMTRRSPE 451

Query: 484 SPLVMQIPLFILAIGSIFFGFIFHDVFFGSAYSSFWKGALFASSSNNVLERYHEVPLWVE 543
               M +P+ +L    +    I         ++                     +   V 
Sbjct: 452 VFWPMALPMVVLIGLVLHLPLILQQWSLLPDWAQ--------------------INWAVV 491

Query: 544 YSSFIAFFVGFFSAFLMYIICPSLPKFLSEKCRFFYCFLQNAWYFDRIYDCLLVRPIVRL 603
               ++  +G      +Y +  ++PK +    RF    L   +Y D++Y   +V  +  +
Sbjct: 492 ALLIVSGLLGIGLGSFIY-LGRAIPKPIRLPLRFVQDLLAYDFYTDKLYRATVVAAVASI 550

Query: 604 ATILWKRVDLSIDKYGPGGIVACVRYLSSYS-SRLQ---TGYLDHYAFSMLIGISILVI 658
           +     R+    D+    GIV  V  ++ +    L+   +G    Y  ++L+G++IL  
Sbjct: 551 S-----RISAWFDRTFVDGIVNLVGLVTLFGGEGLKYSVSGQSQFYLLTILLGVAILGA 604